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: 134103275.fa
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Query sequence: gi|134103275|ref|YP_001108936.1|
Accession: [none]
Description: PE-PGRS family protein [Saccharopolyspora erythraea NRRL 2338]
Scores for sequence family classification (score includes all domains):
Model Description Score E-value N
-------- ----------- ----- ------- ---
Bombolitin Bombolitin family 6.5 0.57 1
DUF1451 Protein of unknown function (DUF1451) 4.8 0.83 1
DUF1792 Domain of unknown function (DUF1792) 3.9 1.1 1
DUF721 Protein of unknown function (DUF721) 3.8 1.4 1
RnaseA Pancreatic ribonuclease 2.6 1.6 1
Gmad1 Lipoprotein LpqB beta-propeller domai 2.9 1.7 1
Reo_sigmaC Reovirus sigma C capsid protein 1.7 1.8 1
SPDY Domain of unknown function (DUF317) 4.0 2.6 1
Filamin Filamin/ABP280 repeat 3.2 2.9 1
DUF816 Baculovirus protein of unknown functi 2.3 3 1
LRV Leucine rich repeat variant 5.4 3.1 2
Antimicrobial_8 Uperin family 4.8 3.4 1
Rod-binding Rod binding protein 3.5 3.5 1
Albicidin_res Albicidin resistance domain 2.2 3.7 1
ProRS-C_2 Prolyl-tRNA synthetase, C-terminal 1.4 4 1
DUF2250 Uncharacterized protein conserved in 1.5 5 1
NHR2 NHR2 domain like 1.5 5.4 1
PSD1 Protein of unknown function (DUF1553) 0.6 5.4 1
HA Helicase associated domain 2.9 5.7 1
4_1_CTD 4.1 protein C-terminal domain (CTD) 1.4 5.8 1
DUF1396 Protein of unknown function (DUF1396) -0.8 6.2 1
Kelch_2 Kelch motif 3.3 6.7 1
Beta-trefoil Beta-trefoil 0.3 6.9 1
DUF1388 Repeat of unknown function (DUF1388) 2.5 7.4 1
Z1 Z1 domain 0.3 7.8 1
TSNR_N Thiostrepton-resistance methylase, N 1.1 8.3 1
DNA_pol3_beta_2 DNA polymerase III beta subunit, cent 0.7 8.5 1
Prox1 Homeobox prospero-like protein (PROX1 -2.8 8.7 1
IU_nuc_hydro Inosine-uridine preferring nucleoside -0.8 8.9 1
Met_asp_mut_E Methylaspartate mutase E chain (MutE) -1.0 9 1
NRPS Nonribosomal peptide synthase -0.1 9.2 1
NikR_C NikR C terminal nickel binding domain 1.8 9.2 1
AMH_N Anti-Mullerian hormone, N terminal re -1.2 9.5 1
S-AdoMet_synt_M S-adenosylmethionine synthetase, cent 0.9 9.7 1
Parsed for domains:
Model Domain seq-f seq-t hmm-f hmm-t score E-value
-------- ------- ----- ----- ----- ----- ----- -------
ProRS-C_2 1/1 27 41 .. 1 15 [. 1.4 4
Beta-trefoil 1/1 39 45 .. 199 205 .] 0.3 6.9
Z1 1/1 83 92 .. 1 10 [. 0.3 7.8
LRV 1/2 87 97 .. 16 26 .] 3.5 11
Gmad1 1/1 92 121 .. 259 297 .] 2.9 1.7
Filamin 1/1 93 103 .. 1 11 [. 3.2 2.9
DUF2250 1/1 164 179 .. 190 205 .] 1.5 5
DUF816 1/1 174 190 .. 1 20 [. 2.3 3
IU_nuc_hydro 1/1 180 190 .. 355 365 .] -0.8 8.9
Bombolitin 1/1 220 236 .. 1 17 [] 6.5 0.57
DUF721 1/1 221 261 .. 1 47 [. 3.8 1.4
Antimicrobial_8 1/1 222 237 .. 1 17 [] 4.8 3.4
DUF1451 1/1 225 259 .. 1 35 [. 4.8 0.83
TSNR_N 1/1 278 293 .. 101 115 .] 1.1 8.3
DUF1388 1/1 521 549 .. 1 29 [] 2.5 7.4
AMH_N 1/1 810 835 .. 1 34 [. -1.2 9.5
NHR2 1/1 971 982 .. 56 67 .] 1.5 5.4
Met_asp_mut_E 1/1 1087 1094 .. 1 8 [. -1.0 9
