# 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/zf-GRF.hmm.txt
# target sequence database: proteomes/Nematostella_vectensis.fasta
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: zf-GRF [M=45]
Accession: PF06839.12
Description: GRF zinc finger
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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
4.8e-35 119.8 21.9 1.8e-18 66.8 2.3 4.1 4 tr|A7S883|A7S883_NEMVE DNA topoisomerase (Fragment) OS=Nemat
6.1e-16 58.7 6.3 1.3e-14 54.4 6.3 2.0 1 tr|A7SH44|A7SH44_NEMVE Predicted protein (Fragment) OS=Nemat
5e-14 52.5 4.5 1.2e-13 51.4 4.5 1.7 1 tr|A7RQL6|A7RQL6_NEMVE DNA-(apurinic or apyrimidinic site) l
2e-05 25.0 60.3 51 4.5 0.1 17.6 20 tr|A7RGD0|A7RGD0_NEMVE Predicted protein (Fragment) OS=Nemat
------ inclusion threshold ------
0.024 15.1 1.4 0.024 15.1 1.4 2.2 2 tr|A7S9Q2|A7S9Q2_NEMVE Predicted protein OS=Nematostella vec
0.11 13.1 0.0 0.28 11.7 0.0 1.7 1 tr|A7S964|A7S964_NEMVE Predicted protein OS=Nematostella vec
Domain annotation for each sequence (and alignments):
>> tr|A7S883|A7S883_NEMVE DNA topoisomerase (Fragment) OS=Nematostella vectensis OX=45351 GN=v1g108642 PE=3 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? -2.8 0.3 2.4 9.7e+03 3 26 .. 618 642 .. 617 646 .. 0.59
2 ? 1.8 0.2 0.09 3.6e+02 15 30 .. 760 775 .. 752 779 .. 0.83
3 ! 63.8 1.7 3.9e-21 1.6e-17 2 45 .] 781 823 .. 780 823 .. 0.95
4 ! 66.8 2.3 4.5e-22 1.8e-18 2 44 .. 860 902 .. 859 903 .. 0.97
Alignments for each domain:
== domain 1 score: -2.8 bits; conditional E-value: 2.4
zf-GRF 3 Ck.cgrlavlltvrktgpNkGRkFY 26
C+ c + +l k+g FY
tr|A7S883|A7S883_NEMVE 618 CPrCEQHQMTLRKTKEGRQVKLSFY 642
6666655555555556666555555 PP
== domain 2 score: 1.8 bits; conditional E-value: 0.09
zf-GRF 15 rktgpNkGRkFYkCpk 30
r tg N+ +Y+C
tr|A7S883|A7S883_NEMVE 760 RTTGSNQSSRYYVCYS 775
569***********65 PP
== domain 3 score: 63.8 bits; conditional E-value: 3.9e-21
zf-GRF 2 lCkcgrlavlltvrktgpNkGRkFYkCpkgkekqCgFFkWadek 45
C+cg+ a +ltvrk+gpN+GR+FYkC+++++ C FF Wad++
tr|A7S883|A7S883_NEMVE 781 VCTCGNAAIQLTVRKDGPNQGRQFYKCSQREG-GCDFFLWADAN 823
7******************************7.8********75 PP
== domain 4 score: 66.8 bits; conditional E-value: 4.5e-22
zf-GRF 2 lCkcgrlavlltvrktgpNkGRkFYkCpkgkekqCgFFkWade 44
C+c ++av +tv+k+gpNkGR FY C+k+ +++CgFFkWad+
tr|A7S883|A7S883_NEMVE 860 VCNCRQPAVSRTVNKDGPNKGRPFYSCSKPIGQSCGFFKWADQ 902
6*****************************************7 PP
