# hmmsearch :: search profile(s) against a sequence database
# HMMER 3.1b2 (February 2015); http://hmmer.org/
# Copyright (C) 2015 Howard Hughes Medical Institute.
# Freely distributed under the GNU General Public License (GPLv3).
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
# query HMM file: pfam_list/Trm112p.hmm.txt
# target sequence database: proteomes/Petromyzon_marinus.fasta
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: Trm112p [M=68]
Accession: PF03966.15
Description: Trm112p-like protein
Scores for complete sequences (score includes all domains):
--- full sequence --- --- best 1 domain --- -#dom-
E-value score bias E-value score bias exp N Sequence Description
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
1.9e-13 50.4 0.0 2.4e-13 50.0 0.0 1.2 1 tr|S4RJ54|S4RJ54_PETMA tRNA methyltransferase 11-2 homolog (
------ inclusion threshold ------
0.02 15.0 0.5 3.9 7.7 0.1 2.1 2 tr|S4RBH8|S4RBH8_PETMA Uncharacterized protein OS=Petromyzon
0.032 14.4 7.9 1.1 9.5 0.3 2.7 2 tr|S4RAA1|S4RAA1_PETMA Uncharacterized protein OS=Petromyzon
0.039 14.1 12.4 0.26 11.5 0.1 4.8 3 tr|S4RKN7|S4RKN7_PETMA PR domain containing 5 OS=Petromyzon
0.044 14.0 2.1 0.69 10.1 0.1 2.7 3 tr|S4RZQ5|S4RZQ5_PETMA Uncharacterized protein OS=Petromyzon
0.11 12.7 14.8 1.4e+04 -3.8 14.8 5.3 1 tr|S4RSZ2|S4RSZ2_PETMA Uncharacterized protein OS=Petromyzon
0.29 11.3 3.0 0.74 10.0 0.6 2.7 2 tr|S4RGW7|S4RGW7_PETMA Tripartite motif containing 59 OS=Pet
1.6 8.9 14.3 12 6.2 2.2 5.2 3 tr|S4R5M4|S4R5M4_PETMA Zinc finger protein 22 OS=Petromyzon
2.1 8.6 10.5 2 8.7 0.1 4.3 4 tr|S4RG83|S4RG83_PETMA Uncharacterized protein OS=Petromyzon
2.5 8.3 15.0 30 4.9 6.7 4.0 3 tr|S4RDD1|S4RDD1_PETMA Uncharacterized protein OS=Petromyzon
Domain annotation for each sequence (and alignments):
>> tr|S4RJ54|S4RJ54_PETMA tRNA methyltransferase 11-2 homolog (S. cerevisiae) OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 50.0 0.0 1.8e-16 2.4e-13 1 68 [] 2 112 .. 2 112 .. 0.95
Alignments for each domain:
== domain 1 score: 50.0 bits; conditional E-value: 1.8e-16
BTGGCCC-B-TTTHH.....C-..........................-HHHHHHHHH.TT---.S-SS----S...........CH CS
Trm112p 1 kllllniLaCpackg.....pL..........................dwealvevaa.lglne.lpkekpedy...........el 43
kll++n+L+++ +kg pL +w+al ++a+ g lp e +y ++
tr|S4RJ54|S4RJ54_PETMA 2 KLLTHNMLTSH-VKGvtkgfPLkitatevkvmnvdfnpefvarmipklEWPALCQAAEsIGHLNnLPLEVDPNYqgnedflkkvhHV 87
789********.********99************************************97766669999988889************ PP
HTTEECCCCEEEETTTTEEEEEETT CS
Trm112p 44 lleldieegeLvCpncgraYpIkdG 68
l+e++++eg+L+Cp+ gr +pI +G
tr|S4RJ54|S4RJ54_PETMA 88 LMEVEVVEGSLQCPESGRQFPITKG 112
**********************987 PP
>> tr|S4RBH8|S4RBH8_PETMA Uncharacterized protein OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 7.7 0.1 0.0029 3.9 26 63 .. 10 55 .. 4 56 .. 0.70
2 ? 5.9 0.1 0.01 14 6 17 .. 66 77 .. 61 85 .. 0.80
Alignments for each domain:
== domain 1 score: 7.7 bits; conditional E-value: 0.0029
HH.TT---S-SS----S.......CHHTTEECCCCEEEETTTTEEE CS
Trm112p 26 aa.lglnelpkekpedy.......ellleldieegeLvCpncgraY 63
aa ++ +e p+ pe+ ++l ++++ + ++ cg+++
