Query 043555
Match_columns 363
No_of_seqs 16 out of 18
Neff 2.1
Searched_HMMs 46136
Date Fri Mar 29 06:11:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043555.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043555hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02855 spore_yabG sporulati 64.4 4.2 9.1E-05 40.0 1.9 103 204-313 106-235 (283)
2 PF05582 Peptidase_U57: YabG p 48.7 9.2 0.0002 37.7 1.4 70 200-271 103-187 (287)
3 smart00802 UME Domain in UVSB 46.3 18 0.0004 30.3 2.6 61 263-327 14-74 (107)
4 PF13956 Ibs_toxin: Toxin Ibs, 42.2 14 0.00031 23.7 1.0 13 148-160 6-18 (19)
5 PF10421 OAS1_C: 2'-5'-oligoad 39.1 13 0.00029 34.5 0.8 32 226-257 51-101 (190)
6 PRK13562 acetolactate synthase 37.5 38 0.00082 28.0 3.1 30 192-221 34-64 (84)
7 COG3735 Uncharacterized protei 36.2 17 0.00037 36.1 1.0 22 206-227 276-297 (299)
8 COG1990 pth2 Peptidyl-tRNA hyd 32.9 45 0.00097 29.6 3.0 39 215-253 35-81 (122)
9 PF06143 Baculo_11_kDa: Baculo 31.8 45 0.00098 27.8 2.7 14 73-86 14-27 (84)
10 TIGR02366 DHAK_reg probable di 29.7 81 0.0018 26.0 3.9 39 212-250 135-173 (176)
11 PF08064 UME: UME (NUC010) dom 28.9 61 0.0013 26.5 3.0 54 264-319 15-68 (107)
12 PF08525 OapA_N: Opacity-assoc 24.9 60 0.0013 22.0 1.9 28 17-47 2-29 (30)
13 COG1793 CDC9 ATP-dependent DNA 24.5 25 0.00053 35.7 -0.0 62 205-267 231-303 (444)
14 PF03683 UPF0175: Uncharacteri 20.6 89 0.0019 24.3 2.4 44 317-363 31-75 (76)
No 1
>TIGR02855 spore_yabG sporulation peptidase YabG. Members of this family are the protein YabG, demonstrated for Bacillus subtilis to be an endopeptidase able to release N-terminal peptides from a number of sporulation proteins, including CotT, CotF, and SpoIVA. It appears to be expressed under control of sigma-K.
Probab=64.37 E-value=4.2 Score=39.95 Aligned_cols=103 Identities=18% Similarity=0.283 Sum_probs=65.4
Q ss_pred eEEEecChhhHHHHHH----hhCcchhhHHHHhccccChhHHHHHHHH-----hhhcccchhhcc--c----hhHHHHHH
Q 043555 204 FVLHVEGENELVDIIM----KSNQDATDKWMQMGQKKQPEHLLQLLKQ-----SNSQGFKGVLAS--N----SIYKVSQT 268 (363)
Q Consensus 204 FVLHLEGEeELVd~Mm----k~N~dATdhWiq~G~KKQPk~lieLLEk-----s~~qGFkGVlAa--N----SMYRIsqT 268 (363)
=||||.|.+|-.+.-+ +-+.+|.-.|+. ||+||+-+.+|||+ -+.-|--|++.. | .=||=||-
T Consensus 106 rVLHiDGD~~YL~~Cl~~Ykql~i~a~G~~~~--E~eqp~~i~~Ll~~~~PDIlViTGHD~~~K~~~d~~dl~~YrnSky 183 (283)
T TIGR02855 106 RVLHIDGDPEYLRKCLKLYKKIGVPVVGIHCK--EKEMPEKVLDLIEEVRPDILVITGHDAYSKNKGNYMDLNAYRHSKY 183 (283)
T ss_pred cEEeecCCHHHHHHHHHHHHHhCCceEEEEec--chhchHHHHHHHHHhCCCEEEEeCchhhhcCCCChhhhhhhhhhHH
Confidence 3999999999877665 458888888875 79999999999994 566787777431 1 23777775
Q ss_pred HHh------hhhcc-ccch-----hhHHHHHHHHHHHHHHHHhhcCcccceeecccc
Q 043555 269 ILL------IHQSR-NNQT-----TERLFAVIAVMTSDIICACLTNLPHVMCLNCLS 313 (363)
Q Consensus 269 iLl------n~e~~-n~~~-----~erLfe~l~vmiSDIl~aCltNlp~VIs~kCL~ 313 (363)
... +|+.. ++.. =+-=||++-. -||=|.--|.=+-.|||-
T Consensus 184 FVeaVk~aR~y~~~~D~LVIFAGACQS~yEall~-----AGANFASSP~RVlIHalD 235 (283)
T TIGR02855 184 FVETVREARKYVPSLDQLVIFAGACQSHFESLIR-----AGANFASSPSRVNIHALD 235 (283)
T ss_pred HHHHHHHHHhcCCCcccEEEEcchhHHHHHHHHH-----cCccccCCccceEEeccC
Confidence 544 44422 2211 2233444332 245455556555577764
No 2
>PF05582 Peptidase_U57: YabG peptidase U57; InterPro: IPR008764 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belong to MEROPS peptidase family U57 (clan U-). The type example is the YabG protein of Bacillus subtilis. This is a protease involved in the synthesis and maturation of the spore coat proteins SpoIVA and YrbA of B. subtilis [].