>> tr|A7SH44|A7SH44_NEMVE Predicted protein (Fragment) OS=Nematostella vectensis OX=45351 GN=v1g19873 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 54.4 6.3 3.2e-18 1.3e-14 1 42 [. 3 56 .. 3 59 .. 0.94
Alignments for each domain:
== domain 1 score: 54.4 bits; conditional E-value: 3.2e-18
zf-GRF 1 plCkcgrlavlltvrktgpNkGRkFYkCpkgke............kqCgFFkWa 42
plC cgr+a++ltv k gpN+GR FY+C++gk + C+FF W+
tr|A7SH44|A7SH44_NEMVE 3 PLCDCGRRAKRLTVMKPGPNQGRVFYACSVGKSrasfgrtpmkkkSGCNFFHWE 56
79*****************************9999999999998889******8 PP
>> tr|A7RQL6|A7RQL6_NEMVE DNA-(apurinic or apyrimidinic site) lyase OS=Nematostella vectensis OX=45351 GN=v1g161616 PE=
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ! 51.4 4.5 2.9e-17 1.2e-13 1 42 [. 457 505 .. 457 506 .] 0.93
Alignments for each domain:
== domain 1 score: 51.4 bits; conditional E-value: 2.9e-17
zf-GRF 1 plCk.cgrlavlltvrktgpNkGRkFYkCpkgke......kqCgFFkWa 42
plC+ + +++vl+tv+k+gpN GR+FY+C+ +++ + C+FFkW
tr|A7RQL6|A7RQL6_NEMVE 457 PLCPgHNEPSVLRTVKKKGPNYGRQFYCCARPEGhasnkeARCNFFKWR 505
79**888************************99999998889******5 PP
>> tr|A7RGD0|A7RGD0_NEMVE Predicted protein (Fragment) OS=Nematostella vectensis OX=45351 GN=v1g80647 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 0.026 1e+02 21 33 .. 2 14 .. 1 17 [. 0.83
2 ? 3.0 0.4 0.037 1.5e+02 23 33 .. 16 26 .. 13 34 .. 0.82
3 ? 0.5 0.0 0.22 9.1e+02 23 33 .. 28 38 .. 25 41 .. 0.82
4 ? 3.8 0.0 0.021 85 20 32 .. 37 49 .. 34 51 .. 0.85
5 ? 2.3 0.1 0.059 2.4e+02 22 33 .. 51 62 .. 48 73 .. 0.84
6 ? 3.0 0.0 0.038 1.5e+02 21 32 .. 74 85 .. 70 87 .. 0.85
7 ? 4.5 0.1 0.013 51 20 33 .. 85 98 .. 84 109 .. 0.80
8 ? 3.2 0.1 0.033 1.3e+02 22 32 .. 111 121 .. 107 124 .. 0.84
9 ? 2.9 0.1 0.039 1.6e+02 22 32 .. 123 133 .. 120 135 .. 0.84
10 ? 3.8 0.2 0.021 85 22 33 .. 135 146 .. 132 156 .. 0.80
11 ? 3.0 0.0 0.038 1.5e+02 21 32 .. 158 169 .. 154 171 .. 0.85
12 ? 3.6 0.1 0.025 1e+02 20 32 .. 169 181 .. 168 183 .. 0.84
13 ? 3.8 0.2 0.021 86 22 33 .. 183 194 .. 180 204 .. 0.80
14 ? 3.5 0.5 0.026 1.1e+02 22 33 .. 207 218 .. 202 226 .. 0.79
15 ? 2.6 0.1 0.048 1.9e+02 23 32 .. 220 229 .. 217 231 .. 0.85
16 ? 3.9 0.1 0.019 79 20 33 .. 229 242 .. 228 245 .. 0.83
17 ? 3.1 0.1 0.034 1.4e+02 22 33 .. 243 254 .. 240 257 .. 0.83
18 ? 3.8 0.5 0.021 87 21 33 .. 254 266 .. 252 273 .. 0.81
19 ? 1.4 0.1 0.12 4.8e+02 22 32 .. 267 277 .. 264 281 .. 0.82
20 ? 4.0 0.1 0.018 75 21 33 .. 278 290 .. 274 298 .. 0.80
