Query 007320
Match_columns 608
No_of_seqs 195 out of 394
Neff 4.2
Searched_HMMs 46136
Date Thu Mar 28 21:58:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007320.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007320hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10250 O-FucT: GDP-fucose pr 100.0 6.6E-57 1.4E-61 461.2 2.8 308 187-549 6-349 (351)
2 KOG3849 GDP-fucose protein O-f 96.1 0.02 4.3E-07 60.2 8.2 58 177-236 26-89 (386)
3 PF05830 NodZ: Nodulation prot 91.6 6.6 0.00014 42.4 15.4 249 180-525 2-282 (321)
4 PF14771 DUF4476: Domain of un 48.6 13 0.00028 32.5 2.2 36 441-491 39-74 (95)
5 PF00799 Gemini_AL1: Geminivir 38.3 34 0.00075 31.9 3.4 28 439-467 14-41 (114)
6 PF10892 DUF2688: Protein of u 29.3 38 0.00083 28.4 1.8 17 437-454 41-57 (60)
7 PF03579 SHP: Small hydrophobi 27.6 89 0.0019 26.4 3.7 29 66-94 16-44 (64)
8 PF08113 CoxIIa: Cytochrome c 27.3 1.1E+02 0.0025 23.1 3.8 27 66-92 4-30 (34)
9 COG3190 FliO Flagellar biogene 22.5 1.6E+02 0.0034 28.7 4.9 50 66-121 24-73 (137)
10 COG4878 Uncharacterized protei 21.3 1.1E+02 0.0023 33.2 3.8 120 449-582 95-221 (309)
11 smart00874 B5 tRNA synthetase 20.6 83 0.0018 25.7 2.3 23 435-458 13-35 (71)
12 COG0859 RfaF ADP-heptose:LPS h 20.5 1.4E+02 0.0031 31.6 4.7 64 446-529 199-262 (334)
No 1
>PF10250 O-FucT: GDP-fucose protein O-fucosyltransferase; InterPro: IPR019378 This is a family of conserved proteins representing the enzyme responsible for adding O-fucose to EGF (epidermal growth factor-like) repeats. Six highly conserved cysteines are present as well as a DXD-like motif (ERD), conserved in mammals, Drosophila, and Caenorhabditis elegans. Both features are characteristic of several glycosyltransferase families. The enzyme is a membrane-bound protein released by proteolysis and, as for most glycosyltransferases, is strongly activated by manganese []. ; PDB: 3ZY6_A 3ZY3_A 3ZY5_A 3ZY2_A 3ZY4_A.
Probab=100.00 E-value=6.6e-57 Score=461.22 Aligned_cols=308 Identities=37% Similarity=0.596 Sum_probs=212.3
Q ss_pred ecCchhhHHHHHHHHHHHHHHhcCeEeecccccCcccCCCCC-----CCcccchHHHHHhcccccEEeccCCcccccchh
Q 007320 187 ANGGLNQQRVAICNAVAVASLLNATLVLPRFLYSNVWKDPSQ-----FGDIYQEEYFISVLKHEVNIVKELPSPLKSIDI 261 (608)
Q Consensus 187 ~nGGLNQqR~~IcDaVaVAriLNATLViP~l~~~s~WkD~S~-----F~DIFD~dhFI~~Lk~dVrIVk~LP~~~~~~~~ 261 (608)
+.||+||||+++++||++|++||+|||||.+.....|+|.++ |+++||+++|+++++++|.+.+.+|........
T Consensus 6 ~~GGfnNQr~~~~~a~~~A~~LnRTLVLPp~~~~~~~~~~~~~~~ipf~~~fD~~~l~~~~~~vi~~~ef~~~~~~~~~~ 85 (351)
T PF10250_consen 6 CMGGFNNQRMGFENAVVFAKALNRTLVLPPFIKHYHWKDQSKQRHIPFSDFFDVEHLRKFLRPVITMEEFLPKHWDEVFR 85 (351)
T ss_dssp -SSSHHHHHHHHHHHHHHHHHHT-EEE--EEEEESSSS----EEEEEHHHHB-HHHHTTTS--EE-HHHHHHHHS-GGG-
T ss_pred CCCCHHHHHHHHHHHHHHHHHhCCEEEcCCccccccccccccccccChhhhccHHHHHHHhhCceehheeccchhccccc
Confidence 789999999999999999999999999999999999999987 999999999999999999999999876654322
Q ss_pred hhh------------------------cccccccccCC-ccChhhhHhhhhhhhhhc------ceEEEeccCCCCCCCCC
Q 007320 262 EAI------------------------GSLITDADIAK-EAKPIDYVRKVLPILVRN------GVVHFLGYGNRLGFDPL 310 (608)
Q Consensus 262 ~~~------------------------~~~i~~~~i~~-~ss~~~Y~~~VlP~L~k~------~VI~l~~f~~RLa~d~l 310 (608)
... .......+... ++.+.+|+++++|++.++ +|+.|.++..++..+..
T Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ 165 (351)
T PF10250_consen 86 LQYCWSPWESGSWDDNMKDGNPFGPFWDKFPIKFDPCEFWSSPSLYLEDVLPELREWNENSEHPVIAFTGFESRLPDNYL 165 (351)
T ss_dssp EEEESS-B--------TTSSTTHHHHHHHTT---SEEE-E-TTSTTTT-STTHHHHHHHHTT-SEEEESS-SS-SS--GG
T ss_pred hhhcccccccccchhhccccccccccccccceeeccccccCCchhhHHHhhhHHhhhccccccccceeccccccchhccc
Confidence 100 01111223333 788899999999999987 99999999999998888
Q ss_pred ChhhhhhhccccccccccchHHHHHHHHHHHHHHhcccccchhhhhhhcCCCCCCCCCccccccCCcceEEEeeccchhh
Q 007320 311 PSKLQRLRCKCNFHALKFVPKIQEAASLLVRRIRKHDSARSMLDKQLLGNYMPNIPSKHHEVARGSYRYLALHLRFEEDM 390 (608)
Q Consensus 311 P~~iQrLRCrvnF~ALrF~p~I~~lG~~LV~RLR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~yvALHLRfE~DM 390 (608)
+.++|| +|+|+++|+++|+++|++++. ++++|||+|||+|+||
T Consensus 166 ~~~~~r--------~l~~~~~i~~~a~~~i~~~~~-----------------------------~~~~yiavHlR~~~D~ 208 (351)
T PF10250_consen 166 DRDLQR--------YLRFSPEIRELADKFIKRLLA-----------------------------GGGPYIAVHLRRGKDW 208 (351)
T ss_dssp GGGGGG--------G--B-HHHHHHHHHHHHHH---------------------------------SSEEEEEE--SHHH
T ss_pred CccceE--------EEecCHHHHHHHHHHHHHhhc-----------------------------ccCceEEEeecccCch
Confidence 999988 999999999999999999993 2469999999999999
Q ss_pred hhhcccCCCCChhHHHHHHHHHHhhhhhHHHhhcCCCCCChHHHhcCCCCcCCHHHHHHHHHHcCCCCccEEEEEecccc
Q 007320 391 VAYSQCDFGGGESERKELQAYREIHFPLLIERLKSSKPISPEELRKLGRCPLTPEEAALLLSALGFKHGTYIYLAGSQIY 470 (608)
Q Consensus 391 lAfSgC~~ggg~~E~~eL~~~R~~~~~~~~~r~~~~k~i~~~~~R~~G~CPLTPeEvgl~LraLGf~~~T~IYLA~geiY 470 (608)
+++|.+++ ++..|+.+|.. ..+.+.+.+.+..+.||++|++++.+++++|+.+.|.||||++++|
T Consensus 209 --~~~C~~~~---~~~~~~~~~~~----------~~~~~~~~~~~~~~~~p~~~~~~~~i~~~~~~~~~~~vYiAtd~~~ 273 (351)
T PF10250_consen 209 --FSACEFKG---ERHLLASPRCW----------GKKSINPEKKRRNGCCPSTPQEAKQILRALGKNNTTVVYIATDEIY 273 (351)
T ss_dssp --HHHHCT-T-------TTTHHHH-----------GGGTT-----HHHHS--HHHHHHHHHHHHHHHT-SEEEEEESS--
T ss_pred --HhhcccCC---chHHHHHhHhh----------ccccccchhhhhcCCCCChHHHHHHHHHHhccCCCCEEEEecCccc
Confidence 89999954 77888888864 2345778889999999999999999999999999999999999999
Q ss_pred CcchhhHHHHHhCCCccccccCCCccccccccccccccchhheeeeecCceeeecCCCCchhhhhhhcccccCCCCCce
Q 007320 471 GANSRMQAFTSLYPNLVTKETLLTPSELEPFRNFSSQLAALDFIACATADVFAMTDSGSQLSSLVSGFRTYYGNGQAPT 549 (608)
Q Consensus 471 GG~~~l~pL~~~FPnl~tKesLas~eEL~pf~~~ss~lAALDYiVcl~SDVFv~t~~G~n~a~lV~GhR~y~g~g~~kT 549 (608)
