Query 013315
Match_columns 445
No_of_seqs 165 out of 382
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 02:36:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013315.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013315hhsearch_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 2.2E-57 4.8E-62 453.0 3.8 308 23-385 6-349 (351)
2 KOG3849 GDP-fucose protein O-f 97.8 7.4E-05 1.6E-09 74.8 8.7 61 12-72 25-89 (386)
3 PF05830 NodZ: Nodulation prot 95.8 0.32 6.9E-06 50.0 15.2 257 16-370 2-290 (321)
4 PF14771 DUF4476: Domain of un 52.6 4.9 0.00011 33.7 0.2 38 277-329 39-76 (95)
5 PF00799 Gemini_AL1: Geminivir 47.8 21 0.00045 31.8 3.3 28 275-303 14-41 (114)
6 PF10892 DUF2688: Protein of u 37.5 24 0.00052 28.0 1.9 16 274-290 42-57 (60)
7 COG0859 RfaF ADP-heptose:LPS h 32.8 58 0.0013 33.2 4.4 71 281-371 198-269 (334)
8 smart00874 B5 tRNA synthetase 31.2 46 0.00099 26.0 2.6 24 270-294 12-35 (71)
9 PF00036 EF-hand_1: EF hand; 28.3 57 0.0012 21.8 2.3 24 392-415 4-29 (29)
10 KOG3705 Glycoprotein 6-alpha-L 27.7 2.8E+02 0.0061 30.3 8.3 64 291-362 402-472 (580)
11 COG4878 Uncharacterized protei 26.8 66 0.0014 33.1 3.4 121 283-419 93-222 (309)
12 PLN02232 ubiquinone biosynthes 24.2 72 0.0016 29.0 3.0 29 277-305 125-153 (160)
13 PF08924 DUF1906: Domain of un 22.8 90 0.002 28.2 3.3 22 282-303 81-102 (136)
14 PF03484 B5: tRNA synthetase B 22.0 57 0.0012 25.9 1.6 26 270-296 12-37 (70)
15 PRK10556 hypothetical protein; 21.9 59 0.0013 28.6 1.8 26 278-307 3-28 (111)
16 PF07862 Nif11: Nitrogen fixat 21.7 76 0.0016 23.4 2.1 28 266-294 16-43 (49)
17 PF13756 Stimulus_sens_1: Stim 20.9 1.1E+02 0.0024 26.8 3.3 28 278-305 1-30 (112)
18 COG1747 Uncharacterized N-term 20.4 1.3E+02 0.0028 33.9 4.3 55 384-443 376-430 (711)
19 cd06418 GH25_BacA-like BacA is 20.3 1.1E+02 0.0024 29.8 3.5 26 282-307 93-118 (212)
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=2.2e-57 Score=452.98 Aligned_cols=308 Identities=39% Similarity=0.603 Sum_probs=210.8
Q ss_pred ecCchhhHHHHHHHHHHHHHHhcCeEEecccccCCcccCCCC-----CCcccchHHHHHhccCCceecccCchhhhhhhh
Q 013315 23 ANGGMNQQRVAICNAVVLARLLNATLVVPKFMYSSVWRDVSQ-----FSDIYQEEHFINYLTPDIRMVKELPNKLQSLDL 97 (445)
Q Consensus 23 ~nGGLnq~R~~IcdaVavArlLNATLViP~l~~~s~w~D~S~-----F~dIfD~dhFi~~L~~dVrIVk~LP~~~~~~~~ 97 (445)
+.||+||||.++++||++|++||+|||||.+...+.|++.++ |+++||+++|++.++++|.+.+.+|..+.....
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 899999999999999999999999999999999999999987 999999999999999999999999877654321
Q ss_pred hhh------------------------cccccccCCCC-CCChhHHHhhhhhhhhhc------ceEEEcccCCCCCCCCC
Q 013315 98 EAI------------------------GSVVTDVDIPK-ESKPSFYLKNIIPILLRN------GVVHLLGFGNRLAFDPI 146 (445)
Q Consensus 98 ~~~------------------------~~~~~~~~~~~-~s~~~~Y~~~ilP~l~k~------~Vi~l~~~~~rLa~~~l 146 (445)
... ........... |+.+.+|+++++|++.++ +|+.|.++..++..+..
