# hmmsearch :: search profile(s) against a sequence database
# HMMER 3.0b3 (November 2009); http://hmmer.org/
# Copyright (C) 2009 Howard Hughes Medical Institute.
# Freely distributed under the GNU General Public License (GPLv3).
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
# query HMM file: domain1.hmmer
# target sequence database: /home/chengji/software/prosys_database/cm_lib/pdb_cm
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: domain1.fasta [M=196]
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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
4e-90 303.8 0.0 4.5e-90 303.6 0.0 1.0 1 3BOJA
4.3e-90 303.7 0.0 4.8e-90 303.5 0.0 1.0 1 3BOHA
2.7e-87 294.5 0.0 3e-87 294.4 0.0 1.0 1 3UK8B
2.9e-87 294.4 0.0 3.3e-87 294.2 0.0 1.0 1 3UK8A
8.8e-87 292.8 0.0 9.9e-87 292.7 0.0 1.0 1 3BOBA
Domain annotation for each sequence (and alignments):
>> 3BOJA
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 303.6 0.0 1.2e-94 4.5e-90 1 196 [] 6 206 .. 6 206 .. 0.99
Alignments for each domain:
== domain 1 score: 303.6 bits; conditional E-value: 1.2e-94
domain1.fasta 1 ivea.qkrgWeveivkass....lvkvkpagvlkCvDgRksdgkrksgpkilGgvlaiaanrgvgttegleqitkevkakGhvpgvHgdehgeklg 91
iv+a q+rgW++eiv++ s +v+v+p+g+lkCvDgR+sd+++++gpk++Gg++aia+nrgv+t+egl+qitkev++kGhvp+vHgd+++++lg
3BOJA 6 IVAAlQERGWQAEIVTEFSllneMVDVDPQGILKCVDGRGSDNTQFCGPKMPGGIYAIAHNRGVTTLEGLKQITKEVASKGHVPSVHGDHSSDMLG 101
57788************999**************************************************************************** PP
domain1.fasta 92 CGffklwltgkladvglprpefsaeelaeiveeaggvveelkGkHeekvvvlNfvpgtTlepnaedqrFvvDaWaadklgldveklleaaaatVel 187
CGffklw+tg+++d+g+prp+f+a+++a++ve+aggv+e+++G+H+ekvv++N+v+++Tlep+++dqrF+vD+Waa+k+gldv+k+l aaaatVe+
3BOJA 102 CGFFKLWVTGRFDDMGYPRPQFDADQGAKAVENAGGVIEMHHGSHAEKVVYINLVENKTLEPDEDDQRFIVDGWAAGKFGLDVPKFLIAAAATVEM 197
************************************************************************************************ PP
domain1.fasta 188 Lsgpkiaki 196
L+gpk+aki
3BOJA 198 LGGPKKAKI 206
*******98 PP
>> 3BOHA
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 303.5 0.0 1.3e-94 4.8e-90 1 196 [] 10 210 .. 10 210 .. 0.99
Alignments for each domain:
== domain 1 score: 303.5 bits; conditional E-value: 1.3e-94
domain1.fasta 1 ivea.qkrgWeveivkass....lvkvkpagvlkCvDgRksdgkrksgpkilGgvlaiaanrgvgttegleqitkevkakGhvpgvHgdehgeklg 91
iv+a q+rgW++eiv++ s +v+v+p+g+lkCvDgR+sd+++++gpk++Gg++aia+nrgv+t+egl+qitkev++kGhvp+vHgd+++++lg
3BOHA 10 IVAAlQERGWQAEIVTEFSllneMVDVDPQGILKCVDGRGSDNTQFCGPKMPGGIYAIAHNRGVTTLEGLKQITKEVASKGHVPSVHGDHSSDMLG 105
57788************999**************************************************************************** PP
domain1.fasta 92 CGffklwltgkladvglprpefsaeelaeiveeaggvveelkGkHeekvvvlNfvpgtTlepnaedqrFvvDaWaadklgldveklleaaaatVel 187
CGffklw+tg+++d+g+prp+f+a+++a++ve+aggv+e+++G+H+ekvv++N+v+++Tlep+++dqrF+vD+Waa+k+gldv+k+l aaaatVe+
3BOHA 106 CGFFKLWVTGRFDDMGYPRPQFDADQGAKAVENAGGVIEMHHGSHAEKVVYINLVENKTLEPDEDDQRFIVDGWAAGKFGLDVPKFLIAAAATVEM 201
************************************************************************************************ PP
domain1.fasta 188 Lsgpkiaki 196
L+gpk+aki
3BOHA 202 LGGPKKAKI 210
*******98 PP
>> 3UK8B
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 294.4 0.0 8.3e-92 3e-87 1 196 [] 6 206 .. 6 206 .. 0.99
Alignments for each domain:
== domain 1 score: 294.4 bits; conditional E-value: 8.3e-92
domain1.fasta 1 ivea.qkrgWeveivkass....lvkvkpagvlkCvDgRksdgkrksgpkilGgvlaiaanrgvgttegleqitkevkakGhvpgvHgdehgeklg 91
iv+a ++rgW+++ivkas+ l +v+p+g+lkCvDgR+sd++++ gpk++Gg++aia+nrgv+t+egl++it+ev++kGhvp+vHgd+++++lg