tr|S4RBH8|S4RBH8_PETMA 10 AAgAQGAEKPASEPETTiscplclDELNQVHMSGRLMCSTVCGHVF 55
4445555666666666678889997788888877777778899998 PP
== domain 2 score: 5.9 bits; conditional E-value: 0.01
CC-B-TTTHHC- CS
Trm112p 6 niLaCpackgpL 17
++ +Cp+c+++L
tr|S4RBH8|S4RBH8_PETMA 66 SMAKCPFCRKKL 77
5789******99 PP
>> tr|S4RAA1|S4RAA1_PETMA Uncharacterized protein OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 9.5 0.3 0.00083 1.1 39 64 .. 18 39 .. 1 42 [. 0.65
2 ? 7.5 2.4 0.0035 4.7 7 61 .. 56 122 .. 53 123 .. 0.63
Alignments for each domain:
== domain 1 score: 9.5 bits; conditional E-value: 0.00083
--SCHHTTEECCCCEEEETTTTEEEE CS
Trm112p 39 edyellleldieegeLvCpncgraYp 64
e+ +++++++L C+ c+r +
tr|S4RAA1|S4RAA1_PETMA 18 EH----ATMHVDRETLECRVCRRKFS 39
22....348999***********995 PP
== domain 2 score: 7.5 bits; conditional E-value: 0.0035
C-B-TTTHHC-........-HHHHHHHHHTT---S-SS----S.................CHHTTEECCCCEEEETTTTE CS
Trm112p 7 iLaCpackgpL........dwealvevaalglnelpkekpedy.................ellleldieegeLvCpncgr 61
+L+C+ c ++L ++ ++ k+ + + +l+++ ++LvC+ cg+
tr|S4RAA1|S4RAA1_PETMA 56 VLSCNDCGKKLlsparlslH-----------YKNCKMRKSYAAcqvcgmavpkkmavvrrH--ARLHVDMEKLVCKVCGL 122
79999999988333333331...........333333333333556666666666777653..5699999********96 PP
>> tr|S4RKN7|S4RKN7_PETMA PR domain containing 5 OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 11.5 0.1 0.00019 0.26 36 67 .. 15 46 .. 2 46 .. 0.74
2 ? 5.3 0.5 0.017 23 5 63 .. 152 248 .. 112 250 .. 0.71
3 ? 1.0 1.9 0.38 5.1e+02 10 63 .. 291 354 .. 254 359 .. 0.59
Alignments for each domain:
== domain 1 score: 11.5 bits; conditional E-value: 0.00019
S----SCHHTTEECCCCEEEETTTTEEEEEET CS
Trm112p 36 ekpedyellleldieegeLvCpncgraYpIkd 67
+ e++++l++ ee + C++cg +p+k+
tr|S4RKN7|S4RKN7_PETMA 15 VLAEHVQTLHQRGPEEKDFRCRSCGKRFPVKQ 46
3455668999********************85 PP
== domain 2 score: 5.3 bits; conditional E-value: 0.017
CCC-B-TTTHH......C-....................-HHHHHHHHH.TT---.S-SS----S............CHHTTEECCC CS
Trm112p 5 lniLaCpackg......pL....................dwealvevaa.lglne.lpkekpedy............ellleldiee 51
++i C c + +L ++ l +va + + + ++++++ + +++ ee
tr|S4RKN7|S4RKN7_PETMA 152 HEIFDCQDCDKkfisanQLrrhmithsekrpfscevcgkSFKRLDQVAShKVIHSvDKPYTCKLCgkgfahrnvyknH--KKTHSEE 236
555555555553443333345555555555555555555445555666666666666677777668888888888662..57999** PP
CEEEETTTTEEE CS
Trm112p 52 geLvCpncgraY 63
++C++c+ +
tr|S4RKN7|S4RKN7_PETMA 237 RPFQCEECKALF 248
********9888 PP
== domain 3 score: 1.0 bits; conditional E-value: 0.38
-TTTHH......C--HHHHHHHHH.TT---S-SS----S..........CHHTTEECCCCEEEETTTTEEE CS
Trm112p 10 Cpackg......pLdwealvevaa.lglnelpkekpedy..........ellleldieegeLvCpncgraY 63
Cp+c + +L +++ + + ++++++ + ++++ e +C++c+ a+
tr|S4RKN7|S4RKN7_PETMA 291 CPYCGQkfasngTL-------RVHiRSHTGERPYQCQYCdkafskndglKMHIRTHTREKPYQCSECNKAF 354
55555533333333.......22222222233333332245566666663336666666666777777666 PP
>> tr|S4RZQ5|S4RZQ5_PETMA Uncharacterized protein OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 2.3 0.1 0.14 1.9e+02 51 63 .. 10 22 .. 7 23 .. 0.88
2 ? 2.2 0.2 0.16 2.1e+02 55 64 .. 49 58 .. 36 59 .. 0.80