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 00011122233 778889998899999987 99999999999998888
Q ss_pred chhhhhhhccccccccccchhHHHHHHHHHHHHhcccCCCCCCccccCCCccchhhhhhhccccCCCceEEEeeeehhhh
Q 013315 147 PFQLQRLRCRCNFHALQFAPKIQETGALLLRRLRKHEGHSGPLDHYLVGPYADSIMKEKRGQSAKASRYLAIHLRFEIDM 226 (445)
Q Consensus 147 P~~iQrLRCrvnf~ALrF~~~I~~lg~~lV~Rlr~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~fvAlHLR~E~Dm 226 (445)
+.++|| +|+|+++|+++|+++|++|+.. +++|||+|||+|+||
T Consensus 166 ~~~~~r--------~l~~~~~i~~~a~~~i~~~~~~-----------------------------~~~yiavHlR~~~D~ 208 (351)
T PF10250_consen 166 DRDLQR--------YLRFSPEIRELADKFIKRLLAG-----------------------------GGPYIAVHLRRGKDW 208 (351)
T ss_dssp GGGGGG--------G--B-HHHHHHHHHHHHHH---------------------------------SSEEEEEE--SHHH
T ss_pred CccceE--------EEecCHHHHHHHHHHHHHhhcc-----------------------------cCceEEEeecccCch
Confidence 999988 9999999999999999999932 269999999999999
Q ss_pred hhhccccCCCChhHHHHHHHHHHhhhhhhhhhhcCCCCCChHhhhcCCCCcCCHHHHHHHHHHcCCCCCcEEEEEecccc
Q 013315 227 VAHSLCEFGGGEEERQELEKYREIHFPALAHLKKTTKLPSPAEIRSEGLCPLTPEEAVLMLAALGFNRKTHVFVAGAQIY 306 (445)
Q Consensus 227 lA~sgC~~g~~~~e~~eL~~~R~~~~~~~~~~~~~~k~i~~~~~R~~G~CPLtPeEvgl~L~alGf~~~T~IYlA~geiy 306 (445)
+++|.+++ ++..|+.+|.. ..+.+.+...+..|.||++|++++.+++++|+.+.|.||||++++|
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 78888888863 1234677788999999999999999999999999999999999999
Q ss_pred CccccchHHHhhCCCccccccCCCccccccccccccccchhhheeeccCceeeeCCCCCchhHhhhhchhcccCCCCce
Q 013315 307 GGTRRLGALNSLYPYLVTKENLLSATELEPFKNFSSQLAALDFIGCTAANAFAMTDSGSQLSSLVSGYRIYYGGGKMPT 385 (445)
Q Consensus 307 Gg~~~l~~L~~~FPnl~tKe~L~s~eEL~pf~~~ss~lAALDy~Vcl~SDvFv~t~~G~n~a~~V~GhR~y~g~g~~kt 385 (445)
||.+.|.+|++.||++++|+++.+.+|+++|.+ .++|+||++||++||+||+|. ||+|+.+|+++|.|.|.+++||
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 999999999999999999999999999999966 889999999999999999999 6689999999999999766554
No 2
>KOG3849 consensus GDP-fucose protein O-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=97.81 E-value=7.4e-05 Score=74.82 Aligned_cols=61 Identities=26% Similarity=0.363 Sum_probs=46.8
Q ss_pred CCCCCceEEE-EecCchhhHHHHHHHHHHHHHHhcCeEEecccc---cCCcccCCCCCCcccchH
Q 013315 12 SGGNNGYILV-TANGGMNQQRVAICNAVVLARLLNATLVVPKFM---YSSVWRDVSQFSDIYQEE 72 (445)
Q Consensus 12 ~~~snGyl~V-~~nGGLnq~R~~IcdaVavArlLNATLViP~l~---~~s~w~D~S~F~dIfD~d 72 (445)
....||||+. .|-|-+.+|-....-..|.|+.||.|||+|-.- +-.+-.--=.|...|.++