DNA_pol3_beta_2 1/1 1110 1122 .. 1 13 [. 0.7 8.5
Reo_sigmaC 1/1 1132 1143 .. 315 326 .] 1.7 1.8
Prox1 1/1 1147 1155 .. 1539 1547 .] -2.8 8.7
NRPS 1/1 1185 1210 .. 34 62 .] -0.1 9.2
DUF1396 1/1 1200 1216 .. 1 19 [. -0.8 6.2
SPDY 1/1 1206 1228 .. 1 28 [. 4.0 2.6
Albicidin_res 1/1 1227 1250 .. 1 25 [. 2.2 3.7
S-AdoMet_synt_M 1/1 1279 1286 .. 116 123 .] 0.9 9.7
RnaseA 1/1 1346 1354 .. 121 129 .] 2.6 1.6
Kelch_2 1/1 1357 1375 .. 36 54 .] 3.3 6.7
HA 1/1 1687 1702 .. 56 71 .] 2.9 5.7
PSD1 1/1 1735 1753 .. 264 282 .] 0.6 5.4
LRV 2/2 1760 1775 .. 11 26 .] 1.9 28
NikR_C 1/1 1786 1795 .. 1 10 [. 1.8 9.2
Rod-binding 1/1 1803 1810 .. 1 9 [. 3.5 3.5
4_1_CTD 1/1 1877 1891 .. 1 15 [. 1.4 5.8
DUF1792 1/1 1921 1930 .. 1 10 [. 3.9 1.1
Alignments of top-scoring domains:
ProRS-C_2: domain 1 of 1, from 27 to 41: score 1.4, E = 4
CS EEE-S...S--..HH
*->ITvLdFEnDvNsLsd<-*
+ +L+F Dv sL d
gi|1341032 27 VGILEFYHDVSSLND 41
Beta-trefoil: domain 1 of 1, from 39 to 45: score 0.3, E = 6.9
*->LNdGaeW<-*
LNdG++W
gi|1341032 39 LNDGSSW 45
Z1: domain 1 of 1, from 83 to 92: score 0.3, E = 7.8
*->eSLrdAidsF<-*
e L++A+d+F
gi|1341032 83 EPLKEALDWF 92
LRV: domain 1 of 2, from 87 to 97: score 3.5, E = 11
CS GGGGGGTT-SS
*->eaLerLaaDpd<-*
eaL + a Dpd
gi|1341032 87 EALDWFAGDPD 97
Gmad1: domain 1 of 1, from 92 to 121: score 2.9, E = 1.7
*->vvtdadgllqlFpassiesgqgWrevpglvGagtaPvyP<-*
+++d+dg++ g++W++v + ++ +a++y+
gi|1341032 92 FAGDPDGVKAY--------GATWTKVSE-AVGEAAASYA 121
Filamin: domain 1 of 1, from 93 to 103: score 3.2, E = 2.9
CS ---SSSEEEE-
*->agDasKVkayG<-*
agD++ VkayG
gi|1341032 93 AGDPDGVKAYG 103
DUF2250: domain 1 of 1, from 164 to 179: score 1.5, E = 5
*->lTrlGeevkFfrelkr<-*
+T Ge+v F+re +r
gi|1341032 164 VTIMGEVVSFVREFVR 179
DUF816: domain 1 of 1, from 174 to 190: score 2.3, E = 3
*->tvdvdeFakqLIadkcsaLI<-*
v eF + L+ad +s LI
gi|1341032 174 ---VREFVRDLVADCISRLI 190
IU_nuc_hydro: domain 1 of 1, from 180 to 190: score -0.8, E = 8.9
CS HHHHHHHHCCS
*->dlvfevlrraa<-*
dlv++++ r++
gi|1341032 180 DLVADCISRLI 190
Bombolitin: domain 1 of 1, from 220 to 236: score 6.5, E = 0.57
*->iKitDiLAKLGKvLAHv<-*
Ki Di+ KL K + v
gi|1341032 220 AKIADIVQKLIKTISNV 236
DUF721: domain 1 of 1, from 221 to 261: score 3.8, E = 1.4
*->slgdllngellrklgekwekralalarllqaWpeiVGpalAahtrPv
+++d++ ++l++++ a +lar+ + e++ +al + t+Pv
gi|1341032 221 KIADIV-QKLIKTIS----NVAPKLARMAEVFGEVM-KALGKLTKPV 261
<-*
gi|1341032 - -
Antimicrobial_8: domain 1 of 1, from 222 to 237: score 4.8, E = 3.4
*->GVgdlirKivsaiKNVv<-*
+ d+++K + +i NV+
gi|1341032 222 -IADIVQKLIKTISNVA 237
DUF1451: domain 1 of 1, from 225 to 259: score 4.8, E = 0.83
*->llerlterlklsekeLkkaveqakeylvaagdLte<-*
++ +l + ++ ++ L+++ e + e+++a+g Lt+
gi|1341032 225 IVQKLIKTISNVAPKLARMAEVFGEVMKALGKLTK 259
TSNR_N: domain 1 of 1, from 278 to 293: score 1.1, E = 8.3
*->kVPraaRlAD.leels<-*
kV ++R+AD+l+e+s
gi|1341032 278 KVDVPGRMADkLAEKS 293
DUF1388: domain 1 of 1, from 521 to 549: score 2.5, E = 7.4
*->PaenKsPgenKsPgenKsPgEnKsPaeak<-*
P+ sP+ + sPg sP sPa +