Alignments for each domain:
== domain 1 score: 3.5 bits; conditional E-value: 0.026
zf-GRF 21 kGRkFYkCpkgke 33
+ R+ Y+C+++k
tr|A7RGD0|A7RGD0_NEMVE 2 HMRQHYACAVRKH 14
569******9985 PP
== domain 2 score: 3.0 bits; conditional E-value: 0.037
zf-GRF 23 RkFYkCpkgke 33
R+ Y+C+++k
tr|A7RGD0|A7RGD0_NEMVE 16 RQHYACAVRKH 26
9******9986 PP
== domain 3 score: 0.5 bits; conditional E-value: 0.22
zf-GRF 23 RkFYkCpkgke 33
R Y+C++++
tr|A7RGD0|A7RGD0_NEMVE 28 RLHYACAVREH 38
889****9985 PP
== domain 4 score: 3.8 bits; conditional E-value: 0.021
zf-GRF 20 NkGRkFYkCpkgk 32
++ R+ Y+C+++k
tr|A7RGD0|A7RGD0_NEMVE 37 EHMRQHYACAVRK 49
677*******987 PP
== domain 5 score: 2.3 bits; conditional E-value: 0.059
zf-GRF 22 GRkFYkCpkgke 33
R+ Y+C+++k
tr|A7RGD0|A7RGD0_NEMVE 51 MRHHYACAVRKH 62
599*****9985 PP
== domain 6 score: 3.0 bits; conditional E-value: 0.038
zf-GRF 21 kGRkFYkCpkgk 32
+ R+ Y+C++++
tr|A7RGD0|A7RGD0_NEMVE 74 HMRQHYACAVRE 85
569******987 PP
== domain 7 score: 4.5 bits; conditional E-value: 0.013
zf-GRF 20 NkGRkFYkCpkgke 33
++ R+ Y+C+++k
tr|A7RGD0|A7RGD0_NEMVE 85 EHMRQHYACAVRKH 98
567********996 PP
== domain 8 score: 3.2 bits; conditional E-value: 0.033
zf-GRF 22 GRkFYkCpkgk 32
R+ Y+C+++k
tr|A7RGD0|A7RGD0_NEMVE 111 MRQHYACAVRK 121
69******998 PP
== domain 9 score: 2.9 bits; conditional E-value: 0.039
zf-GRF 22 GRkFYkCpkgk 32
R+ Y+C+++k
tr|A7RGD0|A7RGD0_NEMVE 123 MRQHYACAVRK 133
59******987 PP
== domain 10 score: 3.8 bits; conditional E-value: 0.021
zf-GRF 22 GRkFYkCpkgke 33
R+ Y+C+++k
tr|A7RGD0|A7RGD0_NEMVE 135 MRQHYACAVRKH 146
59*******986 PP
== domain 11 score: 3.0 bits; conditional E-value: 0.038
zf-GRF 21 kGRkFYkCpkgk 32
+ R+ Y+C++++
tr|A7RGD0|A7RGD0_NEMVE 158 HMRQHYACAVRE 169
569******987 PP
== domain 12 score: 3.6 bits; conditional E-value: 0.025
zf-GRF 20 NkGRkFYkCpkgk 32
++ R+ Y+C+++k
tr|A7RGD0|A7RGD0_NEMVE 169 EHMRQHYACAVRK 181
567*******987 PP
== domain 13 score: 3.8 bits; conditional E-value: 0.021
zf-GRF 22 GRkFYkCpkgke 33
R+ Y+C+++k
tr|A7RGD0|A7RGD0_NEMVE 183 MRQHYACAVRKH 194
59*******986 PP
== domain 14 score: 3.5 bits; conditional E-value: 0.026
zf-GRF 22 GRkFYkCpkgke 33
R+ Y+C+++k
tr|A7RGD0|A7RGD0_NEMVE 207 MRQHYACAVRKH 218
6999***99986 PP
== domain 15 score: 2.6 bits; conditional E-value: 0.048
zf-GRF 23 RkFYkCpkgk 32
R+ Y+C++++
tr|A7RGD0|A7RGD0_NEMVE 220 RQHYACAVRE 229
9******987 PP
== domain 16 score: 3.9 bits; conditional E-value: 0.019
zf-GRF 20 NkGRkFYkCpkgke 33