T Consensus 25 ~~DP~GYl~yCPCMGRFGNQaDhFLGsLAFAKaLnRTL~lPpwiEy~~pe~~n~~vpf~~yF~ve 89 (386)
T KOG3849|consen 25 SWDPAGYLLYCPCMGRFGNQADHFLGSLAFAKALNRTLVLPPWIEYKHPETKNLMVPFEFYFQVE 89 (386)
T ss_pred CCCCCccEEEccccccccchHHHHHHHHHHHHHhcccccCCcchhccCCcccccccchhheeecc
Confidence 3578999998 599999999999999999999999999999643 111100012788888775
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=95.85 E-value=0.32 Score=50.02 Aligned_cols=257 Identities=17% Similarity=0.280 Sum_probs=122.6
Q ss_pred CceEEEEecCchhhHHHHHHHHHHHHHHhcCeEEecccccCCcccCC----CCCCcccchHHHHHhcc--CCceecccCc
Q 013315 16 NGYILVTANGGMNQQRVAICNAVVLARLLNATLVVPKFMYSSVWRDV----SQFSDIYQEEHFINYLT--PDIRMVKELP 89 (445)
Q Consensus 16 nGyl~V~~nGGLnq~R~~IcdaVavArlLNATLViP~l~~~s~w~D~----S~F~dIfD~dhFi~~L~--~dVrIVk~LP 89 (445)
+.||+..--+|+|.-=-+++-|-.+|+-.|.||||- |+++ .+|...|++ |-+-.+ ..|+|+-.
T Consensus 2 ~r~~~~r~r~g~gd~l~~la~aw~~a~~~~r~l~id-------w~~s~~~~~~f~n~f~~--ffepv~~i~~~~~~~~-- 70 (321)
T PF05830_consen 2 QRFVVSRRRTGLGDCLWSLAAAWRYAKRTGRTLVID-------WRGSCYLDQPFTNAFPV--FFEPVEDIAGVRVICD-- 70 (321)
T ss_dssp --EEEEE--S-HHHHHHHHHHHHHHHHHHT-EEEEE--------BT-TT-SSTTSBSHHH--HB---SEETTEEEE-S--
T ss_pred CceEEEeccCCchhHHHHHHHHHHHHHHhCCeEEEE-------cCCceecCCcccccCCc--ccchhhhhcCceeEec--
Confidence 578999999999999999999999999999999984 6665 477777754 555544 24555422
Q ss_pred hhhhhhhhhhhcccccccCCCCCCChhH----------HH--hhhhhhhhh------cceEEEcccCCCCCCCCCchhhh
Q 013315 90 NKLQSLDLEAIGSVVTDVDIPKESKPSF----------YL--KNIIPILLR------NGVVHLLGFGNRLAFDPIPFQLQ 151 (445)
Q Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~s~~~~----------Y~--~~ilP~l~k------~~Vi~l~~~~~rLa~~~lP~~iQ 151 (445)
+.+.... .-++.+ +..|-+|.. +. +++--+++. +.||+..=...|= ..++.
T Consensus 71 d~i~~~~--~~g~~f----p~~w~~p~~~~~~~pd~qi~re~d~l~~lf~~~~d~~a~~vv~d~c~~~~c-----~~~ae 139 (321)
T PF05830_consen 71 DRINQFS--FPGPFF----PAWWNKPSIDCVYRPDEQIFRERDELRQLFQSQEDHEANTVVCDACLMWRC-----DEEAE 139 (321)
T ss_dssp GGGGT------SSEE----SGGGGS-GGGGS---HHHHHHHHHHHHHHHHSSS--S-SEEEE-S--TTSS------HHHH
T ss_pred chhhhhc--CCCCcC----hhHHhCCCcceecCChHHHhhhhHHHHHHhhcccccccchhhhHhhcCCcc-----hhHHH
Confidence 1111100 001111 112222221 11 233334433 4576665444332 22333
Q ss_pred hhhccccccccccchhHHHHHHHHHHHHhcccCCCCCCccccCCCccchhhhhhhccccCCCceEEEeeeeh--hhhhhh
Q 013315 152 RLRCRCNFHALQFAPKIQETGALLLRRLRKHEGHSGPLDHYLVGPYADSIMKEKRGQSAKASRYLAIHLRFE--IDMVAH 229 (445)
Q Consensus 152 rLRCrvnf~ALrF~~~I~~lg~~lV~Rlr~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~fvAlHLR~E--~DmlA~ 229 (445)
