hmmpfam - search one or more sequences against HMM database
HMMER 2.3.2 (Oct 2003)
Copyright (C) 1992-2003 HHMI/Washington University School of Medicine
Freely distributed under the GNU General Public License (GPL)
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HMM file: /usr1/pfam-23.0/Pfam_fs
Sequence file: 54298082.fa
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Query sequence: gi|54298082|ref|YP_124451.1|
Accession: [none]
Description: hypothetical protein lpp2139 [Legionella pneumophila str. Paris]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
Nbs1_C DNA damage repair protein Nbs1 6.0 0.066 1
IMD IRSp53/MIM homology domain 2.0 1.9 1
Med1-Trap220 Mediator of RNA polymerase II transcr 1.8 2.2 1
FliO Flagellar biosynthesis protein, FliO 2.9 3.2 1
DnaJ_C DnaJ C terminal region 2.6 4.1 1
F-112 F-112 protein 0.9 4.4 1
Acyl-CoA_dh_N Acyl-CoA dehydrogenase, N-terminal do 1.7 5 1
XLF XLF (XRCC4-like factor) 1.6 5.1 1
DUF1742 Fungal protein of unknown function (D 0.5 5.2 1
DUF2089 Uncharacterized protein conserved in 0.7 6.1 1
Methylase_S Type I restriction modification DNA s 1.6 6.6 1
DUF972 Protein of unknown function (DUF972) 1.3 7.1 1
Glyco_hydro_77 4-alpha-glucanotransferase -0.3 7.6 1
Baculo_8kDa Baculoviridae 8.2 KDa protein 1.7 7.9 1
TFIID_20kDa Transcription initiation factor TFIID 1.5 8.6 1
Baculo_p33 Baculovirus P33 -0.3 9.1 1
SRP19 SRP19 protein 1.9 9.3 1
Octopine_DH NAD/NADP octopine/nopaline dehydrogen 0.7 9.4 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
Acyl-CoA_dh_N 1/1 24 37 .. 1 15 [. 1.7 5
SRP19 1/1 54 61 .. 1 8 [. 1.9 9.3
DUF2089 1/1 73 86 .. 92 105 .. 0.7 6.1
DnaJ_C 1/1 75 86 .. 112 123 .] 2.6 4.1
Methylase_S 1/1 76 90 .. 159 176 .] 1.6 6.6
Baculo_8kDa 1/1 117 124 .. 61 68 .] 1.7 7.9
FliO 1/1 144 162 .. 64 82 .] 2.9 3.2
XLF 1/1 236 262 .. 165 207 .] 1.6 5.1
F-112 1/1 239 250 .. 99 110 .] 0.9 4.4
IMD 1/1 250 260 .. 1 12 [. 2.0 1.9
TFIID_20kDa 1/1 404 412 .. 60 68 .] 1.5 8.6
Octopine_DH 1/1 418 439 .. 1 22 [. 0.7 9.4
DUF1742 1/1 441 469 .. 130 158 .. 0.5 5.2
Nbs1_C 1/1 490 499 .. 56 65 .] 6.0 0.066
Glyco_hydro_77 1/1 498 521 .. 555 585 .] -0.3 7.6
Baculo_p33 1/1 499 520 .. 180 203 .. -0.3 9.1
DUF972 1/1 528 557 .. 1 32 [. 1.3 7.1
Med1-Trap220 1/1 607 622 .. 515 530 .] 1.8 2.2
Alignments of top-scoring domains:
Acyl-CoA_dh_N: domain 1 of 1, from 24 to 37: score 1.7, E = 5
CS -HHHHHHHHH.HHHH
*->teEqealrdtdvReF<-*
+eE+ ++++ +R+F
gi|5429808 24 SEEENEIQAF-IRRF 37
SRP19: domain 1 of 1, from 54 to 61: score 1.9, E = 9.3
CS EEEECCCC
