# 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/PCIF1_WW.hmm.txt
# target sequence database: proteomes/Petromyzon_marinus.fasta
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
Query: PCIF1_WW [M=172]
Accession: PF12237.8
Description: Phosphorylated CTD interacting factor 1 WW domain
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
------- ------ ----- ------- ------ ----- ---- -- -------- -----------
7.6e-69 230.3 0.0 1.1e-68 229.8 0.0 1.3 1 tr|S4RMM4|S4RMM4_PETMA PDX1 C-terminal inhibiting factor 1 O
8.1e-69 230.2 0.0 1.2e-68 229.7 0.0 1.3 1 tr|S4RMM7|S4RMM7_PETMA PDX1 C-terminal inhibiting factor 1 O
------ inclusion threshold ------
0.065 12.4 0.0 13 5.0 0.0 3.0 4 tr|S4RK72|S4RK72_PETMA Uncharacterized protein OS=Petromyzon
0.077 12.2 0.0 10 5.3 0.0 2.7 3 tr|S4RK48|S4RK48_PETMA Uncharacterized protein OS=Petromyzon
0.13 11.5 0.0 36 3.5 0.0 3.2 4 tr|Q2VGV6|Q2VGV6_PETMA Variable lymphocyte receptor diversit
Domain annotation for each sequence (and alignments):
>> tr|S4RMM4|S4RMM4_PETMA PDX1 C-terminal inhibiting factor 1 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 ! 229.8 0.0 4.1e-72 1.1e-68 1 172 [] 467 643 .. 467 643 .. 0.97
Alignments for each domain:
== domain 1 score: 229.8 bits; conditional E-value: 4.1e-72
PCIF1_WW 1 kLkeLyesseeddekleaflsrvfalllrYda.llg.....eaglqaalpeevfevLkkefgvsfecfAsPlncyfeqycsafpdtD 81
kL++Ly+ ++dd+++e+fl+rv++ll+rY + ++g +agl++alp vfe+L+++fgv+fecfAsPlncyf+qycsaf+dtD
tr|S4RMM4|S4RMM4_PETMA 467 KLEHLYRLGSTDDPRFEKFLARVWCLLRRYRQtMFGvggseGAGLHGALPVPVFEALHRHFGVTFECFASPLNCYFRQYCSAFADTD 553
89****************************751556889999********************************************* PP
PCIF1_WW 82 ayFGsvGsffdfkpasgsfeanPPfveevleraaehieklLeaaeeesepLsfvvvvpewre..tealkkleesrykrkevvieake 166
+yFGs+G+++df+p+sgsfeanPPf ee+++++++h+e+l++++ +epLsf+v+vpewre t al ++eesr+kr++v+++a e
tr|S4RMM4|S4RMM4_PETMA 554 GYFGSRGPILDFNPVSGSFEANPPFGEELMNAMVDHFENLMSSS---TEPLSFIVFVPEWREpvTPALLRMEESRFKRRQVLVPAFE 637
********************************************...9***************99********************** PP
PCIF1_WW 167 heyreg 172
heyr+g
tr|S4RMM4|S4RMM4_PETMA 638 HEYRNG 643
***987 PP
>> tr|S4RMM7|S4RMM7_PETMA PDX1 C-terminal inhibiting factor 1 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 ! 229.7 0.0 4.4e-72 1.2e-68 1 172 [] 433 609 .. 433 609 .. 0.97
Alignments for each domain:
== domain 1 score: 229.7 bits; conditional E-value: 4.4e-72
PCIF1_WW 1 kLkeLyesseeddekleaflsrvfalllrYda.llg.....eaglqaalpeevfevLkkefgvsfecfAsPlncyfeqycsafpdtD 81
kL++Ly+ ++dd+++e+fl+rv++ll+rY + ++g +agl++alp vfe+L+++fgv+fecfAsPlncyf+qycsaf+dtD