Probab=48.75 E-value=9.2 Score=37.69 Aligned_cols=70 Identities=26% Similarity=0.410 Sum_probs=49.0
Q ss_pred ccceeEEEecChhhHHHHHHh----hCcchhhHHHHhccccChhHHHHHHHH-----hhhcccchhhccc------hhHH
Q 043555 200 DISRFVLHVEGENELVDIIMK----SNQDATDKWMQMGQKKQPEHLLQLLKQ-----SNSQGFKGVLASN------SIYK 264 (363)
Q Consensus 200 DL~rFVLHLEGEeELVd~Mmk----~N~dATdhWiq~G~KKQPk~lieLLEk-----s~~qGFkGVlAaN------SMYR 264 (363)
++.-=||||.|.+|-.+.=|+ -+.+|.-+|+ -||.||+-+.+|||+ -+.-|--|++... .=||
T Consensus 103 ~~PGkVLHlDGD~~YL~~Cl~~Ykql~i~a~G~~~--~E~eqp~~i~~Ll~~~~PDIlViTGHD~~~K~~~d~~dl~~Yr 180 (287)
T PF05582_consen 103 ERPGKVLHLDGDEEYLNKCLKVYKQLGIPAVGIHV--PEKEQPEKIYRLLEEYRPDILVITGHDGYLKNKKDYSDLNNYR 180 (287)
T ss_pred CCCCeEEEecCCHHHHHHHHHHHHHcCCceEEEEe--chHHhhHHHHHHHHHcCCCEEEEeCchhhhcCCCChhhhhhhh
Confidence 444459999999998877664 4666666665 479999999999994 5667777774221 2366
Q ss_pred HHHHHHh
Q 043555 265 VSQTILL 271 (363)
Q Consensus 265 IsqTiLl 271 (363)
=||-..+
T Consensus 181 nSkyFVe 187 (287)
T PF05582_consen 181 NSKYFVE 187 (287)
T ss_pred ccHHHHH
Confidence 6665443
No 3
>smart00802 UME Domain in UVSB PI-3 kinase, MEI-41 and ESR-1. Characteristic domain in UVSP PI-3 kinase, MEI-41 and ESR-1. Found in nucleolar proteins. Associated with FAT, FATC, PI3_PI4_kinase modules.
Probab=46.34 E-value=18 Score=30.28 Aligned_cols=61 Identities=15% Similarity=0.245 Sum_probs=41.2
Q ss_pred HHHHHHHHhhhhccccchhhHHHHHHHHHHHHHHHHhhcCcccceeecccchhhhhhhhhhhhhH
Q 043555 263 YKVSQTILLIHQSRNNQTTERLFAVIAVMTSDIICACLTNLPHVMCLNCLSSTLDQREDCMRNTV 327 (363)
Q Consensus 263 YRIsqTiLln~e~~n~~~~erLfe~l~vmiSDIl~aCltNlp~VIs~kCL~save~RE~sVR~Av 327 (363)
=+++.++...+.......-.|-..++..||. +.|++.+-...=| +-||.+|+|+-| .|+..