||.+.|.+|+++||++++|+++.+.+|+++|.+ .++|+||++||++||+||+|. +|+|+.+|+++|.|.|.+++||
T Consensus 274 ~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~--~~~a~vD~~i~~~s~~Figt~-~Stfs~~i~~~R~~~g~~~~~~ 349 (351)
T PF10250_consen 274 GGERRLDPLKNMFPNVVTKDDLLSHEELEPLND--DQLAMVDQEICSRSDVFIGTC-GSTFSSNIARERHYRGKPKRKS 349 (351)
T ss_dssp ---------HHHHHHHHGGGT--EE--S-------S--HHHHHHHHHHSSEEEE-T-T-HHHHHHHHHHHHSSSS---E
T ss_pred ccchhHHHHHHHhhhhEeccccCCHHHhhhccc--cchhHHHHHHHhcCCEEEecC-cchhHHHhhcccCcCCCCCCCC
Confidence 999999999999999999999999999999976 889999999999999999997 8789999999999999776555
No 2
>KOG3849 consensus GDP-fucose protein O-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=96.11 E-value=0.02 Score=60.18 Aligned_cols=58 Identities=28% Similarity=0.370 Sum_probs=45.9
Q ss_pred CCCCcEEEEE-ecCchhhHHHHHHHHHHHHHHhcCeEeecccccCcccCCC-----CCCCcccchH
Q 007320 177 DESNGYIMVS-ANGGLNQQRVAICNAVAVASLLNATLVLPRFLYSNVWKDP-----SQFGDIYQEE 236 (608)
Q Consensus 177 ~~snGYl~V~-~nGGLNQqR~~IcDaVaVAriLNATLViP~l~~~s~WkD~-----S~F~DIFD~d 236 (608)
...||||+.- |-|-..+|-...--..|.|+.||.|||+|.+-. |-+.+ -.|...|+++
T Consensus 26 ~DP~GYl~yCPCMGRFGNQaDhFLGsLAFAKaLnRTL~lPpwiE--y~~pe~~n~~vpf~~yF~ve 89 (386)
T KOG3849|consen 26 WDPAGYLLYCPCMGRFGNQADHFLGSLAFAKALNRTLVLPPWIE--YKHPETKNLMVPFEFYFQVE 89 (386)
T ss_pred CCCCccEEEccccccccchHHHHHHHHHHHHHhcccccCCcchh--ccCCcccccccchhheeecc
Confidence 4589998875 889999999999999999999999999997532 21211 3788888775
No 3
>PF05830 NodZ: Nodulation protein Z (NodZ); InterPro: IPR008716 The nodulation genes of Rhizobia are regulated by the nodD gene product in response to host-produced flavonoids and appear to encode enzymes involved in the production of a lipo-chitose signal molecule required for infection and nodule formation. NodZ is required for the addition of a 2-O-methylfucose residue to the terminal reducing N-acetylglucosamine of the nodulation signal. This substitution is essential for the biological activity of this molecule. Mutations in nodZ result in defective nodulation. nodZ represents a unique nodulation gene that is not under the control of NodD and yet is essential for the synthesis of an active nodulation signal [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009312 oligosaccharide biosynthetic process, 0009877 nodulation; PDB: 3SIX_A 2HLH_A 2HHC_A 3SIW_A 2OCX_A.
