Motif confirmation by HMMer
hmmpfam - search a single seq against HMM database
HMMER 2.1.1 (Dec 1998)
Copyright (C) 1992-1998 Washington University School of Medicine
HMMER is freely distributed under the GNU General Public License (GPL).
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HMM file: /home/niguts/usr02/tshini/ykclst/db/Pfam_fs
Sequence file: hmm3/seq/F53H10.2
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Query: F53H10.2 CE11040 Zinc finger, C2H2 type status:Partially_confirmed TR:Q20733 protein_id:CAB01216.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
ELM2 ELM2 domain 57.7 6.6e-16 1
myb_DNA-binding Myb-like DNA-binding domain 39.5 2.7e-09 1
zf-C2H2 Zinc finger, C2H2 type 12.7 0.44 2
UBA UBA/TS-N domain 9.2 0.92 1
CUE CUE domain 7.2 1.8 1
XPA_N XPA protein N-terminal 4.7 9.5 1
FYVE FYVE zinc finger 4.2 9.6 1
RNA_pol_Rpb2_1 RNA polymerase beta subunit 1.4 5.3 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
zf-C2H2 1/2 311 325 .. 12 24 .] -2.7 2.8e+03
ELM2 1/1 501 561 .. 1 76 [] 57.7 6.6e-16
UBA 1/1 576 593 .. 26 45 .] 9.2 0.92
CUE 1/1 578 594 .. 27 43 .] 7.2 1.8
myb_DNA-binding 1/1 612 657 .. 1 65 [] 39.5 2.7e-09
XPA_N 1/1 786 798 .. 22 34 .] 4.7 9.5
FYVE 1/1 789 800 .. 61 72 .] 4.2 9.6
zf-C2H2 2/2 786 808 .. 1 24 [] 20.1 0.006
RNA_pol_Rpb2_1 1/1 4 928 .. 165 238 .] 1.4 5.3
Alignments of top-scoring domains:
zf-C2H2: domain 1 of 2, from 311 to 325: score -2.7, E = 2.8e+03
*->srksnLkrHlrt..H<-*
++ s Lk+Hl +++H
F53H10.2 311 TSTSLLKQHLHKksH 325
ELM2: domain 1 of 1, from 501 to 561: score 57.7, E = 6.6e-16
*->keIrVGskyQAdvPdllketesdesderelleTkkedeekldelvWs
++I++G++yQA+v++++++++s++++++++++ de+v+s
F53H10.2 501 PHINLGKNYQARVKKWCDRQVSTSERDAIEDR---------DEIVFS 538
Peqnqlsdrdldqylavarskslrtfaqa<-*
e l+d d++q++a++ l+++ qa
F53H10.2 539 SE--ILQDIDPEQITAFE----LLACSQA 561
UBA: domain 1 of 1, from 576 to 593: score 9.2, E = 0.92
*->LratnnnsDverAvewLleh<-*
L ++ +n +e+Ave Ll+
F53H10.2 576 LMENKGN--IEAAVEDLLRS 593
CUE: domain 1 of 1, from 578 to 594: score 7.2, E = 1.8
*->antgnveatinnLLegs<-*
+n gn+ea+++ LL+
F53H10.2 578 ENKGNIEAAVEDLLRSD 594
myb_DNA-binding: domain 1 of 1, from 612 to 657: score 39.5, E = 2.7e-09
*->rgrWteeEdellveavekhGkgfgIrlsltkanWkkIaekmgpgssn
+ Wt++E ++ +a+ + k+ ++k+a +++
F53H10.2 612 SVLWTPDEIYQFQDAIYQSEKD-----------FDKVAVELP----- 642
nvlgrtaeqcklryykyk<-*
g++ ++c+++yy +k
F53H10.2 643 ---GKSVKECVQFYYTWK 657
XPA_N: domain 1 of 1, from 786 to 798: score 4.7, E = 9.5
*->FdcaVCDsCRDkd<-*
F+c+ CD+C +k
F53H10.2 786 FHCRLCDKCFEKV 798
FYVE: domain 1 of 1, from 789 to 800: score 4.2, E = 9.6
*->RVCdsCydrlnk<-*
R+Cd+C++ +
F53H10.2 789 RLCDKCFEKVKS 800
zf-C2H2: domain 2 of 2, from 786 to 808: score 20.1, E = 0.006
*->ykCpfdCgksFsrksnLkrHlrtH<-*
+ C C+k+F ++L++H+++H
F53H10.2 786 FHCR-LCDKCFEKVKSLNAHMKSH 808
RNA_pol_Rpb2_1: domain 1 of 1, from 4 to 928: score 1.4, E = 5.3
RF xxxxxxxxx
*->kviiaqivr......................................
kv++ qi ++ +++ + + ++ ++++++++++++++ ++++++++
F53H10.2 4 KVLLFQINVdqlhnpfewgapdvpqqpppqpppnenpmpppqhppny 50
RF
..................................................