T Consensus 14 ~~f~~~l~d~~g~~~~~ek~~~i~ai~~lI~-~~g~~i~~a~pQI-~acL~saL~~~e--L~~~a 74 (107)
T smart00802 14 AVFSNILHDSSGKKPYNEKKRALRSIGFLIK-LMGKHISSALPQI-MACLQSALEIPE--LRSLA 74 (107)
T ss_pred HHHHHHHcCcccCCCHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH-HHHHHHHhCchh--HHHHH
Confidence 3667766544422223446677889999998 7888877654445 689999998654 55543
No 4
>PF13956 Ibs_toxin: Toxin Ibs, type I toxin-antitoxin system
Probab=42.17 E-value=14 Score=23.72 Aligned_cols=13 Identities=54% Similarity=0.935 Sum_probs=9.2
Q ss_pred HHHHHHHHHHhhc
Q 043555 148 LIMLVLLVIYFSA 160 (363)
Q Consensus 148 ~lMlvll~i~fSa 160 (363)
++.++||+|||.|
T Consensus 6 IIlvvLLliSf~a 18 (19)
T PF13956_consen 6 IILVVLLLISFPA 18 (19)
T ss_pred HHHHHHHhccccC
Confidence 3456777889876
No 5
>PF10421 OAS1_C: 2'-5'-oligoadenylate synthetase 1, domain 2, C-terminus ; InterPro: IPR018952 This is the largely alpha-helical, C-terminal half of 2'-5'-oligoadenylate synthetase 1, being described as domain 2 of the enzyme and homologous to a tandem ubiquitin repeat. It carries the region of enzymic activity between residues 320 and 344 at the extreme C-terminal end []. Oligoadenylate synthetases are antiviral enzymes that counteract viral attack by degrading viral RNA. The enzyme uses ATP in 2'-specific nucleotidyl transfer reactions to synthesise 2'.5'-oligoadenylates, which activate latent ribonuclease, resulting in degradation of viral RNA and inhibition of virus replication []. This domain is often associated with IPR002934 from INTERPRO. ; PDB: 1PX5_B.
Probab=39.05 E-value=13 Score=34.50 Aligned_cols=32 Identities=44% Similarity=0.745 Sum_probs=22.1
Q ss_pred hhHHHHhcccc-------ChhHHHHHHH-----H-------hhhcccchhh
Q 043555 226 TDKWMQMGQKK-------QPEHLLQLLK-----Q-------SNSQGFKGVL 257 (363)
Q Consensus 226 TdhWiq~G~KK-------QPk~lieLLE-----k-------s~~qGFkGVl 257 (363)
..||-++-++| -|.+++|||- + .+++||+.||
T Consensus 51 VKhWy~~~~~~~~~~~~lPpsYaLELLtIyAWE~g~~~~~F~~a~gfrtVL 101 (190)
T PF10421_consen 51 VKHWYQQCKKKKCGGGSLPPSYALELLTIYAWEQGCGAEDFSTAEGFRTVL 101 (190)
T ss_dssp HHHHHHHHHCC--HTT-S--HHHHHHHHHHHHHHHT-SSS--HHHHHHHHH
T ss_pred HHHHHHHHHhhccCCCCCcHHHHHHHHHHHHHHhcCCCcCcchhhhHhHHH
Confidence 46999887777 7899999994 1 4577777765
No 6
>PRK13562 acetolactate synthase 1 regulatory subunit; Provisional
Probab=37.49 E-value=38 Score=28.01 Aligned_cols=30 Identities=20% Similarity=0.343 Sum_probs=25.8
Q ss_pred ccccccccccceeEEEec-ChhhHHHHHHhh
Q 043555 192 ESQSSLKLDISRFVLHVE-GENELVDIIMKS 221 (363)
Q Consensus 192 s~~~~~K~DL~rFVLHLE-GEeELVd~Mmk~ 221 (363)
+.+++..|++||+.+-.+ |+|+.+|-++|+
T Consensus 34 tvg~Te~~~iSRmtivv~~~d~~~ieqI~kQ 64 (84)
T PRK13562 34 HVTHSEQPGISNMEIQVDIQDDTSLHILIKK 64 (84)
T ss_pred EecccCCCCceEEEEEEeCCCHHHHHHHHHH
Confidence 457777899999999997 999999988874
No 7
>COG3735 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.16 E-value=17 Score=36.05 Aligned_cols=22 Identities=32% Similarity=0.536 Sum_probs=20.0
Q ss_pred EEecChhhHHHHHHhhCcchhh
Q 043555 206 LHVEGENELVDIIMKSNQDATD 227 (363)
Q Consensus 206 LHLEGEeELVd~Mmk~N~dATd 227 (363)
+||=|||.|||+|.|.++-.|.