Probab=91.61 E-value=6.6 Score=42.39 Aligned_cols=249 Identities=19% Similarity=0.281 Sum_probs=117.5
Q ss_pred CcEEEEEecCchhhHHHHHHHHHHHHHHhcCeEeecccccCcccCCC----CCCCcccchHHHHHhccc--ccEEeccCC
Q 007320 180 NGYIMVSANGGLNQQRVAICNAVAVASLLNATLVLPRFLYSNVWKDP----SQFGDIYQEEYFISVLKH--EVNIVKELP 253 (608)
Q Consensus 180 nGYl~V~~nGGLNQqR~~IcDaVaVAriLNATLViP~l~~~s~WkD~----S~F~DIFD~dhFI~~Lk~--dVrIVk~LP 253 (608)
+.|++..--+|++.-=-+++-|-.+|+-.|-||||- |+++ ..|...|++ |-+-.++ .|+|+-.-+
T Consensus 2 ~r~~~~r~r~g~gd~l~~la~aw~~a~~~~r~l~id-------w~~s~~~~~~f~n~f~~--ffepv~~i~~~~~~~~d~ 72 (321)
T PF05830_consen 2 QRFVVSRRRTGLGDCLWSLAAAWRYAKRTGRTLVID-------WRGSCYLDQPFTNAFPV--FFEPVEDIAGVRVICDDR 72 (321)
T ss_dssp --EEEEE--S-HHHHHHHHHHHHHHHHHHT-EEEEE--------BT-TT-SSTTSBSHHH--HB---SEETTEEEE-SGG
T ss_pred CceEEEeccCCchhHHHHHHHHHHHHHHhCCeEEEE-------cCCceecCCcccccCCc--ccchhhhhcCceeEecch
Confidence 568888999999999999999999999999999984 7776 577777765 5555442 444441111
Q ss_pred cccccchhhhhcccccccccCCccChh--------hhH----hhhhhhhh------hcceEEEeccCCCCCCCCCChhhh
Q 007320 254 SPLKSIDIEAIGSLITDADIAKEAKPI--------DYV----RKVLPILV------RNGVVHFLGYGNRLGFDPLPSKLQ 315 (608)
Q Consensus 254 ~~~~~~~~~~~~~~i~~~~i~~~ss~~--------~Y~----~~VlP~L~------k~~VI~l~~f~~RLa~d~lP~~iQ 315 (608)
+.+.. .-++.+ +..|-.|+ -++ +++--+++ .+.||+-+=+.-| -..++.
T Consensus 73 --i~~~~--~~g~~f----p~~w~~p~~~~~~~pd~qi~re~d~l~~lf~~~~d~~a~~vv~d~c~~~~-----c~~~ae 139 (321)
T PF05830_consen 73 --INQFS--FPGPFF----PAWWNKPSIDCVYRPDEQIFRERDELRQLFQSQEDHEANTVVCDACLMWR-----CDEEAE 139 (321)
T ss_dssp --GGT------SSEE----SGGGGS-GGGGS---HHHHHHHHHHHHHHHHSSS--S-SEEEE-S--TTS-----S-HHHH
T ss_pred --hhhhc--CCCCcC----hhHHhCCCcceecCChHHHhhhhHHHHHHhhcccccccchhhhHhhcCCc-----chhHHH
Confidence 10000 000100 11122222 111 22222232 2446655433222 223444
Q ss_pred hhhccccccccccchHHHHHHHHHHHHHHhcccccchhhhhhhcCCCCCCCCCccccccCCcceEEEeeccc--hhhhhh
Q 007320 316 RLRCKCNFHALKFVPKIQEAASLLVRRIRKHDSARSMLDKQLLGNYMPNIPSKHHEVARGSYRYLALHLRFE--EDMVAY 393 (608)
Q Consensus 316 rLRCrvnF~ALrF~p~I~~lG~~LV~RLR~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~yvALHLRfE--~DMlAf 393 (608)
| .-|..|+-+++|++..+.+.+.-= .+..=|++|.|.= +|-+.+
T Consensus 140 R----~if~slkpR~eIqarID~iy~ehf------------------------------~g~~~IGVHVRhGngeD~~~h 185 (321)
