# 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/TYW3.hmm.txt
# target sequence database: proteomes/Danio_rerio.fasta
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: TYW3 [M=214]
Accession: PF02676.13
Description: Methyltransferase TYW3
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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
1.8e-59 201.2 1.0 3.5e-59 200.2 1.0 1.5 1 sp|Q6DHJ1|TYW3_DANRE tRNA wybutosine-synthesizing protein
6.7e-05 22.8 61.6 3.5 7.4 0.8 15.3 17 tr|F6PCI1|F6PCI1_DANRE Si:dkey-14d8.20 OS=Danio rerio OX=795
0.0022 17.9 41.5 4.3 7.1 0.2 10.0 11 tr|F1QTA3|F1QTA3_DANRE Si:dkey-21h14.12 OS=Danio rerio OX=79
Domain annotation for each sequence (and alignments):
>> sp|Q6DHJ1|TYW3_DANRE tRNA wybutosine-synthesizing protein 3 homolog OS=Danio rerio OX=7955 GN=tyw3 PE=2 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 200.2 1.0 4.1e-63 3.5e-59 3 213 .. 10 192 .. 7 193 .. 0.93
Alignments for each domain:
== domain 1 score: 200.2 bits; conditional E-value: 4.1e-63
HHHHHHHH....HHHHHCCHC-GGGHHHHHHHHC-SSEEEEEEES-EEEEE............EESSTT-STT-EEEEEESS---HHHH CS
TYW3 3 KakiLeeLsvpdtdkspkGsvDekirelideinsledlvTtSSCsGRvsvflegrksaeaeekaaksggkkgggkwlfvsHdpvkeeel 91
K+++L++ +d s+kGsvDe+i ++++ ins+++++TtSSCsGR+ +f ++ ++ + +k++++wlfv+H++++ e++
sp|Q6DHJ1|TYW3_DANRE 10 KNQCLNK-----CDFSKKGSVDEDISHVVSFINSQDRYFTTSSCSGRIILF---------DAVSDCPDVQKQNCSWLFVTHQKCQMEDV 84
4555554.....8**************************************.........56677788888999*************** PP
HHHHCS--..............SSEEEEEEE--EEEEEESSHHHHHHHHHHHHHCT-TT-EEEEECTTEEEEEEE---EEEEEEESST. CS
TYW3 92 laelegleeeeesaksseseeeerlivfkfePmILhvlcrslehAqkllsaAlsaGfreSGivslkkkkvivairsglklevpigrkk. 179
++ le++ + +fkfeP++Lhv+c++le+Aq l+++A+++Gfr+SGi+ kk+k+i+a+rs+++levp+++++
sp|Q6DHJ1|TYW3_DANRE 85 VRGLEKSV---------------GDATFKFEPFVLHVQCKQLEDAQLLHTVAINSGFRNSGITVGKKGKIIMAVRSTHCLEVPLSHRSh 158
***99996...............6789**********************************************************6566 PP
S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHC- CS
TYW3 180 llvseeylkllvklanerfeenkkrierfeealk 213
+lv+++yl++lv +an+++een kri+rf+e l+
sp|Q6DHJ1|TYW3_DANRE 159 VLVTHQYLDFLVGVANQKMEENLKRIQRFSECLQ 192
******************************9997 PP
>> tr|F6PCI1|F6PCI1_DANRE Si:dkey-14d8.20 OS=Danio rerio OX=7955 GN=si:dkey-14d8.20 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 3.5 0.1 0.0063 54 45 54 .. 32 41 .. 26 83 .. 0.81
2 ? 0.4 0.1 0.056 4.8e+02 45 58 .. 140 153 .. 134 200 .. 0.73
3 ? 1.1 0.1 0.034 2.9e+02 45 54 .. 243 252 .. 241 285 .. 0.88
4 ! 6.7 0.2 0.00065 5.6 45 59 .. 328 348 .. 326 385 .. 0.74
5 ! 7.1 0.1 0.00052 4.4 45 103 .. 430 509 .. 427 526 .. 0.65