3UK8B 6 IVSAlRGRGWKASIVKASTmsseLKRVDPQGILKCVDGRGSDNTQFGGPKMPGGIYAIAHNRGVTTLEGLKDITREVASKGHVPSVHGDHSSDMLG 101
567889************999*************************************************************************** PP
domain1.fasta 92 CGffklwltgkladvglprpefsaeelaeiveeaggvveelkGkHeekvvvlNfvpgtTlepnaedqrFvvDaWaadklgldveklleaaaatVel 187
CGffklwltg+++d+g+prpef+a+++a +v++aggv+e+++G+Heekvv++N+v+g+Tlepn++dqrF+vD+Waa+k+gldv k+l+aaaatVe+
3UK8B 102 CGFFKLWLTGRFDDMGYPRPEFDADQGALAVRAAGGVIEMHHGSHEEKVVYINLVSGMTLEPNEHDQRFIVDGWAASKFGLDVVKFLVAAAATVEM 197
************************************************************************************************ PP
domain1.fasta 188 Lsgpkiaki 196
L+gpk+aki
3UK8B 198 LGGPKKAKI 206
*******98 PP
>> 3UK8A
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 294.2 0.0 9.1e-92 3.3e-87 1 196 [] 11 211 .. 11 211 .. 0.99
Alignments for each domain:
== domain 1 score: 294.2 bits; conditional E-value: 9.1e-92
domain1.fasta 1 ivea.qkrgWeveivkass....lvkvkpagvlkCvDgRksdgkrksgpkilGgvlaiaanrgvgttegleqitkevkakGhvpgvHgdehgeklg 91
iv+a ++rgW+++ivkas+ l +v+p+g+lkCvDgR+sd++++ gpk++Gg++aia+nrgv+t+egl++it+ev++kGhvp+vHgd+++++lg
3UK8A 11 IVSAlRGRGWKASIVKASTmsseLKRVDPQGILKCVDGRGSDNTQFGGPKMPGGIYAIAHNRGVTTLEGLKDITREVASKGHVPSVHGDHSSDMLG 106
567889************999*************************************************************************** PP
domain1.fasta 92 CGffklwltgkladvglprpefsaeelaeiveeaggvveelkGkHeekvvvlNfvpgtTlepnaedqrFvvDaWaadklgldveklleaaaatVel 187
CGffklwltg+++d+g+prpef+a+++a +v++aggv+e+++G+Heekvv++N+v+g+Tlepn++dqrF+vD+Waa+k+gldv k+l+aaaatVe+
3UK8A 107 CGFFKLWLTGRFDDMGYPRPEFDADQGALAVRAAGGVIEMHHGSHEEKVVYINLVSGMTLEPNEHDQRFIVDGWAASKFGLDVVKFLVAAAATVEM 202
************************************************************************************************ PP
domain1.fasta 188 Lsgpkiaki 196
L+gpk+aki
3UK8A 203 LGGPKKAKI 211
*******98 PP
>> 3BOBA
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 292.7 0.0 2.7e-91 9.9e-87 2 196 .] 7 206 .. 6 206 .. 0.99
Alignments for each domain:
== domain 1 score: 292.7 bits; conditional E-value: 2.7e-91
domain1.fasta 2 vea.qkrgWeveivkass....lvkvkpagvlkCvDgRksdgkrksgpkilGgvlaiaanrgvgttegleqitkevkakGhvpgvHgdehgeklgC 92
+ea q+rgW++eiv+++s lv+v+p+g+lkCvDgR+sd++r+ gpk++Gg++aia+nrgv+++egl+qitkev++kGh p+vHgd+++++lgC
3BOBA 7 AEAlQGRGWDAEIVTDASmagqLVDVRPEGILKCVDGRGSDNTRMGGPKMPGGIYAIAHNRGVTSIEGLKQITKEVASKGHLPSVHGDHSSDMLGC 102
67889**********9999***************************************************************************** PP
domain1.fasta 93 GffklwltgkladvglprpefsaeelaeiveeaggvveelkGkHeekvvvlNfvpgtTlepnaedqrFvvDaWaadklgldveklleaaaatVelL 188
Gffklw+tg+++d+g+prp+f+a+++a++v+ agg +e+++G+H+ekvv++N+ +++Tlepn++dqrF+vD+Waadk+gldv+k+l aaaatVe+L
3BOBA 103 GFFKLWVTGRFDDMGYPRPQFDADQGANAVKDAGGIIEMHHGSHTEKVVYINLLANKTLEPNENDQRFIVDGWAADKFGLDVPKFLIAAAATVEML 198
************************************************************************************************ PP
domain1.fasta 189 sgpkiaki 196
+gpk+aki
3BOBA 199 GGPKNAKI 206
******98 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (196 nodes)
Target sequences: 180940 (47973432 residues)
Passed MSV filter: 4609 (0.0254725); expected 3618.8 (0.02)
Passed bias filter: 3739 (0.0206643); expected 3618.8 (0.02)
Passed Vit filter: 249 (0.00137615); expected 180.9 (0.001)
Passed Fwd filter: 5 (2.76335e-05); expected 1.8 (1e-05)
Initial search space (Z): 180940 [actual number of targets]
Domain search space (domZ): 5 [number of targets reported over threshold]
# CPU time: 2.28u 0.08s 00:00:02.36 Elapsed: 00:00:00.66
# Mc/sec: 14246.66
//