T PF05830_consen 140 R----EIFSSLKPRPEIQARIDAIYREHF------------------------------AGYSVIGVHVRHGNGEDIMDH 185 (321)
T ss_dssp H----HHHHHS-B-HHHHHHHHHHHHHHT------------------------------TTSEEEEEEE-----------
T ss_pred H----HHHHhCCCCHHHHHHHHHHHHHHc------------------------------CCCceEEEEEeccCCcchhcc
Confidence 3 258899999999998888755421 1246899999931 233333
Q ss_pred cccCCCCChhHHHHHHHHHHhhhhhHHHhhcCCCCCChHHHhcCCCCcCCHHHHHHHHHHcCCCCccEEEEEeccccCcc
Q 007320 394 SQCDFGGGESERKELQAYREIHFPLLIERLKSSKPISPEELRKLGRCPLTPEEAALLLSALGFKHGTYIYLAGSQIYGAN 473 (608)
Q Consensus 394 SgC~~ggg~~E~~eL~~~R~~~~~~~~~r~~~~k~i~~~~~R~~G~CPLTPeEvgl~LraLGf~~~T~IYLA~geiYGG~ 473 (608)
+|++ .+++..|.+.- .....++++=...++.|+||+-.-
T Consensus 186 -~~~~---~D~e~~L~~V~---------------------------------~ai~~ak~~~~~k~~~IFLATDSa---- 224 (321)
T PF05830_consen 186 -APYW---ADEERALRQVC---------------------------------TAIDKAKALAPPKPVRIFLATDSA---- 224 (321)
T ss_dssp --------HHHHHHHHHHH---------------------------------HHHHHHHTS--SS-EEEEEEES-H----
T ss_pred -Cccc---cCchHHHHHHH---------------------------------HHHHHHHhccCCCCeeEEEecCcH----
Confidence 2321 12211221111 011123555566789999999853
Q ss_pred hhhHHHHHhCCCccccccCCCccccccccccc----c-ccchhheeeeecCceee-ec
Q 007320 474 SRMQAFTSLYPNLVTKETLLTPSELEPFRNFS----S-QLAALDFIACATADVFA-MT 525 (608)
Q Consensus 474 ~~l~pL~~~FPnl~tKesLas~eEL~pf~~~s----s-~lAALDYiVcl~SDVFv-~t 525 (608)
..++-+++.||.+++-+.=..+..-.+..+.. . ..|-+|-+....+|+-| .+
T Consensus 225 eVid~fr~~FPdiiti~k~F~~~~~g~Lhs~~~g~~gg~~ALIDM~LLSrCD~LIr~~ 282 (321)
T PF05830_consen 225 EVIDQFRKKFPDIITIPKQFPASQAGPLHSAAVGIEGGESALIDMYLLSRCDYLIRFP 282 (321)
T ss_dssp HHHHHHHHHSTTEE----------------HHHHHHHHHHHHHHHHHHTTSSEEEEES
T ss_pred HHHHHHHHHCCCeEEcccccCCCCCCcCcccccccchHHHHHHHHHHHHhCCeEEEcC
Confidence 66899999999988875544332222332211 1 24788999999999999 44
No 4
>PF14771 DUF4476: Domain of unknown function (DUF4476)
Probab=48.57 E-value=13 Score=32.53 Aligned_cols=36 Identities=25% Similarity=0.489 Sum_probs=33.3
Q ss_pred cCCHHHHHHHHHHcCCCCccEEEEEeccccCcchhhHHHHHhCCCcccccc
Q 007320 441 PLTPEEAALLLSALGFKHGTYIYLAGSQIYGANSRMQAFTSLYPNLVTKET 491 (608)
Q Consensus 441 PLTPeEvgl~LraLGf~~~T~IYLA~geiYGG~~~l~pL~~~FPnl~tKes 491 (608)
++|-.+++-+|+-..|++ .+|..|+-++|++++++.