tr|S4RMM7|S4RMM7_PETMA 433 KLEHLYRLGSTDDPRFEKFLARVWCLLRRYRQtMFGvggseGAGLHGALPVPVFEALHRHFGVTFECFASPLNCYFRQYCSAFADTD 519
89****************************751556889999********************************************* PP
PCIF1_WW 82 ayFGsvGsffdfkpasgsfeanPPfveevleraaehieklLeaaeeesepLsfvvvvpewre..tealkkleesrykrkevvieake 166
+yFGs+G+++df+p+sgsfeanPPf ee+++++++h+e+l++++ +epLsf+v+vpewre t al ++eesr+kr++v+++a e
tr|S4RMM7|S4RMM7_PETMA 520 GYFGSRGPILDFNPVSGSFEANPPFGEELMNAMVDHFENLMSSS---TEPLSFIVFVPEWREpvTPALLRMEESRFKRRQVLVPAFE 603
********************************************...9***************99********************** PP
PCIF1_WW 167 heyreg 172
heyr+g
tr|S4RMM7|S4RMM7_PETMA 604 HEYRNG 609
***987 PP
>> tr|S4RK72|S4RK72_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 ? 5.0 0.0 0.0046 13 12 53 .. 40 81 .. 35 90 .. 0.87
2 ? 2.8 0.0 0.022 59 14 53 .. 90 129 .. 83 137 .. 0.79
3 ? 1.1 0.0 0.075 2e+02 19 52 .. 119 152 .. 106 161 .. 0.69
4 ? 0.8 0.0 0.091 2.5e+02 17 52 .. 141 176 .. 129 205 .. 0.63
Alignments for each domain:
== domain 1 score: 5.0 bits; conditional E-value: 0.0046
PCIF1_WW 12 ddekleaflsrvfalllrYdallgeaglqaalpeevfevLkk 53
++++ e +++ vf ll+ ++l+ +++ +a+p+ vf+ L++
tr|S4RK72|S4RK72_PETMA 40 ESNRIESLPEGVFDLLVNLQHLHLNSNKLTAIPAGVFDKLTE 81
56678889999*************99************9987 PP
== domain 2 score: 2.8 bits; conditional E-value: 0.022
PCIF1_WW 14 ekleaflsrvfalllrYdallgeaglqaalpeevfevLkk 53
++l+a+++ vf l++ ++l+ ++++ alp+ vf+ L++
tr|S4RK72|S4RK72_PETMA 90 NQLTALPEGVFDRLVKLKELSLNTNQLLALPAGVFDSLTQ 129
4556777788888888888888888889999999999886 PP
== domain 3 score: 1.1 bits; conditional E-value: 0.075
PCIF1_WW 19 flsrvfalllrYdallgeaglqaalpeevfevLk 52
+++ vf l++ ++l ++++ +alp+ vfe L
tr|S4RK72|S4RK72_PETMA 119 LPAGVFDSLTQLTTLYLSNNQLTALPAGVFERLV 152
4455666666666666677777888888888775 PP
== domain 4 score: 0.8 bits; conditional E-value: 0.091
PCIF1_WW 17 eaflsrvfalllrYdallgeaglqaalpeevfevLk 52
+a+++ vf l+ ++++ ++ +a+p +f+ L+
tr|S4RK72|S4RK72_PETMA 141 TALPAGVFERLVNLQEFAVYNNKLTAVPDGIFDKLT 176
445555555555555555555555566666666555 PP
>> tr|S4RK48|S4RK48_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 ? 5.3 0.0 0.0038 10 12 53 .. 40 81 .. 34 89 .. 0.87
2 ? 3.0 0.0 0.019 51 14 53 .. 90 129 .. 82 134 .. 0.78
3 ? 2.2 0.0 0.034 91 19 53 .. 119 153 .. 105 178 .. 0.76
Alignments for each domain:
== domain 1 score: 5.3 bits; conditional E-value: 0.0038
PCIF1_WW 12 ddekleaflsrvfalllrYdallgeaglqaalpeevfevLkk 53
++++ e +++ vf ll+ ++l+ +++ +a+p+ vf+ L++
tr|S4RK48|S4RK48_PETMA 40 ESNRIESLPEGVFDLLVNLQHLHLNSNKLTAIPAGVFDKLTE 81
56778889999*************99************9987 PP
== domain 2 score: 3.0 bits; conditional E-value: 0.019