T Consensus 276 lHL~G~e~L~e~Lrk~g~t~tr 297 (299)
T COG3735 276 LHLPGPEGLVELLRKDGFTVTR 297 (299)
T ss_pred ccccCcccHHHHHHHcCCeeee
Confidence 7999999999999999987763
No 8
>COG1990 pth2 Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=32.94 E-value=45 Score=29.58 Aligned_cols=39 Identities=33% Similarity=0.600 Sum_probs=26.9
Q ss_pred HHHHHhhC--cchhhHHHHhcccc---ChhHHHHHHH---Hhhhccc
Q 043555 215 VDIIMKSN--QDATDKWMQMGQKK---QPEHLLQLLK---QSNSQGF 253 (363)
Q Consensus 215 Vd~Mmk~N--~dATdhWiq~G~KK---QPk~lieLLE---ks~~qGF 253 (363)
+..-+++| .+..|.|..+|+|| |-.++-||+| +..+.|.
T Consensus 35 ~~~~~~~~~~~~~~~eWl~~Gq~Kivlkv~~~~eL~~~~~~A~~~gl 81 (122)
T COG1990 35 AKLAIKSTELDEWLDEWLREGQKKIVLKVGSLDELLELHQKAESLGL 81 (122)
T ss_pred HHHHHcCchHHHHHHHHHHcCCceEEEEcCCHHHHHHHHHHHHHcCC
Confidence 34457777 47899999999999 4556666666 3555553
No 9
>PF06143 Baculo_11_kDa: Baculovirus 11 kDa family; InterPro: IPR009313 This is a family of uncharacterised Baculovirus proteins that are all about 11 kDa in size.
Probab=31.84 E-value=45 Score=27.81 Aligned_cols=14 Identities=29% Similarity=0.181 Sum_probs=10.5
Q ss_pred CCCcchhhhhcccc
Q 043555 73 VMPHKQDRLTKLSS 86 (363)
Q Consensus 73 ~MP~r~DqLaKLsS 86 (363)
+-|--+|||.++-|
T Consensus 14 ~si~d~DQL~qlVs 27 (84)
T PF06143_consen 14 NSILDYDQLEQLVS 27 (84)
T ss_pred CCCCcHHHHHHHHH
Confidence 55667899998853
No 10
>TIGR02366 DHAK_reg probable dihydroxyacetone kinase regulator. The seed alignment for this family was built from a set of closely related uncharacterized proteins associated with operons for the type of bacterial dihydroxyacetone kinase that transfers PEP-derived phosphate from a phosphoprotein, as in phosphotransferase system transport, rather than from ATP. Members have a TetR transcriptional regulator domain (pfam00440) at the N-terminus and sequence homology throughout.
Probab=29.71 E-value=81 Score=25.98 Aligned_cols=39 Identities=18% Similarity=0.280 Sum_probs=32.5
Q ss_pred hhHHHHHHhhCcchhhHHHHhccccChhHHHHHHHHhhh
Q 043555 212 NELVDIIMKSNQDATDKWMQMGQKKQPEHLLQLLKQSNS 250 (363)
Q Consensus 212 eELVd~Mmk~N~dATdhWiq~G~KKQPk~lieLLEks~~ 250 (363)
+.+++++.-.-.....+|+..|.+.-|+.+.+.+.+.+.
T Consensus 135 ~~~~~~~~~~~~g~i~~Wl~~~~~~~~~~~a~~~~~~~~ 173 (176)
T TIGR02366 135 AAIISFYSAGAVGSITKWIVANCPEDPEVLSQHIKNLIL 173 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhh
Confidence 557777777777788999999999999999999887443
No 11
>PF08064 UME: UME (NUC010) domain; InterPro: IPR012993 This domain is characteristic of UVSB PI-3 kinase, MEI-41 and ESR1 [].; GO: 0004674 protein serine/threonine kinase activity
Probab=28.93 E-value=61 Score=26.53 Aligned_cols=54 Identities=13% Similarity=0.227 Sum_probs=38.8
Q ss_pred HHHHHHHhhhhccccchhhHHHHHHHHHHHHHHHHhhcCcccceeecccchhhhhh
Q 043555 264 KVSQTILLIHQSRNNQTTERLFAVIAVMTSDIICACLTNLPHVMCLNCLSSTLDQR 319 (363)
Q Consensus 264 RIsqTiLln~e~~n~~~~erLfe~l~vmiSDIl~aCltNlp~VIs~kCL~save~R 319 (363)
+++..+...++......-.|-.+.+..||- ..+...+-...=| +.||.+|++..