T Consensus 39 ~~T~~Qv~~il~~f~fd~---------------~kl~~lk~l~p~i~D~~n 74 (95)
T PF14771_consen 39 CFTCAQVKQILSLFSFDN---------------DKLKALKLLYPYIVDPQN 74 (95)
T ss_pred ceeHHHHHHHHHHcCCCH---------------HHHHHHHHHhhhccCHHH
Confidence 499999999999999998 579999999999999964
No 5
>PF00799 Gemini_AL1: Geminivirus Rep catalytic domain; InterPro: IPR022690 Geminiviruses are characterised by a genome of circular single-stranded DNA encapsidated in twinned (geminate) quasi-isometric particles, from which the group derives its name []. Most geminiviruses can be divided into two subgroups on the basis of host range and/or insect vector: i.e. those that infect dicotyledenous plants and are transmitted by the same whitefly species, and those that infect monocotyledenous plants and are transmitted by different leafhopper vectors. The genomes of the whitefly-transmitted African cassava mosaic virus, Tomato golden mosaic virus (TGMV) and Bean golden mosaic virus (BGMV) possess a bipartite genome. By contrast, only a single DNA component has been identified for the leafhopper-transmitted Maize streak virus (MSV) and Wheat dwarf virus (WDV) [, ]. Beet curly top virus (BCTV), and Tobacco yellow dwarf virus belong to a third possible subgroup. Like MSV and WDV, BCTV is transmitted by a specific leafhopper species, yet like the whitefly-transmitted geminiviruses it has a host range confined to dicotyledenous plants. Sequence comparison of the whitefly-transmitted Squash leaf curl virus (SqLCV) and Tomato yellow leaf curl virus (TYLCV) with the genomic components of TGMV and BGMV reveals a close evolutionary relationship [, , ]. Amino acid sequence alignments of Potato yellow mosaic virus (PYMV) proteins with those encoded by other geminiviruses show that PYMV is closely related to geminiviruses isolated from the New World, especially in the putative coat protein gene regions []. Comparison of MSV DNA-encoded proteins with those of other geminiviruses infecting monocotyledonous plants, including Panicum streak virus [] and Miscanthus streak virus (MiSV) [], reveal high levels of similarity. The AL1 proteins encodes the replication initiator protein (Rep) of geminiviruses, which is a replicon-specific initiator enzyme and is an essential component of the replisome []. For geminivirus Rep protein, this N-terminal region is crucial for origin recognition and DNA cleavage and nucleotidyl transfer []. It is found in association with PF08283 from PFAM. ; GO: 0006260 DNA replication; PDB: 1L5I_A 1L2M_A.
Probab=38.30 E-value=34 Score=31.85 Aligned_cols=28 Identities=32% Similarity=0.328 Sum_probs=15.9
Q ss_pred CCcCCHHHHHHHHHHcCCCCccEEEEEec
Q 007320 439 RCPLTPEEAALLLSALGFKHGTYIYLAGS 467 (608)
Q Consensus 439 ~CPLTPeEvgl~LraLGf~~~T~IYLA~g 467 (608)
+|||||||+...|++|--+ ....||...
T Consensus 14 qC~l~ke~~l~~L~~l~~~-~~~~yI~v~ 41 (114)
T PF00799_consen 14 QCSLTKEEALEQLKNLLTP-SNKKYIRVC 41 (114)
T ss_dssp T----HHHHHHHHHH---S-S-EEEEEEE
T ss_pred CCCCCHHHHHHHHHHhCCc-cCceEEEee
Confidence 6999999999999999764 467787655
No 6
>PF10892 DUF2688: Protein of unknown function (DUF2688); InterPro: IPR024392 Members of this protein family are annotated as KleB, and may play a role in the regulation of transcription in plasmids.
Probab=29.27 E-value=38 Score=28.36 Aligned_cols=17 Identities=47% Similarity=0.800 Sum_probs=14.2
Q ss_pred CCCCcCCHHHHHHHHHHc
Q 007320 437 LGRCPLTPEEAALLLSAL 454 (608)
Q Consensus 437 ~G~CPLTPeEvgl~LraL 454 (608)
-|-| +||||-+.+++++
T Consensus 41 C~~C-itpEE~~~I~e~~ 57 (60)
T PF10892_consen 41 CGDC-ITPEEDREILEAT 57 (60)
T ss_pred hhcc-CCHHHHHHHHHHH
Confidence 3568 9999999998875
No 7
>PF03579 SHP: Small hydrophobic protein; InterPro: IPR005327 The small hydrophobic integral membrane protein, SH (previously designated 1A) is found to have a variety of glycosylated forms [, ]. This protein is a component of the mature respiratory syncytial virion [] where it may form complexes and appears to play a structural role.; GO: 0016020 membrane, 0016021 integral to membrane, 0048222 glycoprotein network
Probab=27.62 E-value=89 Score=26.41 Aligned_cols=29 Identities=24% Similarity=0.762 Sum_probs=25.2
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhhccc
Q 007320 66 NVRSIAYIFVLVGFFFLLDSLMVSIFDSI 94 (608)
Q Consensus 66 ~~~~~~~~~~~~~~~~~~~~~m~~~~~~~ 94 (608)
.--+++.|+-.+|+||.+.|+|..++...