3 ? 10.1 0.1 0.00051 0.69 9 59 .. 49 120 .. 48 123 .. 0.80
Alignments for each domain:
== domain 1 score: 2.3 bits; conditional E-value: 0.14
CCEEEETTTTEEE CS
Trm112p 51 egeLvCpncgraY 63
e+eL+C+ c + Y
tr|S4RZQ5|S4RZQ5_PETMA 10 EEELTCSICLHLY 22
89*******9998 PP
== domain 2 score: 2.2 bits; conditional E-value: 0.16
EETTTTEEEE CS
Trm112p 55 vCpncgraYp 64
Cp+c+r+ p
tr|S4RZQ5|S4RZQ5_PETMA 49 ACPECRRVLP 58
6999999865 PP
== domain 3 score: 10.1 bits; conditional E-value: 0.00051
B-TTTHH............C--HHHHHHHHH.TT---S-SS----S................CHHTTEECCCCEEEETTT CS
Trm112p 9 aCpackg............pLdwealvevaa.lglnelpkekpedy................ellleldieegeLvCpnc 59
aCp c+ +L ++ ++l+++ + +++ ++l +++e+g++vC++c
tr|S4RZQ5|S4RZQ5_PETMA 49 ACPECRRvlpfgskeemrkQL--------EKnFKLASIVDRFCSREkiphrgtpvfqcgqhgKALAMFCREHGAFVCTDC 120
799999966555555544444........6667788888888888899999999999*****99**************99 PP
>> tr|S4RSZ2|S4RSZ2_PETMA Uncharacterized protein OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? -3.8 14.8 10 1.4e+04 41 66 .. 52 89 .. 1 145 [. 0.76
Alignments for each domain:
== domain 1 score: -3.8 bits; conditional E-value: 10
S............CHHTTEECCCCEEEETTTTEEEEEE CS
Trm112p 41 y............ellleldieegeLvCpncgraYpIk 66
+ e+ + ++ ee++L++++ + Y I+
tr|S4RSZ2|S4RSZ2_PETMA 52 VlynneehvlynnEEQVLYNNEEQVLYNNEEHVLYNIE 89
13444333455554445567777777777777777776 PP
>> tr|S4RGW7|S4RGW7_PETMA Tripartite motif containing 59 OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? -0.5 0.1 1.1 1.4e+03 50 59 .. 4 13 .. 1 18 [. 0.72
2 ? 10.0 0.6 0.00055 0.74 8 59 .. 55 131 .. 54 134 .. 0.81
Alignments for each domain:
== domain 1 score: -0.5 bits; conditional E-value: 1.1
CCCEEEETTT CS
Trm112p 50 eegeLvCpnc 59
+e+ L+Cp c
tr|S4RGW7|S4RGW7_PETMA 4 LEEDLTCPVC 13
5777888877 PP
== domain 2 score: 10.0 bits; conditional E-value: 0.00055
-B-TTTHH............C--HHHHHHHHH.TT---S-SS----S............CHHTTEECCCCEEEETTT CS
Trm112p 8 LaCpackg............pLdwealvevaa.lglnelpkekpedy............ellleldieegeLvCpnc 59
L+Cp c++ pL ++ + v++ +++++l++e+ + l ++ ++ +LvC c
tr|S4RGW7|S4RGW7_PETMA 55 LKCPSCRHmfdmpsaglsylPLNYSLVAIVEKyRRQQKLQRERELAEsarppacaehseQPLNVYCLTDRTLVCGFC 131
89******************999999999999888888776665444578888888888445558888899999877 PP
>> tr|S4R5M4|S4R5M4_PETMA Zinc finger protein 22 OS=Petromyzon marinus OX=7757 GN=ZNF22 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 6.2 2.2 0.0088 12 45 63 .. 78 96 .. 2 99 .. 0.75
2 ? 3.1 0.2 0.083 1.1e+02 38 63 .. 117 152 .. 97 153 .. 0.62
3 ? -1.1 0.6 1.6 2.2e+03 63 63 .. 181 181 .. 162 210 .. 0.55
Alignments for each domain:
== domain 1 score: 6.2 bits; conditional E-value: 0.0088
TTEECCCCEEEETTTTEEE CS
Trm112p 45 leldieegeLvCpncgraY 63
+++ +e +L+C +cg +
tr|S4R5M4|S4R5M4_PETMA 78 QNTHTTEKSLTCDKCGKSF 96
3488889999999998877 PP
== domain 2 score: 3.1 bits; conditional E-value: 0.083
---S............CHHTTEECCCCEEEETTTTEEE CS
Trm112p 38 pedy............ellleldieegeLvCpncgraY 63
+e+ + +++ ++g+ vC +cg +
tr|S4R5M4|S4R5M4_PETMA 117 CEQCgkkfmmisylkiH--QKTHTLDGKHVCDECGKKF 152
33336666666666442..5688888999999999776 PP
== domain 3 score: -1.1 bits; conditional E-value: 1.6