PCIF1_WW 14 ekleaflsrvfalllrYdallgeaglqaalpeevfevLkk 53
++l+a+++ vf l++ ++l+ ++++ alp+ vf+ L++
tr|S4RK48|S4RK48_PETMA 90 NQLTALPEGVFDRLVKLKELSLNTNQLLALPAGVFDSLTQ 129
4566777778888888888888888889999999998876 PP
== domain 3 score: 2.2 bits; conditional E-value: 0.034
PCIF1_WW 19 flsrvfalllrYdallgeaglqaalpeevfevLkk 53
+++ vf l++ ++l ++++ +alp+ vfe L k
tr|S4RK48|S4RK48_PETMA 119 LPAGVFDSLTQLTTLYLSNNQLTALPAGVFERLVK 153
45556666677777777778888888888888876 PP
>> tr|Q2VGV6|Q2VGV6_PETMA Variable lymphocyte receptor diversity region (Fragment) OS=Petromyzon marinus OX=7757 GN=VLR
# score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
--- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
1 ? 1.5 0.0 0.054 1.5e+02 16 53 .. 41 78 .. 33 85 .. 0.84
2 ? 0.9 0.0 0.086 2.3e+02 23 53 .. 72 102 .. 52 109 .. 0.62
3 ? 3.5 0.0 0.013 36 13 56 .. 110 153 .. 99 159 .. 0.80
4 ? 1.7 0.0 0.047 1.3e+02 14 68 .. 159 211 .. 154 225 .. 0.73
Alignments for each domain:
== domain 1 score: 1.5 bits; conditional E-value: 0.054
PCIF1_WW 16 leaflsrvfalllrYdallgeaglqaalpeevfevLkk 53
++++ vf l+ + l+ ++++ +lp+ vf+ L++
tr|Q2VGV6|Q2VGV6_PETMA 41 ITKLEPGVFDSLVNLQRLHLDQNQLVSLPAGVFDRLTQ 78
55677788888999999999999************987 PP
== domain 2 score: 0.9 bits; conditional E-value: 0.086
PCIF1_WW 23 vfalllrYdallgeaglqaalpeevfevLkk 53
vf l++ + l+ + ++ +alp vf+ L++
tr|Q2VGV6|Q2VGV6_PETMA 72 VFDRLTQLTYLNLGGNQLTALPVGVFDKLTQ 102
4444444333333347777888888888776 PP
== domain 3 score: 3.5 bits; conditional E-value: 0.013
PCIF1_WW 13 dekleaflsrvfalllrYdallgeaglqaalpeevfevLkkefg 56
d++l+a+++ vf l+ ++l ++++ +alp vf+ L++ g
tr|Q2VGV6|Q2VGV6_PETMA 110 DNQLSALPAGVFDRLVNLQKLYLGENQLSALPVGVFDSLTQLTG 153
5667788888898899999988889999***********98655 PP
== domain 4 score: 1.7 bits; conditional E-value: 0.047
PCIF1_WW 14 ekleaflsrvfalllrYdallgeaglqaalpeevfevLkkefgvsfecfAsPlnc 68
++l+a+++ vf l++ + l+ ++++ +++p +f+ Lk+ ++ f P +c
tr|Q2VGV6|Q2VGV6_PETMA 159 NQLQALPTGVFDNLTQLSILNMHTNQLKSIPRGAFDNLKSLTHI--YLFNNPWDC 211
56677778888888888888888888999999999999986554..457777765 PP
Internal pipeline statistics summary:
-------------------------------------
Query model(s): 1 (172 nodes)
Target sequences: 13539 (5048892 residues searched)
Passed MSV filter: 1469 (0.108501); expected 270.8 (0.02)
Passed bias filter: 1417 (0.104661); expected 270.8 (0.02)
Passed Vit filter: 266 (0.0196469); expected 13.5 (0.001)
Passed Fwd filter: 5 (0.000369303); expected 0.1 (1e-05)
Initial search space (Z): 13539 [actual number of targets]
Domain search space (domZ): 5 [number of targets reported over threshold]
# CPU time: 0.16u 0.00s 00:00:00.16 Elapsed: 00:00:00.05
# Mc/sec: 17368.19
//
[ok]