T Consensus 16 ~YFtLi~M~lti~~~~Iv~si~~AILNKL 44 (64)
T PF03579_consen 16 TYFTLIFMMLTIGFFFIVTSIMAAILNKL 44 (64)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56678999999999999999999988743
No 8
>PF08113 CoxIIa: Cytochrome c oxidase subunit IIa family; InterPro: IPR012538 This family consists of the cytochrome c oxidase subunit IIa family. The bax-type cytochrome c oxidase from Thermus thermophilus is known as a two subunit enzyme. From its crystal structure, it was discovered that an additional transmembrane helix, subunit IIa, spans the membrane. This subunit consists of 34 residues forming one helix across the membrane. The presence of this subunit seems to be important for the function of cytochrome c oxidases [].; PDB: 2QPD_C 3QJR_C 3EH5_C 3BVD_C 3S39_C 3QJU_C 3QJS_C 4EV3_C 3QJT_C 4FA7_C ....
Probab=27.27 E-value=1.1e+02 Score=23.13 Aligned_cols=27 Identities=11% Similarity=0.050 Sum_probs=22.4
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhhc
Q 007320 66 NVRSIAYIFVLVGFFFLLDSLMVSIFD 92 (608)
Q Consensus 66 ~~~~~~~~~~~~~~~~~~~~~m~~~~~ 92 (608)
..+..++++++++.+.|+-|+-+.++.
T Consensus 4 kp~Gal~vv~iLt~~ILvFWfgvf~~f 30 (34)
T PF08113_consen 4 KPKGALGVVMILTAFILVFWFGVFALF 30 (34)
T ss_dssp STHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCcceeeeHHHHHHHHHHHHHHHHHhh
Confidence 356778999999999999999887764
No 9
>COG3190 FliO Flagellar biogenesis protein [Cell motility and secretion]
Probab=22.47 E-value=1.6e+02 Score=28.66 Aligned_cols=50 Identities=16% Similarity=0.190 Sum_probs=28.3
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhhccccccCCccccCCCCcccccccccCcccc
Q 007320 66 NVRSIAYIFVLVGFFFLLDSLMVSIFDSINLQHSSTSKNSKGLKDDRKVAHTNKEK 121 (608)
Q Consensus 66 ~~~~~~~~~~~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 121 (608)
-...+..++.++++++++.|+..=......+ +.++.++.-++...|..++
T Consensus 24 ~~~~~gsL~~iL~lil~~~wl~kr~~~~~~~------~~~~~lkil~~~~lG~res 73 (137)
T COG3190 24 LAQMFGSLILILALILFLAWLVKRLGRAPLF------KGSSGLKILASRSLGSRES 73 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcccC------CcccceeeecccccCCCce
Confidence 3556778888888887777776544422223 3333444444445555443
No 10
>COG4878 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.30 E-value=1.1e+02 Score=33.16 Aligned_cols=120 Identities=16% Similarity=0.182 Sum_probs=72.0
Q ss_pred HHHHHcCCC-CccEEEEEeccccCcchhhHHHHHhCCCccccccCCCccccccccccccccchhheeeeecCceeeecCC
Q 007320 449 LLLSALGFK-HGTYIYLAGSQIYGANSRMQAFTSLYPNLVTKETLLTPSELEPFRNFSSQLAALDFIACATADVFAMTDS 527 (608)
Q Consensus 449 l~LraLGf~-~~T~IYLA~geiYGG~~~l~pL~~~FPnl~tKesLas~eEL~pf~~~ss~lAALDYiVcl~SDVFv~t~~ 527 (608)