E CS
Trm112p 63 Y 63
+
tr|S4R5M4|S4R5M4_PETMA 181 F 181
3 PP
>> tr|S4RG83|S4RG83_PETMA Uncharacterized protein OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? -0.6 0.1 1.1 1.5e+03 53 63 .. 63 73 .. 25 74 .. 0.73
2 ? 3.7 0.1 0.053 71 45 66 .. 146 167 .. 93 169 .. 0.72
3 ? -1.4 0.2 2.1 2.9e+03 56 63 .. 185 192 .. 176 193 .. 0.85
4 ? 8.7 0.1 0.0014 2 38 63 .. 226 250 .. 210 251 .. 0.71
Alignments for each domain:
== domain 1 score: -0.6 bits; conditional E-value: 1.1
EEEETTTTEEE CS
Trm112p 53 eLvCpncgraY 63
+ C cgra+
tr|S4RG83|S4RG83_PETMA 63 KHECGVCGRAF 73
44688888888 PP
== domain 2 score: 3.7 bits; conditional E-value: 0.053
TTEECCCCEEEETTTTEEEEEE CS
Trm112p 45 leldieegeLvCpncgraYpIk 66
+ + e + C cgr++ +k
tr|S4RG83|S4RG83_PETMA 146 ISAHASEKPFACDVCGRTFAVK 167
5567778888999999999987 PP
== domain 3 score: -1.4 bits; conditional E-value: 2.1
ETTTTEEE CS
Trm112p 56 CpncgraY 63
C +c+r+Y
tr|S4RG83|S4RG83_PETMA 185 CAECDRVY 192
9******9 PP
== domain 4 score: 8.7 bits; conditional E-value: 0.0014
---S....CHHTTEECCCCEEEETTTTEEE CS
Trm112p 38 pedy....ellleldieegeLvCpncgraY 63
++++ e + +e ++ Cp+cgra+
tr|S4RG83|S4RG83_PETMA 226 SQRPqlegE-----ETTEKVIECPECGRAF 250
444422243.....67889**********9 PP
>> tr|S4RDD1|S4RDD1_PETMA Uncharacterized protein OS=Petromyzon marinus OX=7757 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 4.9 6.7 0.022 30 7 63 .. 2 95 .. 1 96 [. 0.65
2 ? 3.1 0.1 0.081 1.1e+02 47 63 .. 106 122 .. 97 123 .. 0.81
3 ? 3.0 0.1 0.085 1.2e+02 47 63 .. 133 149 .. 124 150 .. 0.82
Alignments for each domain:
== domain 1 score: 4.9 bits; conditional E-value: 0.022
C-B-TTTHHC-...........................-HHHHHHHHH..TT---S-SS----S...........CHHTTEECCCCEEE CS
Trm112p 7 iLaCpackgpL...........................dwealvevaa..lglnelpkekpedy...........ellleldieegeLv 55
+L+Cp+ck L ++ +++ lg ++ + +++e+ e ++++e+ L
tr|S4RDD1|S4RDD1_PETMA 2 LLQCPLCKWVLishaalqdhmkqhgrqigveyfqcgwcSYSTYCRRTLthLGKKDYKCKRCERSytrlgalhthhE---RTHEEQKPLL 87
7999999997766666677777777777777777766644433333321344444455555555999999976542...58888899** PP
ETTTTEEE CS
Trm112p 56 CpncgraY 63
C++cg a+
tr|S4RDD1|S4RDD1_PETMA 88 CSECGEAF 95
******99 PP
== domain 2 score: 3.1 bits; conditional E-value: 0.081
EECCCCEEEETTTTEEE CS
Trm112p 47 ldieegeLvCpncgraY 63
+ e+ L C++cg a+
tr|S4RDD1|S4RDD1_PETMA 106 RSHEQKPLLCSECGEAF 122
55677889*******99 PP
== domain 3 score: 3.0 bits; conditional E-value: 0.085
EECCCCEEEETTTTEEE CS
Trm112p 47 ldieegeLvCpncgraY 63
+ e+ L C++cg a+
tr|S4RDD1|S4RDD1_PETMA 133 RSHEQKPLLCSECGEAF 149
55677889*******99 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (68 nodes)
Target sequences: 13539 (5048892 residues searched)
Passed MSV filter: 536 (0.0395893); expected 270.8 (0.02)
Passed bias filter: 418 (0.0308738); expected 270.8 (0.02)
Passed Vit filter: 54 (0.00398848); expected 13.5 (0.001)
Passed Fwd filter: 20 (0.00147721); expected 0.1 (1e-05)
Initial search space (Z): 13539 [actual number of targets]
Domain search space (domZ): 10 [number of targets reported over threshold]
# CPU time: 0.14u 0.00s 00:00:00.14 Elapsed: 00:00:00.05
# Mc/sec: 6866.49
//
[ok]