6 ! 5.1 0.1 0.0021 18 45 58 .. 531 544 .. 523 594 .. 0.77
7 ? 0.9 0.1 0.039 3.3e+02 46 58 .. 635 647 .. 633 691 .. 0.75
8 ! 5.5 0.1 0.0016 14 43 53 .. 744 754 .. 740 788 .. 0.87
9 ! 4.5 0.1 0.0033 28 45 56 .. 849 860 .. 842 915 .. 0.82
10 ? -1.6 0.0 0.23 2e+03 45 55 .. 952 962 .. 950 982 .. 0.82
11 ? -1.8 0.0 0.27 2.3e+03 45 54 .. 1176 1185 .. 1175 1201 .. 0.86
12 ? -0.2 0.1 0.087 7.4e+02 46 54 .. 1278 1286 .. 1272 1326 .. 0.81
13 ? 2.2 0.1 0.016 1.4e+02 46 95 .. 1380 1452 .. 1377 1477 .. 0.75
14 ! 5.0 0.3 0.0022 19 44 55 .. 1581 1592 .. 1576 1710 .. 0.82
15 ! 4.6 0.4 0.0029 25 45 58 .. 1792 1805 .. 1789 1875 .. 0.72
16 ? -1.9 0.1 0.29 2.5e+03 45 57 .. 1891 1903 .. 1888 1940 .. 0.80
17 ! 7.4 0.8 0.00041 3.5 43 59 .. 1992 2030 .. 1990 2128 .. 0.74
Alignments for each domain:
== domain 1 score: 3.5 bits; conditional E-value: 0.0063
EES-EEEEE. CS
TYW3 45 SCsGRvsvfl 54
SCsGRv vf+
tr|F6PCI1|F6PCI1_DANRE 32 SCSGRVEVFF 41
9********5 PP
== domain 2 score: 0.4 bits; conditional E-value: 0.056
EES-EEEEE..... CS
TYW3 45 SCsGRvsvflegrk 58
CsGRv v+ +g+
tr|F6PCI1|F6PCI1_DANRE 140 PCSGRVEVLNDGQW 153
6********88875 PP
== domain 3 score: 1.1 bits; conditional E-value: 0.034
EES-EEEEE. CS
TYW3 45 SCsGRvsvfl 54
SCsGRv ++
tr|F6PCI1|F6PCI1_DANRE 243 SCSGRVEIYY 252
9*******94 PP
== domain 4 score: 6.7 bits; conditional E-value: 0.00065
EES-EEEEE............ CS
TYW3 45 SCsGRvsvflegrk......s 59
SCsGRv vf++g+ +
tr|F6PCI1|F6PCI1_DANRE 328 SCSGRVEVFFDGQWgtvcddN 348
9*********99975565541 PP
== domain 5 score: 7.1 bits; conditional E-value: 0.00052
EES-EEEEE..................................EESSTT-STT-EEEEEESS---HHHHHHHHCS--.... CS
TYW3 45 SCsGRvsvflegrk......................saeaeekaaksggkkgggkwlfvsHdpvkeeellaelegleeeee 103
SCsGRv vfl ++ ++a++k++ g+ g+g+ + + + v +e++l+ e+l+++++
tr|F6PCI1|F6PCI1_DANRE 430 SCSGRVEVFLHSQWatvyddgwdlsdaavvcremgcGDAAQAKSNAYFGQ-GTGQTYMSNVNCVGNESSLSVCESLKPKST 509
9********87766788888888887777777776532333333333333.445556666666666666666666665554 PP
== domain 6 score: 5.1 bits; conditional E-value: 0.0021
EES-EEEEE..... CS
TYW3 45 SCsGRvsvflegrk 58
SCsGRv vf g+
tr|F6PCI1|F6PCI1_DANRE 531 SCSGRVEVFYSGQW 544
9********88875 PP
== domain 7 score: 0.9 bits; conditional E-value: 0.039
ES-EEEEE..... CS
TYW3 46 CsGRvsvflegrk 58
CsGRv v+l+g+
tr|F6PCI1|F6PCI1_DANRE 635 CSGRVEVLLNGQW 647
********99986 PP
== domain 8 score: 5.5 bits; conditional E-value: 0.0016
EEEES-EEEEE CS
TYW3 43 tSSCsGRvsvf 53
+SSCsGRv v+
tr|F6PCI1|F6PCI1_DANRE 744 SSSCSGRVQVL 754
6*********9 PP
== domain 9 score: 4.5 bits; conditional E-value: 0.0033
EES-EEEEE... CS
TYW3 45 SCsGRvsvfleg 56
SCsGRv vf +g