*->qvvwPvYl<-*
qv++P+ +
gi|5429808 54 QVIYPCDI 61
DUF2089: domain 1 of 1, from 73 to 86: score 0.7, E = 6.1
*->ektvdkkeiLdkLe<-*
e+t ++keiL+kL+
gi|5429808 73 EPTQEQKEILSKLK 86
DnaJ_C: domain 1 of 1, from 75 to 86: score 2.6, E = 4.1
*->seeQkeLLeela<-*
++eQke L +l+
gi|5429808 75 TQEQKEILSKLK 86
Methylase_S: domain 1 of 1, from 76 to 90: score 1.6, E = 6.6
CS HH...HHHHHHHHHHHHH
*->eESLiQqkIasiLdqLDa<-*
+E Q++I s+L++ D+
gi|5429808 76 QE---QKEILSKLKPQDK 90
Baculo_8kDa: domain 1 of 1, from 117 to 124: score 1.7, E = 7.9
*->dkdyNKEN<-*
+k++NKEN
gi|5429808 117 EKGINKEN 124
FliO: domain 1 of 1, from 144 to 162: score 2.9, E = 3.2
*->egappagsFAqrLkqllkk<-*
+g ++sFA++L +ll+k
gi|5429808 144 GGSQGKDSFAAKLHSLLGK 162
XLF: domain 1 of 1, from 236 to 262: score 1.6, E = 5.1
*->esqqvieeLidlLneKDaDDDFdDFQFFGiKreidkLqdkled<-*
++++ +Li ++ K++ +++++d++
gi|5429808 236 SYRE--STLIGFIKLKQS--------------ILERMNDSYTG 262
F-112: domain 1 of 1, from 239 to 250: score 0.9, E = 4.4
*->EqtDqGFIkaKQ<-*
E t GFIk KQ
gi|5429808 239 ESTLIGFIKLKQ 250
IMD: domain 1 of 1, from 250 to 260: score 2.0, E = 1.9
CS HHHHHHTHH...
*->yknImeqFNaSY<-*
++I+e++N SY
gi|5429808 250 -QSILERMNDSY 260
TFIID_20kDa: domain 1 of 1, from 404 to 412: score 1.5, E = 8.6
CS HHHHHHS--
*->LHLERnwNm<-*
+ L Rn+Nm
gi|5429808 404 FLLTRNYNM 412
Octopine_DH: domain 1 of 1, from 418 to 439: score 0.7, E = 9.4
CS EEE-S-HHHHHH--HHHHHTHH
*->lvlaenlLsisLsnvNpivHPp<-*
l++++++++ s++ +N ++H +
gi|5429808 418 LMVVPDYIEKSINLLNRMIHLA 439
DUF1742: domain 1 of 1, from 441 to 469: score 0.5, E = 5.2
*->erkekklslqyskeldkspesepkprkYt<-*
e+k++ l++q+++ ++ks + +k+ kY+
gi|5429808 441 ESKLDNLQKQKEMQEIKSQMVFYKNAKYE 469
Nbs1_C: domain 1 of 1, from 490 to 499: score 6.0, E = 0.066
*->EsLaDDLFRY<-*
E + DLFRY
gi|5429808 490 EKISNDLFRY 499
Glyco_hydro_77: domain 1 of 1, from 498 to 521: score -0.3, E = 7.6
CS -B---TT.......SSGHHHHHHHHHHHHHT
*->rwRlkpsldsPmLLelifalkafiklltaiy<-*
r+++k + ++if+++ ++++lt+ +
gi|5429808 498 RYKVKMN-------DEIFTDEINLSNLTKNS 521
Baculo_p33: domain 1 of 1, from 499 to 520: score -0.3, E = 9.1
*->yREkmGEpiimVDEcitrsnsnkN<-*
y+ km+++i ++DE i+ sn +kN
gi|5429808 499 YKVKMNDEI-FTDE-INLSNLTKN 520
DUF972: domain 1 of 1, from 528 to 557: score 1.3, E = 7.1
*->MDKkeLFDqldeLEqqlgqllaelgeLKaqla<-*
M k+ F l++L qq+ +++++ g K++l+
gi|5429808 528 M--KDDFSLLNSLKQQILDITSQRGHTKKELT 557
Med1-Trap220: domain 1 of 1, from 607 to 622: score 1.8, E = 2.2
*->qavlatLlesifsats<-*
qa +a++l++++s+++
gi|5429808 607 QAEHANVLHKVISRCE 622
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