++++ ++ +++++++ + +++ +++ +++++ + ++++++++ ++
F53H10.2 51 yaprrsistitgpnrrdvdafyqnnfpekvcnsntniklnggssgehvpe 100
RF
..................................................
+ ++++++++ +++++++++ ++++ + ++ + ++++ ++++ + +++
F53H10.2 101 yqasgqqhrpsimsgqshqnnhlptknysyeplrfsppnvtppplqfstn 150
RF
..................................................
+++++++++ + ++ ++ +++++ + ++++ + ++ +++++++ +++
F53H10.2 151 tdgnrknqrvrfnelpnystpnhysvpprkcslapnffssqnshhmypdq 200
RF
..................................................
++++ ++++ ++++ ++ + ++++++++++ +++ +++++++ ++
F53H10.2 201 ytprtwqnnefmpnhqvhpyhanhqqqhpqqhwrnqaasngnhnpmymrk 250
RF
..................................................
++ +++ + + ++ +++ ++++++ + +++++ +++ ++ + ++++++
F53H10.2 251 hsaghgieikldhvdnpfgnpshdmmdvtsgqpvksemlspikmettdps 300
RF
..................................................
++ +++ ++++ +++ +++++++ ++++ + +++ +++++++
F53H10.2 301 qqiaspsflmtstsllkqhlhkkshhnvpsrkasimalksqlrtprgtpl 350
RF
..................................................
+ ++ ++++ + ++++ + +++++ + ++ +++ + +++++ ++
F53H10.2 351 nistvpgtelpytpppilapmrngsglfcqivksansslpvaeqspdaps 400
RF
..................................................
++++ +++ ++ +++++++++++++++++ ++ ++++ ++ +
F53H10.2 401 cstngvdgdmkhlmngkkrsedgdgpsrkngffymaqqmnqtnfanelea 450
RF
..................................................
++++ ++++ +++ +++++++ ++ ++ + +++ + +++++ ++++
F53H10.2 451 lrkeswastssadekmqterkeslesirkascmsdsyyeieegpkisdpn 500
RF
..................................................
++ + +++ + + ++ +++ ++++++ +++++ +++ ++ ++++
F53H10.2 501 phinlgknyqarvkkwcdrqvstserdaiedrdeivfsseilqdidpeqi 550
RF
..................................................
+ + ++ ++ +++++ + +++++ + ++ ++++ + ++
F53H10.2 551 tafellacsqacpragrnkelalhllmenkgnieaavedllrsdtldweh 600
RF
..................................................
++ + +++ ++++ + ++ +++++ ++ + ++++ ++
F53H10.2 601 yssvfgymyndsvlwtpdeiyqfqdaiyqsekdfdkvavelpgksvkecv 650
RF
..................................................
+ + +++ +++ ++ ++ +++++ + + ++++++++ + ++ + +
F53H10.2 651 qfyytwkkdcpddyrklrnlrrkrqlldinlqknqseepvvpakkisiie 700
RF
..................................................
+++++++++ ++++ ++++ + +++ +++ +++++++ + ++++++
F53H10.2 701 sgdsdnesnatdssfignghmefrdraftspmmsspreepiiglspsskd 750
RF
..................................................
+ +++ +++ ++ +++++ + ++++ +++ ++ + + ++ ++ ++
F53H10.2 751 lfgiqknyqptaprahhtpsasaskkgaqpsadgffhcrlcdkcfekvks 800
RF
..................................................
+ + +++ + + +++ + ++ + + ++ ++ +++ +++
F53H10.2 801 lnahmkshamkaraeqeakahdaqvaaaaaaqltsavgnvvgnpvatspl 850
RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
..............lageLlqslfrvllkklekdvreklqkllkkkskkk
++ +++ + + ++ +g+L +++ +l+++++ +l+ l ++ s +
F53H10.2 851 nsfanghlgisipsTIGNLTPQQLTPQQLNLNQQLQTQLNSLSNQMSLNS 900
RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxx
elnlqrllkalvksaktitsglkeflatg<-*
l q++l+++ ++ + + +++++ l
F53H10.2 901 PLTPQQQLQQFTQQ-HLMARAMQQNLFQP 928