tr|F6PCI1|F6PCI1_DANRE 849 SCSGRVEVFHNG 860
9********766 PP
== domain 10 score: -1.6 bits; conditional E-value: 0.23
EES-EEEEE.. CS
TYW3 45 SCsGRvsvfle 55
SCsG v+vf +
tr|F6PCI1|F6PCI1_DANRE 952 SCSGTVAVFHN 962
9********43 PP
== domain 11 score: -1.8 bits; conditional E-value: 0.27
EES-EEEEE. CS
TYW3 45 SCsGRvsvfl 54
CsGRv ++l
tr|F6PCI1|F6PCI1_DANRE 1176 ACSGRVEIYL 1185
5******995 PP
== domain 12 score: -0.2 bits; conditional E-value: 0.087
ES-EEEEE. CS
TYW3 46 CsGRvsvfl 54
CsGRv +f
tr|F6PCI1|F6PCI1_DANRE 1278 CSGRVEIFH 1286
********3 PP
== domain 13 score: 2.2 bits; conditional E-value: 0.016
ES-EEEEE...................................EESSTT-STT-EEEEEESS---HHHHHHHH CS
TYW3 46 CsGRvsvflegrk.......................saeaeekaaksggkkgggkwlfvsHdpvkeeellael 95
CsGRv v+ +g ++ + ++++ +k++g+ w + s + +e +l + +
tr|F6PCI1|F6PCI1_DANRE 1380 CSGRVEVLYDGYGwgtvyndgwnllggdvickqlscGTALSVTNRSFLKKGKGSIWTYNSACTGTEISLKSCI 1452
********99998899999999999998888888886667777777888888888888776555555555554 PP
== domain 14 score: 5.0 bits; conditional E-value: 0.0022
EEES-EEEEE.. CS
TYW3 44 SSCsGRvsvfle 55
SSCsGRv v+ +
tr|F6PCI1|F6PCI1_DANRE 1581 SSCSGRVEVLRN 1592
9********933 PP
== domain 15 score: 4.6 bits; conditional E-value: 0.0029
EES-EEEEE..... CS
TYW3 45 SCsGRvsvflegrk 58
SCsGRv vf g+
tr|F6PCI1|F6PCI1_DANRE 1792 SCSGRVEVFDKGQW 1805
9********65554 PP
== domain 16 score: -1.9 bits; conditional E-value: 0.29
EES-EEEEE.... CS
TYW3 45 SCsGRvsvflegr 57
CsGRv v ++g
tr|F6PCI1|F6PCI1_DANRE 1891 PCSGRVEVRFNGV 1903
5******987775 PP
== domain 17 score: 7.4 bits; conditional E-value: 0.00041
EEEES-EEEEE............................ CS
TYW3 43 tSSCsGRvsvflegrk......................s 59
+SSCsGRv v+ +g+
tr|F6PCI1|F6PCI1_DANRE 1992 SSSCSGRVEVLHNGTWgtvcddgwdlqdakvvcgeigcG 2030
6**********8887677777766666666666655552 PP
>> tr|F1QTA3|F1QTA3_DANRE Si:dkey-21h14.12 OS=Danio rerio OX=7955 GN=si:dkey-21h14.12 PE=4 SV=2
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 2.3 0.0 0.015 1.3e+02 43 58 .. 28 43 .. 23 81 .. 0.81
2 ? 2.8 0.2 0.01 89 38 59 .. 124 153 .. 117 219 .. 0.70
3 ! 6.9 0.3 0.00059 5.1 44 57 .. 233 246 .. 227 308 .. 0.86
4 ? -0.5 0.1 0.11 9.5e+02 40 56 .. 330 346 .. 327 421 .. 0.71
5 ! 7.0 0.3 0.00055 4.7 43 57 .. 436 450 .. 407 474 .. 0.84
6 ? -0.9 0.1 0.14 1.2e+03 40 54 .. 534 548 .. 532 622 .. 0.74
7 ! 7.0 0.2 0.00055 4.7 44 57 .. 641 654 .. 632 718 .. 0.84
8 ? -0.3 0.0 0.095 8.1e+02 40 57 .. 738 755 .. 735 840 .. 0.72
9 ! 7.1 0.2 0.0005 4.3 44 58 .. 845 858 .. 832 932 .. 0.74
10 ! 7.0 0.2 0.00054 4.7 44 57 .. 1048 1061 .. 1038 1119 .. 0.84
11 ? -2.2 0.1 0.36 3e+03 46 57 .. 1477 1488 .. 1476 1517 .. 0.80
Alignments for each domain:
== domain 1 score: 2.3 bits; conditional E-value: 0.015
EEEES-EEEEE..... CS
TYW3 43 tSSCsGRvsvflegrk 58
S C+GRv v +g+
tr|F1QTA3|F1QTA3_DANRE 28 HSACAGRVEVHHDGQW 43
599*******988875 PP
== domain 2 score: 2.8 bits; conditional E-value: 0.01
SSEEEEEEES-EEEEE............... CS
TYW3 38 edlvTtSSCsGRvsvflegrk.........s 59
+lv S CsGR +f + + +
tr|F1QTA3|F1QTA3_DANRE 124 VRLVGGSHCSGRLEIFHNQ-TwmsvcdaafD 153
568889**********332.13555544440 PP
== domain 3 score: 6.9 bits; conditional E-value: 0.00059
EEES-EEEEE.... CS
TYW3 44 SSCsGRvsvflegr 57
SSCsGRv v+ g+
tr|F1QTA3|F1QTA3_DANRE 233 SSCSGRVEVYHRGQ 246
9*********6665 PP
== domain 4 score: -0.5 bits; conditional E-value: 0.11
EEEEEEES-EEEEE... CS
TYW3 40 lvTtSSCsGRvsvfleg 56
lv S CsGR ++ +
tr|F1QTA3|F1QTA3_DANRE 330 LVGGSRCSGRLEILHDH 346
577799*****999433 PP
== domain 5 score: 7.0 bits; conditional E-value: 0.00055
EEEES-EEEEE.... CS
TYW3 43 tSSCsGRvsvflegr 57
SSCsGRv v+ g+
tr|F1QTA3|F1QTA3_DANRE 436 DSSCSGRVEVYHRGQ 450
5**********6654 PP
== domain 6 score: -0.9 bits; conditional E-value: 0.14
EEEEEEES-EEEEE. CS
TYW3 40 lvTtSSCsGRvsvfl 54
lv S CsGR ++
tr|F1QTA3|F1QTA3_DANRE 534 LVGGSRCSGRLEILH 548
567799*****9993 PP
== domain 7 score: 7.0 bits; conditional E-value: 0.00055
EEES-EEEEE.... CS
TYW3 44 SSCsGRvsvflegr 57
SSCsGRv v+ g+
tr|F1QTA3|F1QTA3_DANRE 641 SSCSGRVEVYHRGQ 654
9*********6665 PP
== domain 8 score: -0.3 bits; conditional E-value: 0.095
EEEEEEES-EEEEE.... CS
TYW3 40 lvTtSSCsGRvsvflegr 57
lv S CsGR ++ + +
tr|F1QTA3|F1QTA3_DANRE 738 LVGGSRCSGRLEILHDQT 755
577799******994433 PP
== domain 9 score: 7.1 bits; conditional E-value: 0.0005
EEES-EEEEE..... CS
TYW3 44 SSCsGRvsvflegrk 58
SSCsGRv v+ g+
tr|F1QTA3|F1QTA3_DANRE 845 SSCSGRVEVY-HGQW 858
**********.5544 PP
== domain 10 score: 7.0 bits; conditional E-value: 0.00054
EEES-EEEEE.... CS
TYW3 44 SSCsGRvsvflegr 57
SSCsGRv v+ g+
tr|F1QTA3|F1QTA3_DANRE 1048 SSCSGRVEVYHRGQ 1061
9*********6665 PP
== domain 11 score: -2.2 bits; conditional E-value: 0.36
ES-EEEEE.... CS
TYW3 46 CsGRvsvflegr 57
C+GR vf g+
tr|F1QTA3|F1QTA3_DANRE 1477 CAGRLEVFHSGS 1488
********7665 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (214 nodes)
Target sequences: 25687 (13798380 residues searched)
Passed MSV filter: 1032 (0.040176); expected 513.7 (0.02)
Passed bias filter: 507 (0.0197376); expected 513.7 (0.02)
Passed Vit filter: 35 (0.00136256); expected 25.7 (0.001)
Passed Fwd filter: 8 (0.000311442); expected 0.3 (1e-05)
Initial search space (Z): 25687 [actual number of targets]
Domain search space (domZ): 3 [number of targets reported over threshold]
# CPU time: 0.27u 0.01s 00:00:00.28 Elapsed: 00:00:00.10
# Mc/sec: 29528.53
//
[ok]