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: hmm5a/seq/ZK593.4
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Query: ZK593.4 CE06625 Human XE169 like status:Partially_confirmed TR:Q23541 protein_id:CAA93426.1
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
jmjC jmjC domain 205.7 1.1e-58 1
ARID ARID/BRIGHT DNA binding domain 185.9 6.5e-52 1
zf-C5HC2 C5HC2 zinc finger 96.7 2.7e-25 1
jmjN jmjN domain 94.8 1.1e-24 1
PHD PHD-finger 68.7 4.9e-21 4
RNA_POL_M_15KD RNA polymerases M/15 Kd subunit 9.3 0.5 1
histone Core histone H2A/H2B/H3/H4 7.7 0.52 1
Leo1 Leo1-like protein 5.7 0.87 1
MarR MarR family 3.9 9.2 1
zf-NPL4 NPL4 family, putative zinc binding reg 3.6 6.7 1
Paramyx_P_V Paramyxovirus P/V phosphoprotein 3.1 7.8 1
START START domain 2.9 9.8 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
RNA_POL_M_15KD 1/1 63 86 .. 32 59 .] 9.3 0.5
jmjN 1/1 55 101 .. 1 55 [] 94.8 1.1e-24
zf-NPL4 1/1 123 140 .. 132 149 .] 3.6 6.7
ARID 1/1 118 233 .. 1 116 [] 185.9 6.5e-52
Leo1 1/1 224 245 .. 356 377 .] 5.7 0.87
histone 1/1 229 258 .. 88 117 .] 7.7 0.52
PHD 1/4 274 324 .. 1 51 [] 56.6 3.9e-17
jmjC 1/1 454 570 .. 1 126 [] 205.7 1.1e-58
MarR 1/1 628 640 .. 95 107 .] 3.9 9.2
zf-C5HC2 1/1 662 715 .. 1 59 [] 96.7 2.7e-25
START 1/1 708 739 .. 1 34 [. 2.9 9.8
Paramyx_P_V 1/1 852 865 .. 1 14 [. 3.1 7.8
PHD 2/4 1160 1182 .. 29 51 .] 0.4 63
PHD 3/4 1194 1210 .. 35 51 .] 0.4 65
PHD 4/4 1370 1419 .. 3 51 .] 29.0 3.4e-08
Alignments of top-scoring domains:
RNA_POL_M_15KD: domain 1 of 1, from 63 to 86: score 9.3, E = 0.5
*->eepadqfedkEaiykrkikhkkeeftvi<-*
ee+++++ +y+ ki h++e+f v+
ZK593.4 63 EEEFSDP----IEYVAKIRHEAEKFGVV 86
jmjN: domain 1 of 1, from 55 to 101: score 94.8, E = 1.1e-24
*->eiPvFyPtmeEFeDplaYIakIHirpgAekyGivKVvPPkeWLELLE
++P++yPt+eEF+Dp++Y+ak ir++Aek+G+vK+vPP+++
ZK593.4 55 MAPIYYPTEEEFSDPIEYVAK--IRHEAEKFGVVKIVPPANF----- 94
GkPpcald<-*
kPp+a+d
ZK593.4 95 -KPPFAID 101
zf-NPL4: domain 1 of 1, from 123 to 140: score 3.6, E = 6.7
*->enseiVdrFLdyWRktGh<-*
e+++ +dr +++ R++G
ZK593.4 123 EKHTFIDRLINFNRYSGL 140
ARID: domain 1 of 1, from 118 to 233: score 185.9, E = 6.5e-52
*->eaqtrerkeFldrLikFmekrGtpltkiPvvgk.keLDLYrLyrlVk
ea+++e+++F+drLi+F++++G ++++Pv+++++++DLYrL+r+V+
ZK593.4 118 EAIVKEKHTFIDRLINFNRYSGL-TFEFPVDRDgNIVDLYRLHRIVQ 163
ekGGlqqVtkkkkWreiareLnipdsisRGvPSsaaslLrshYmryLypy
++GG+++V++++kWr++are+ ++++++RGvPS++++l+rshY+ +++p+
ZK593.4 164 NFGGCEEVNEDEKWRDVAREYLPKEQMARGVPSAFINLIRSHYNLHIEPF 213
Ecyeeeenlpdeteaamdme<-*
+++ +e+++++++e++++me
ZK593.4 214 NRNLKEKAMKNDDESDDEME 233
Leo1: domain 1 of 1, from 224 to 245: score 5.7, E = 0.87
*->edegsdeEtrkekevkkegasr<-*
+d +sd+E++++k k+ g+s
ZK593.4 224 NDDESDDEMEELKHKKTLGTSS 245
histone: domain 1 of 1, from 229 to 258: score 7.7, E = 0.52
*->dlelelakhAvtegtkaVtpniskrllgkk<-*
d+e e +kh +t gt+++ ++++ r +kk
ZK593.4 229 DDEMEELKHKKTLGTSSKKNSTRGRKNKKK 258
PHD: domain 1 of 4, from 274 to 324: score 56.6, E = 3.9e-17
*->yCsvCgkvdddaggdllqCD..gCdrwfHlaClgppleeppegkWlC
+C+ C+++ d +++ll+CD +gC+ H++C++p l+e+peg+W+C
ZK593.4 274 FCVACNEGKD--EDLLLLCDidGCNNGRHTYCCDPVLDEVPEGEWRC 318
peCtpk<-*
p+C+++
ZK593.4 319 PKCIES 324
jmjC: domain 1 of 1, from 454 to 570: score 205.7, E = 1.1e-58
*->wlylGmpfsttpwHiedqglySinylhfgapkvWyiiPpeyaekfek
w+y+Gm+fst++wH+ed+++yS+ny+hfg++k+Wy++ +e+aekfe
ZK593.4 454 WVYVGMCFSTFCWHTEDHWTYSVNYNHFGERKIWYGVGGEDAEKFE- 499
lhkflskhgpapdleggeqpdldlrhlltlisPkvlpLlenGipvyrfvQ
++l+k ap+l g+q+dl +h +t +P++ L+ G+p++ ++Q
ZK593.4 500 --DALKKI--APGL-TGRQRDL-FHHMTTAANPHL--LRSLGVPIHSVHQ 541
kpGEfVftfPGayHqVfNlGfniaeavNF<-*
++GEfV+tfP+ayH++fN G n+aeavNF
ZK593.4 542 NAGEFVITFPRAYHAGFNEGLNFAEAVNF 570
MarR: domain 1 of 1, from 628 to 640: score 3.9, E = 9.2
*->eEketLekllakL<-*
e++++L++lla+L
ZK593.4 628 EKQKMLRELLARL 640
zf-C5HC2: domain 1 of 1, from 662 to 715: score 96.7, E = 2.7e-25
*->CqiCkttlyLSAvvCsCspnklvCLeCALRHvkdLCssCepkdltLl
C++Ckttl+++A+vC++ ++k++C+e H+++LC+sC++kd++++
ZK593.4 662 CRFCKTTLFMCALVCNK-HKKMTCVE----HHDHLCNSCTTKDYRYQ 703
YRYtlDeLpsLv<-*
YR++lD+L++++
ZK593.4 704 YRFELDQLNNMC 715
[output cut off at A = 10 top alignments]