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/ZK593.5
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Query: ZK593.5 CE30718 locus:dnc-1 dynactin status:Partially_confirmed TN:CAA93427 protein_id:CAA93427.2
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
CAP_GLY CAP-Gly domain 91.5 5.9e-27 1
Pox_A_type_inc Viral A-type inclusion protein repeat 9.1 0.79 3
GRIP GRIP domain 6.0 4.8 1
HTH_3 Helix-turn-helix 5.0 9.9 1
Lipoprotein_14 Actinobacillus constitutively-expresse 4.9 1.4 1
vATP-synt_AC39 ATP synthase (C/AC39) subunit 3.8 4.8 1
PS_pyruv_trans Polysaccharide pyruvyl transferase 3.0 5.9 1
RNA_pol_Rpb1_5 RNA polymerase Rpb1, domain 5 2.8 2.8 1
Caulimo_AT Aphid transmission protein 2.2 7.2 1
SHQ1 SHQ1 protein 1.9 7.4 1
CBM_15 Carbohydrate binding domain (family 15 1.9 9.9 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Lipoprotein_14 1/1 19 46 .. 344 371 .] 4.9 1.4
CAP_GLY 1/1 22 64 .. 1 44 [] 91.5 5.9e-27
CBM_15 1/1 284 299 .. 151 166 .] 1.9 9.9
GRIP 1/1 290 299 .. 1 10 [. 6.0 4.8
Caulimo_AT 1/1 287 309 .. 117 142 .. 2.2 7.2
Pox_A_type_inc 1/3 292 314 .. 1 23 [] 11.7 0.13
Pox_A_type_inc 2/3 344 357 .. 8 21 .. 0.9 2.5e+02
RNA_pol_Rpb1_5 1/1 29 412 .. 71 210 .] 2.8 2.8
PS_pyruv_trans 1/1 395 431 .. 376 412 .] 3.0 5.9
vATP-synt_AC39 1/1 496 513 .. 330 348 .] 3.8 4.8
Pox_A_type_inc 3/3 565 587 .. 1 23 [] 5.5 9.9
HTH_3 1/1 749 781 .. 30 59 .] 5.0 9.9
SHQ1 1/1 1099 1118 .. 205 230 .] 1.9 7.4
Alignments of top-scoring domains:
Lipoprotein_14: domain 1 of 1, from 19 to 46: score 4.9, E = 1.4
*->vLAGkAeskkgeWqGviGAtAttKEDKK<-*
v G+ + +g+W Gvi tAt K
ZK593.5 19 VFCGQTQFAEGDWVGVILDTATGKNNGT 46
CAP_GLY: domain 1 of 1, from 22 to 64: score 91.5, E = 5.9e-27
*->GetdfaaGkWvGVeLDePlGKNDGSvqGvrYFqCepkqyGlFvr<-*
G+t+fa+G+WvGV+LD+++GKN+G+vq+v+YF+Cep+ +G+Fv+
ZK593.5 22 GQTQFAEGDWVGVILDTATGKNNGTVQNVQYFECEPN-FGVFVK 64
CBM_15: domain 1 of 1, from 284 to 299: score 1.9, E = 9.9
*->sssAqssstGsvYSAN<-*
sssAq sst Y N
ZK593.5 284 SSSAQESSTEIEYLRN 299
GRIP: domain 1 of 1, from 290 to 299: score 6.0, E = 4.8
*->seaeiEYLrN<-*
s +eiEYLrN
ZK593.5 290 SSTEIEYLRN 299
Caulimo_AT: domain 1 of 1, from 287 to 309: score 2.2, E = 7.2
*->aqnqviLdkkIenLetavkeLddkie<-*
aq+ ++ Ie L ++vkeL +k+e
ZK593.5 287 AQE---SSTEIEYLRNQVKELTEKLE 309
Pox_A_type_inc: domain 1 of 3, from 292 to 314: score 11.7, E = 0.13
*->rEldrlRrrIsdLekqLsdcrrn<-*
+E++ lR+++++L ++L++ r +
ZK593.5 292 TEIEYLRNQVKELTEKLEAARVK 314
Pox_A_type_inc: domain 2 of 3, from 344 to 357: score 0.9, E = 2.5e+02
*->rrIsdLekqLsdcr<-*
++I++Lekq+ d+r
ZK593.5 344 QKITELEKQIGDER 357
RNA_pol_Rpb1_5: domain 1 of 1, from 29 to 412: score 2.8, E = 2.8
RF xxxxxxxxxxxxxx xxxxxxxxxxxxxx
*->geavGiiaaqsige.pgtqltlrtfHlag..................
g+ vG+i + g++ gt ++ f + + +++ + ++ ++
ZK593.5 29 GDWVGVILDTATGKnNGTVQNVQYFECEPnfgvfvkssaveledask 75
RF
..................................................
+++ + + + +++++ +++ +++ +++++++ ++ ++++ ++++++
ZK593.5 76 rsglkapaasairkdssvmsrsagskaspgsspgmspaassekltgrqtg 125
RF
..................................................
++++ ++ ++++++ ++ ++ ++++ +++ + + ++++++ + +++
ZK593.5 126 mgprsmskladpnesrmvrefsnlsqssvassrasasaskprpqftapdp 175
RF
..................................................
++++ ++++ ++++ + ++++ ++++++ ++++ + +++++ + + +
ZK593.5 176 rrqslappkkastttapvskpslskprqslapskpaevtpqkpvpaaqas 225
RF
..................................................
+ ++++++ + ++ ++++++ ++++ ++ ++ +++++ + ++ +++
ZK593.5 226 eagdppnelplptmtesgtelpkesvlsrakkiddtgpaapmsplsttaa 275
RF xxxxxxxxxxxxxxxxxxxxxxxx
..........................keeekkieeekkkeavlkvegkel
++++++ +++ ++++++ + +++ ke ++k+e+++ k+++ ++++ el
ZK593.5 276 arprttsvsssaqessteieylrnqvKELTEKLEAARVKRKEDHTKVMEL 325
RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
qkvlkelqgvikadktienkvlevlkvlgieaaresilkeleevlkkegi
++v el+ +++ + +k++e+ k +g e + +l++ ++ k ++
ZK593.5 326 DRVSFELRSSEEVRSRLIQKITELEKQIGDERIAKEQLQAWQDENKVLLS 375
RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
evnerhlalladlmtakgellgitraglkkeeesvlsa<-*
+ + + +++ + a++ +++ l+ + e + s+
ZK593.5 376 DHQDTMEMATIEKELAEERADSLQNDVLTLT-EKLESM 412
PS_pyruv_trans: domain 1 of 1, from 395 to 431: score 3.0, E = 5.9
*->agpllevvldlleqllekettlskrveevrksalknf<-*
a++l++ vl l+e+l+ +et l+ ee++ ++++ +
ZK593.5 395 ADSLQNDVLTLTEKLESMETELEILKEEMANGGGAAQ 431
vATP-synt_AC39: domain 1 of 1, from 496 to 513: score 3.8, E = 4.8
*->IArgkeqglkpErIkeeiv<-*
IA++k++g+ E+I++ ++
ZK593.5 496 IAESKIAGFQ-EQIDAAMG 513
[output cut off at A = 10 top alignments]