T Consensus 15 ~f~~~l~d~~~~~~~~ek~~~l~si~~lI~-~~~~~i~~~~pQI-~a~L~sal~~~ 68 (107)
T PF08064_consen 15 RFSDVLNDLRGKKPIPEKKRALRSIEELIK-LGGSHISSARPQI-MACLQSALEIP 68 (107)
T ss_pred HHHHHHhccccCCCHHHHHHHHHHHHHHHH-HhHHHHHHHHHHH-HHHHHHHhCCh
Confidence 556666554555555667788899999998 7777777655445 69999999654
No 12
>PF08525 OapA_N: Opacity-associated protein A N-terminal motif; InterPro: IPR013731 This domain is found in the Haemophilus influenzae opacity-associated protein (OapA). It is required for efficient nasopharyngeal mucosal colonisation, and its expression is associated with a distinctive transparent colony phenotype. OapA is thought to be a secreted protein, and its expression exhibits high-frequency phase variation [, ]. This motif occurs at the N terminus of these proteins. It contains a conserved histidine followed by a run of hydrophobic residues. Many of the proteins in this entry are unassigned peptidases belonging to MEROPS peptidase family M23B.
Probab=24.86 E-value=60 Score=22.00 Aligned_cols=28 Identities=25% Similarity=0.383 Sum_probs=17.4
Q ss_pred cCCCCCCcchhHHHHHHHHHHHHHhhhcccc
Q 043555 17 FSEPASPCHRLVYAAAASLTCAVVMASLVPI 47 (363)
Q Consensus 17 Fs~P~p~~~igiYiA~ASL~c~iaM~awfP~ 47 (363)
+=+|+|+-|.-.- +++...+.+..|+|.
T Consensus 2 ~~~~LP~~Hr~~l---~~l~~v~l~ll~~Ps 29 (30)
T PF08525_consen 2 WFNPLPKLHRRAL---IALSAVVLVLLLWPS 29 (30)
T ss_pred ccccCCHHHHHHH---HHHHHHHHHHHhccC
Confidence 3468999887443 344444455678885
No 13
>COG1793 CDC9 ATP-dependent DNA ligase [DNA replication, recombination, and repair]
Probab=24.54 E-value=25 Score=35.70 Aligned_cols=62 Identities=19% Similarity=0.398 Sum_probs=40.8
Q ss_pred EEEecChhhHHHHHHhhCcchhhHHHHh------ccc---cChhHHHHHHHHhhhcccchhhc--cchhHHHHH
Q 043555 205 VLHVEGENELVDIIMKSNQDATDKWMQM------GQK---KQPEHLLQLLKQSNSQGFKGVLA--SNSIYKVSQ 267 (363)
Q Consensus 205 VLHLEGEeELVd~Mmk~N~dATdhWiq~------G~K---KQPk~lieLLEks~~qGFkGVlA--aNSMYRIsq 267 (363)
+||+.|++ |.+.=..+=+..-..++.. ++. .-|.+.-++++.....|.+||+| .||=|+.++
T Consensus 231 lL~~dG~d-L~~~pl~eRr~~Le~lv~~~~~~~~~~~i~~~~~~~~~~~~~~a~~~g~EGvv~K~~ds~Y~~g~ 303 (444)
T COG1793 231 LLYLDGED-LRGLPLEERRALLEELVKSSDKIEIAERIPFSDAEEGEAFLEAAIELGLEGVVAKRPDSPYRAGG 303 (444)
T ss_pred EEeECCcc-cccCchHHHHHHHHHHhccccccccccceeccChhhHHHHHHHHHhcCceEEEEeCCCCCcCCCC
Confidence 58999996 5554333334444444443 211 44667777888888899999964 789998665
No 14
>PF03683 UPF0175: Uncharacterised protein family (UPF0175); InterPro: IPR005368 This entry contains small proteins of unknown function.
Probab=20.62 E-value=89 Score=24.33 Aligned_cols=44 Identities=27% Similarity=0.508 Sum_probs=31.9
Q ss_pred hhhhhhhhhhHhhhchhH-HHHHHhhhcCCCccccCcccchhhhhhcC
Q 043555 317 DQREDCMRNTVYLFGKSE-TILKILDQRGIPKITQSKTLSKYDEDIQN 363 (363)
Q Consensus 317 e~RE~sVR~Av~~LGkTe-kIle~LdqR~~P~l~~~k~~~~y~ed~~~ 363 (363)
++..=|..+|+=+.|-|. ..+++|.+|.+| ++.. .....+|+++
T Consensus 31 ~~g~iS~gkAAelag~s~~eF~~~L~~~gI~-~~~~--~eel~~dle~ 75 (76)
T PF03683_consen 31 EEGKISLGKAAELAGMSRWEFLELLKERGIP-INYD--EEELEEDLET 75 (76)
T ss_pred HcCCCCHHHHHHHhCCCHHHHHHHHHHCCCC-CCCC--HHHHHHHHHh
Confidence 445557788888888874 678999999999 7643 3366667653
Done!