++ R+ Y+C+++k
tr|A7RGD0|A7RGD0_NEMVE 229 EHMRQHYACAVRKH 242
567*******9985 PP
== domain 17 score: 3.1 bits; conditional E-value: 0.034
zf-GRF 22 GRkFYkCpkgke 33
R+ Y+C++++
tr|A7RGD0|A7RGD0_NEMVE 243 MRQHYACAVREH 254
59******9985 PP
== domain 18 score: 3.8 bits; conditional E-value: 0.021
zf-GRF 21 kGRkFYkCpkgke 33
+ R+ Y+C+++k
tr|A7RGD0|A7RGD0_NEMVE 254 HMRQHYACAVRKH 266
679******9986 PP
== domain 19 score: 1.4 bits; conditional E-value: 0.12
zf-GRF 22 GRkFYkCpkgk 32
R+ Y+C ++k
tr|A7RGD0|A7RGD0_NEMVE 267 MRQHYACVVRK 277
59*****9987 PP
== domain 20 score: 4.0 bits; conditional E-value: 0.018
zf-GRF 21 kGRkFYkCpkgke 33
+ R+ Y+C+++k
tr|A7RGD0|A7RGD0_NEMVE 278 HMRQHYACAVRKH 290
569*******986 PP
>> tr|A7S9Q2|A7S9Q2_NEMVE Predicted protein OS=Nematostella vectensis OX=45351 GN=v1g243804 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? -1.1 1.1 0.71 2.9e+03 2 11 .. 6 15 .. 5 18 .. 0.84
2 ? 15.1 1.4 6e-06 0.024 8 42 .. 76 110 .. 65 113 .. 0.89
Alignments for each domain:
== domain 1 score: -1.1 bits; conditional E-value: 0.71
zf-GRF 2 lCkcgrlavl 11
C cg l+++
tr|A7S9Q2|A7S9Q2_NEMVE 6 ICLCGVLCKR 15
7****99975 PP
== domain 2 score: 15.1 bits; conditional E-value: 6e-06
zf-GRF 8 lavlltvrktgpNkGRkFYkCpkgke.kqCgFFkWa 42
++ ++++ k +N R +++C++g+ C+ F W
tr|A7S9Q2|A7S9Q2_NEMVE 76 RCAIKVS-KSEKNFNRVYFACAVGEPnPPCNTFWWL 110
7999999.6****************9889******5 PP
>> tr|A7S964|A7S964_NEMVE Predicted protein OS=Nematostella vectensis OX=45351 GN=v1g243695 PE=4 SV=1
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 11.7 0.0 6.8e-05 0.28 13 44 .. 264 295 .. 255 296 .. 0.77
Alignments for each domain:
== domain 1 score: 11.7 bits; conditional E-value: 6.8e-05
zf-GRF 13 tvrktgpNkGRkFYkCpkgke.kqCgFFkWade 44
++r + +GR ++kC + C F W+de
tr|A7S964|A7S964_NEMVE 264 VSR-SEKSRGRVYFKCCVLPPnLPCDSFLWVDE 295
444.8899******9987655489********8 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (45 nodes)
Target sequences: 24428 (8257945 residues searched)
Passed MSV filter: 1062 (0.0434747); expected 488.6 (0.02)
Passed bias filter: 454 (0.0185852); expected 488.6 (0.02)
Passed Vit filter: 43 (0.00176028); expected 24.4 (0.001)
Passed Fwd filter: 7 (0.000286556); expected 0.2 (1e-05)
Initial search space (Z): 24428 [actual number of targets]
Domain search space (domZ): 6 [number of targets reported over threshold]
# CPU time: 0.15u 0.00s 00:00:00.15 Elapsed: 00:00:00.05
# Mc/sec: 7432.15
//
[ok]