gi|1341032 521 PGTGSSPAAAASPGSGSSPDSGSSPAFGS 549
AMH_N: domain 1 of 1, from 810 to 835: score -1.2, E = 9.5
*->lrkgtpreetvaleqtlseesgleaeeregenaL<-*
+r+++pr+e ++ +g+++ +++ +aL
gi|1341032 810 PRPDAPRPE--------ASRPGAPRPDGTRPEAL 835
NHR2: domain 1 of 1, from 971 to 982: score 1.5, E = 5.4
*->WkRRssEqeelR<-*
W+RR E+ +R
gi|1341032 971 WQRRMAEDAKIR 982
Met_asp_mut_E: domain 1 of 1, from 1087 to 1094: score -1.0, E = 9
*->lPdhKrFa<-*
Pd+KrF+
gi|1341032 1087 MPDPKRFT 1094
DNA_pol3_beta_2: domain 1 of 1, from 1110 to 1122: score 0.7, E = 8.5
CS EEEHHHHHHHHHT
*->qlpqkvLkelIeq<-*
+l++k+L+e+I++
gi|1341032 1110 DLSAKELAEVIRA 1122
Reo_sigmaC: domain 1 of 1, from 1132 to 1143: score 1.7, E = 1.8
*->irFLTVRTGIDT<-*
ir L RTG DT
gi|1341032 1132 IRLLSCRTGSDT 1143
Prox1: domain 1 of 1, from 1147 to 1155: score -2.8, E = 8.7
CS -HHHH----
*->SPNfLeeLl<-*
SPNf e+L
gi|1341032 1147 SPNFAEQLS 1155
NRPS: domain 1 of 1, from 1185 to 1210: score -0.1, E = 9.2
*->glagrglaadqavtsalGepvygiSQTPQ<-*
++++++++a ++ ++++p+ ++S P
gi|1341032 1185 SFDVDSSGA---PQPHFDDPGQWVSHSPD 1210
DUF1396: domain 1 of 1, from 1200 to 1216: score -0.8, E = 6.2
*->DAaqlAElqeSadaTkalt<-*
D+ q+ ++ S d Tka++
gi|1341032 1200 DPGQW--VSHSPDGTKAVH 1216
SPDY: domain 1 of 1, from 1206 to 1228: score 4.0, E = 2.6
*->agSPDgrarlgydpdaDehgregdgpag<-*
+SPDg+ ++ + p +++g++p++
gi|1341032 1206 SHSPDGTKAVHDSP-----FPPGHDPQW 1228
Albicidin_res: domain 1 of 1, from 1227 to 1250: score 2.2, E = 3.7
*->eWpaLVaevRaamdagvdrPdspra<-*
+W+ a +++a ++g + Pd p+a
gi|1341032 1227 QWVKHGAQAQDAVRRGIP-PDHPQA 1250
S-AdoMet_synt_M: domain 1 of 1, from 1279 to 1286: score 0.9, E = 9.7
*->hInPsGrF<-*
hI P+G F
gi|1341032 1279 HISPTGDF 1286
RnaseA: domain 1 of 1, from 1346 to 1354: score 2.6, E = 1.6
CS EEEEEEEEC
*->vPVHFDasv<-*
vPVHFD+
gi|1341032 1346 VPVHFDGNQ 1354
Kelch_2: domain 1 of 1, from 1357 to 1375: score 3.3, E = 6.7
*->dllvldpetnvWeelpalp<-*
dl+ ++p+tn+We+ +++
gi|1341032 1357 DLGRFHPQTNRWEWFNPPA 1375
HA: domain 1 of 1, from 1687 to 1702: score 2.9, E = 5.7
*->kLtpeqqelLeaLgft<-*
+ pe+++lLe+Lg +
gi|1341032 1687 TAEPERRTLLERLGDV 1702
PSD1: domain 1 of 1, from 1735 to 1753: score 0.6, E = 5.4
*->lsRpPtdeEreelvtflqe<-*
lsR +t+e+ ++++++ ++
gi|1341032 1735 LSRVATAEDAAAFERLCTA 1753
LRV: domain 2 of 2, from 1760 to 1775: score 1.9, E = 28
CS ..S-GGGGGGGTT-SS
*->PdlPpeaLerLaaDpd<-*
P +P e++++ +a pd
gi|1341032 1760 PAAPDELVRARVAHPD 1775
NikR_C: domain 1 of 1, from 1786 to 1795: score 1.8, E = 9.2
CS EEEEEEEEET
*->vGtitlVYDH<-*
+ +t++YDH
gi|1341032 1786 SALLTYTYDH 1795
Rod-binding: domain 1 of 1, from 1803 to 1810: score 3.5, E = 3.5
*->KsMRkaPtp<-*
KsMR++ tp
gi|1341032 1803 KSMREG-TP 1810
4_1_CTD: domain 1 of 1, from 1877 to 1891: score 1.4, E = 5.8
*->kteissksVpivnte<-*
+te+ s+ Vp +++e
gi|1341032 1877 GTEVESRHVPDGHRE 1891
DUF1792: domain 1 of 1, from 1921 to 1930: score 3.9, E = 1.1
*->ViRFGDGEfd<-*
V R GDGEf+
gi|1341032 1921 VLRIGDGEFR 1930
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