..+..|=-. -+|.||++-++| +-++.-..|.+-||++-|-.++.+.+|+.+|...+-++.-. | +|==+.+
T Consensus 95 ~y~~~ls~~~y~~~vfVppSni-l~q~gk~alvk~~p~lktissiy~~deykd~~se~g~~ktg----~----~lPR~tS 165 (309)
T COG4878 95 DYGDILSITGYDTFVFVPPSNI-LLQKGKFALVKQAPSLKTISSIYNTDEYKDFNSESGIQKTG----L----ILPRVTS 165 (309)
T ss_pred HHHHHHhccccceEEEeCcccc-cchhHHHHHHHhCCCcceeeeEecccccCcccchheecccc----c----ccccccc
Confidence 334444333 468999999999 67778899999999999999999999999996554443211 1 1101123
Q ss_pred CC-----chhhhhhhcccccCCCCCceeccChHHHHHHHhhC-CCcChHHHHHHHHHHHHh
Q 007320 528 GS-----QLSSLVSGFRTYYGNGQAPTLRPNKKRLAAILSEN-STIRWNDFEDRVRKMIEE 582 (608)
Q Consensus 528 G~-----n~a~lV~GhR~y~g~g~~kTIrPdrk~la~Lf~~~-~~i~W~~F~~~v~~~~~~ 582 (608)
|. .|-.++.+--.+-. ..--++||-..= +|.+ ...+|++...+.+.++.+
T Consensus 166 g~y~d~~t~w~~~n~l~~~g~--~~hfvHPddvid---lDr~~k~k~Wnel~k~~~sl~~e 221 (309)
T COG4878 166 GSYEDHFTHWLFPNLLQHSGS--LEHFVHPDDVID---LDRDCKVKAWNELSKQLTSLLWE 221 (309)
T ss_pred CccchHHHHHHhcchhhcccc--eeeecCchhhhc---cccCcccccHHHHHHHHHHHHHH
Confidence 43 11112211111111 112367874311 1223 346899999888888765
No 11
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=20.63 E-value=83 Score=25.70 Aligned_cols=23 Identities=43% Similarity=0.621 Sum_probs=19.4
Q ss_pred hcCCCCcCCHHHHHHHHHHcCCCC
Q 007320 435 RKLGRCPLTPEEAALLLSALGFKH 458 (608)
Q Consensus 435 R~~G~CPLTPeEvgl~LraLGf~~ 458 (608)
+..|. .++++|+.-+|+.|||+-
T Consensus 13 ~llG~-~i~~~ei~~~L~~lg~~~ 35 (71)
T smart00874 13 RLLGL-DLSAEEIEEILKRLGFEV 35 (71)
T ss_pred HHHCC-CCCHHHHHHHHHHCCCeE
Confidence 44565 599999999999999976
No 12
>COG0859 RfaF ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]
Probab=20.54 E-value=1.4e+02 Score=31.57 Aligned_cols=64 Identities=38% Similarity=0.400 Sum_probs=41.5
Q ss_pred HHHHHHHHcCCCCccEEEEEeccccCcchhhHHHHHhCCCccccccCCCccccccccccccccchhheeeeecCceeeec
Q 007320 446 EAALLLSALGFKHGTYIYLAGSQIYGANSRMQAFTSLYPNLVTKETLLTPSELEPFRNFSSQLAALDFIACATADVFAMT 525 (608)
Q Consensus 446 Evgl~LraLGf~~~T~IYLA~geiYGG~~~l~pL~~~FPnl~tKesLas~eEL~pf~~~ss~lAALDYiVcl~SDVFv~t 525 (608)
|+...|.+-| .+|.|.+|. .-+...+.+.+..++.+. |+....|..+ +||- ..||.||++
T Consensus 199 ~l~~~l~~~~----~~Vvl~g~~--~e~e~~~~i~~~~~~~~~---l~~k~sL~e~-------~~li----~~a~l~I~~ 258 (334)
T COG0859 199 ELAELLIAKG----YQVVLFGGP--DEEERAEEIAKGLPNAVI---LAGKTSLEEL-------AALI----AGADLVIGN 258 (334)
T ss_pred HHHHHHHHCC----CEEEEecCh--HHHHHHHHHHHhcCCccc---cCCCCCHHHH-------HHHH----hcCCEEEcc
Confidence 5677788877 779999987 334445667777877655 3333333222 3332 679999988
Q ss_pred CCCC
Q 007320 526 DSGS 529 (608)
Q Consensus 526 ~~G~ 529 (608)
++|-
T Consensus 259 DSg~ 262 (334)
T COG0859 259 DSGP 262 (334)
T ss_pred CChH
Confidence 8775
Done!