# 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/Thermococcus_kodakarensis.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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
0.0048 14.6 0.1 0.011 13.5 0.1 1.6 1 tr|Q5JF81|Q5JF81_THEKO Uncharacterized protein OS=Thermococc
------ inclusion threshold ------
0.011 13.4 0.0 1.3 6.8 0.0 2.2 2 sp|Q5JIH3|HYPA_THEKO Hydrogenase maturation factor HypA OS
0.013 13.2 0.2 0.052 11.3 0.0 1.8 2 tr|Q5JFV9|Q5JFV9_THEKO Probable lysine biosynthesis protein
Domain annotation for each sequence (and alignments):
>> tr|Q5JF81|Q5JF81_THEKO Uncharacterized protein OS=Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 13.5 0.1 1.4e-05 0.011 9 64 .. 3 55 .. 1 58 [. 0.90
Alignments for each domain:
== domain 1 score: 13.5 bits; conditional E-value: 1.4e-05
B-TTTHHC--HHHHHHHHH.TT---.S-SS----SCHHTTEECCCCEEEETTTTEEEE CS
Trm112p 9 aCpackgpLdwealvevaa.lglne.lpkekpedyellleldieegeLvCpncgraYp 64
Cp+c + Ldw+ l++++ +g e + k++ ++ e + ++ Cp+cg ++
tr|Q5JF81|Q5JF81_THEKO 3 RCPLCGKALDWAELINQMLeKGVGEdVFKDRDKFME-----TFNDFVFKCPHCGEEFY 55
7******************99*99999999999997.....78899999999999886 PP
>> sp|Q5JIH3|HYPA_THEKO Hydrogenase maturation factor HypA OS=Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 1238
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 6.8 0.0 0.0017 1.3 41 60 .. 51 77 .. 12 84 .. 0.76
2 ? 4.8 0.0 0.0072 5.5 4 14 .. 104 114 .. 102 127 .. 0.83
Alignments for each domain:
== domain 1 score: 6.8 bits; conditional E-value: 0.0017
S.......CHHTTEECCCCEEEETTTT CS
Trm112p 41 y.......ellleldieegeLvCpncg 60
+ +e+++ee ++ C+nc+
sp|Q5JIH3|HYPA_THEKO 51 LfagtiaeGAEIEFVEEEAVFKCRNCN 77
1555555534589*************8 PP
== domain 2 score: 4.8 bits; conditional E-value: 0.0072
GCCC-B-TTTH CS
Trm112p 4 llniLaCpack 14
++ +LaCp c
sp|Q5JIH3|HYPA_THEKO 104 VHAFLACPKCG 114
5899****886 PP
>> tr|Q5JFV9|Q5JFV9_THEKO Probable lysine biosynthesis protein OS=Thermococcus kodakarensis (strain ATCC BAA-918 / JCM
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 0.1 0.0 0.2 1.6e+02 8 15 .. 2 9 .. 1 13 [. 0.70
2 ? 11.3 0.0 6.8e-05 0.052 3 17 .. 17 31 .. 15 52 .. 0.61
Alignments for each domain:
== domain 1 score: 0.1 bits; conditional E-value: 0.2
-B-TTTHH CS
Trm112p 8 LaCpackg 15
+ Cp+c +
tr|Q5JFV9|Q5JFV9_THEKO 2 VECPVCGS 9
67888865 PP
== domain 2 score: 11.3 bits; conditional E-value: 6.8e-05
GGCCC-B-TTTHHC- CS
Trm112p 3 lllniLaCpackgpL 17
+l+ i+ Cp+c +L
tr|Q5JFV9|Q5JFV9_THEKO 17 ELHQIVECPVCGAEL 31
69***********77 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (68 nodes)
Target sequences: 2301 (637680 residues searched)
Passed MSV filter: 85 (0.0369405); expected 46.0 (0.02)
Passed bias filter: 80 (0.0347675); expected 46.0 (0.02)
Passed Vit filter: 15 (0.0065189); expected 2.3 (0.001)
Passed Fwd filter: 3 (0.00130378); expected 0.0 (1e-05)
Initial search space (Z): 2301 [actual number of targets]
Domain search space (domZ): 3 [number of targets reported over threshold]
# CPU time: 0.02u 0.00s 00:00:00.02 Elapsed: 00:00:00.01
# Mc/sec: 4336.22
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