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: hmm5/seq/Y37B11A.2
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Query: Y37B11A.2 CE27403 status:Partially_confirmed TR:Q9BKQ3 protein_id:AAK31564.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
DNA_pol_B DNA polymerase family B 332.6 4.4e-96 1
DNA_pol_B_exo DNA polymerase family B, exonuclease do 5.4 1 1
RNA_pol_A_bac RNA polymerase Rpb3/RpoA insert domain 3.8 8.7 1
Adeno_PV Adenovirus minor core protein PV 2.2 6 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
DNA_pol_B_exo 1/1 428 456 .. 321 351 .. 5.4 1
Adeno_PV 1/1 695 710 .. 457 474 .] 2.2 6
RNA_pol_A_bac 1/1 774 793 .. 118 156 .] 3.8 8.7
DNA_pol_B 1/1 603 1065 .. 1 558 [] 332.6 4.4e-96
Alignments of top-scoring domains:
DNA_pol_B_exo: domain 1 of 1, from 428 to 456: score 5.4, E = 1
*->vyefNEdsEkeLLqaFfefireydPDvitGY<-*
v++ +E e+L+ ++i +yd Dv +GY
Y37B11A.2 428 VVHM--ETELEMLEEVAKWIVQYDVDVMIGY 456
Adeno_PV: domain 1 of 1, from 695 to 710: score 2.2, E = 6
*->rrgRtllLPavRYHPSIl<-*
r+ ++L a+ YHPS +
Y37B11A.2 695 REE--IVLGAIKYHPSKD 710
RNA_pol_A_bac: domain 1 of 1, from 774 to 793: score 3.8, E = 8.7
*->eLelearakkGrGyvhAkRqenkeedrpiGrIpvDsifS<-*
+L l+++a+ +Gy+ A+ +S
Y37B11A.2 774 QLALKLVANVSYGYTAAN-------------------WS 793
DNA_pol_B: domain 1 of 1, from 603 to 1065: score 332.6, E = 4.4e-96
*->GqqirveslLLreakernfilPdkker...rkkekYqGAtVlePksG
G+q rves+LLr+a+++nf+ P+ ++++ + + q + leP+s+
Y37B11A.2 603 GSQLRVESMLLRLAHRMNFVAPSITHLqrnMMGSPEQLQLILEPQSK 649
fYdnpvlvLDFaSLYPSIIiahNlCysTlvrdv.................
+Y++pv+vLDF+SLYPS ia+N CysT+++ ++ + +++++++++
Y37B11A.2 650 VYFDPVIVLDFQSLYPSMVIAYNYCYSTILGKIgnlvqmndesrnreeiv 699
........eedpglslereeppeldvltcdfvvgsgvgerfvkspgvreg
+ + ++++d+ ++l + + v+ s+++ fvk + reg
Y37B11A.2 700 lgaikyhpSKDDIVKLV-------AYKE---VCASPLASMFVK-KSKREG 738
iLpeLLedwladkRkeikklmkeskdpekrlrllLDkqQlAlKvtaNSvY
+ p LL++ la +R ++k +mk k+ + + +LD +QlAlK++aN Y
Y37B11A.2 739 VMPLLLREILA-ARIMVKSAMKRTKNKKL--KRILDARQLALKLVANVSY 785
GftGaang.rLpclpiAesvTaiGRemLekTkdyveelsnspeiLn.elg
G+t a++++r+pc ++A ++ +GRe+Le+ ++ v+ ++ g
Y37B11A.2 786 GYTAANWSgRMPCAELADAILGKGRETLERSIEMVQR--------GdYGG 827
nkigtyfkViYGDTDSvFvkfggddaevkgrlkleedneeavklgeelak
++ViYGDTDS+Fv ++g + eea+++g+++++
Y37B11A.2 828 ------AEVIYGDTDSMFVLVRGASV------------EEAFEIGRRIVD 859
hvtsnlfykpikLEfEkvfkpllLitlKKrYaglkyegdgdvndagkdkl
vt++ +++p+ L +Ekv+k + L t KKrYag +ye d+ + l
Y37B11A.2 860 DVTNS-NPDPVVLKLEKVYKGCVLET-KKRYAGWMYEHENDE-----GSL 902
lmKGvdlVRRDwcpfvkevfrkvldlilkdedvdeavaaelslrviieel
+ KG+++VRRD+cp+v ev +k l li++ + ++ + +l+ v ++
Y37B11A.2 903 DAKGIETVRRDTCPIVAEVLEKSLGLIFSQNWK-TF-ITYLN-TVVLNLP 949
knrglPeGflkvidvLneayydllnnkvkpledlvitkeLsrkppsaYkn
++ + +++v+ ke+ +Y +
Y37B11A.2 950 QE---------------------------NFSKFVFCKEYR----GDYSA 968
knlpeerpHvtvalrlkergr.....eelPevGDRipYVivkgkkeiera
+++ v ++++++ r ++ +++ G+R+pYVi++g +++
Y37B11A.2 969 RAM--------VPQKKIAEARirkcpSHITLRGERVPYVIIDGVTGST-- 1008
avrGyrkgatapndpepkptakgkradgkrgaktyelaedpeyvlennei
+ ++ + a++pey+
Y37B11A.2 1009 --------------------------VYSCVRSIDQFARNPEYK------ 1026
kslpiDaeyYlenqllppverileaifgntdvvslekllgafipkr<-*
i++ yYl ++l ++ r+ i+ +d ++++ + ++ +
Y37B11A.2 1027 ----INTFYYLNAHILAALRRVTDLIPMKIDFLPFA---AEQCFVS 1065