| .-|..|+-+++|++..+.+.+.-=. +..=|++|.|.= +|-+.+
T Consensus 140 R----~if~slkpR~eIqarID~iy~ehf~------------------------------g~~~IGVHVRhGngeD~~~h 185 (321)
T PF05830_consen 140 R----EIFSSLKPRPEIQARIDAIYREHFA------------------------------GYSVIGVHVRHGNGEDIMDH 185 (321)
T ss_dssp H----HHHHHS-B-HHHHHHHHHHHHHHTT------------------------------TSEEEEEEE-----------
T ss_pred H----HHHHhCCCCHHHHHHHHHHHHHHcC------------------------------CCceEEEEEeccCCcchhcc
Confidence 3 3588999999999988877654322 246899999932 233333
Q ss_pred ccccCCCChhHHHHHHHHHHhhhhhhhhhhcCCCCCChHhhhcCCCCcCCHHHHHHHHHHcCCCCCcEEEEEeccccCcc
Q 013315 230 SLCEFGGGEEERQELEKYREIHFPALAHLKKTTKLPSPAEIRSEGLCPLTPEEAVLMLAALGFNRKTHVFVAGAQIYGGT 309 (445)
Q Consensus 230 sgC~~g~~~~e~~eL~~~R~~~~~~~~~~~~~~k~i~~~~~R~~G~CPLtPeEvgl~L~alGf~~~T~IYlA~geiyGg~ 309 (445)
+|++ .+++..|.+.- .....++++=...++.|+||+-.-
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 11111111111 011123455566789999998754
Q ss_pred ccchHHHhhCCCccccccCCCccccccccccc---c--ccchhhheeeccCceee-eCCCCCchhHh
Q 013315 310 RRLGALNSLYPYLVTKENLLSATELEPFKNFS---S--QLAALDFIGCTAANAFA-MTDSGSQLSSL 370 (445)
Q Consensus 310 ~~l~~L~~~FPnl~tKe~L~s~eEL~pf~~~s---s--~lAALDy~Vcl~SDvFv-~t~~G~n~a~~ 370 (445)
..++-+++.||.+++-+.=..+..-.+..+.. . ..|-+|-+...++|+-| .+-.+ .|+..
T Consensus 225 eVid~fr~~FPdiiti~k~F~~~~~g~Lhs~~~g~~gg~~ALIDM~LLSrCD~LIr~~ptS-~Fsr~ 290 (321)
T PF05830_consen 225 EVIDQFRKKFPDIITIPKQFPASQAGPLHSAAVGIEGGESALIDMYLLSRCDYLIRFPPTS-AFSRY 290 (321)
T ss_dssp HHHHHHHHHSTTEE----------------HHHHHHHHHHHHHHHHHHTTSSEEEEESTT--GGGHH
T ss_pred HHHHHHHHHCCCeEEcccccCCCCCCcCcccccccchHHHHHHHHHHHHhCCeEEEcCCCc-hhhhH
Confidence 56889999999988775533332222332111 1 14889999999999999 44333 35543
No 4
>PF14771 DUF4476: Domain of unknown function (DUF4476)
Probab=52.58 E-value=4.9 Score=33.68 Aligned_cols=38 Identities=32% Similarity=0.560 Sum_probs=33.5
Q ss_pred cCCHHHHHHHHHHcCCCCCcEEEEEeccccCccccchHHHhhCCCccccccCC
Q 013315 277 PLTPEEAVLMLAALGFNRKTHVFVAGAQIYGGTRRLGALNSLYPYLVTKENLL 329 (445)
Q Consensus 277 PLtPeEvgl~L~alGf~~~T~IYlA~geiyGg~~~l~~L~~~FPnl~tKe~L~ 329 (445)
++|-.+++-+|+-..|++ .+|..|+-++|++++++.--
T Consensus 39 ~~T~~Qv~~il~~f~fd~---------------~kl~~lk~l~p~i~D~~n~~ 76 (95)
T PF14771_consen 39 CFTCAQVKQILSLFSFDN---------------DKLKALKLLYPYIVDPQNYY 76 (95)
T ss_pred ceeHHHHHHHHHHcCCCH---------------HHHHHHHHHhhhccCHHHHH
Confidence 499999999999999987 46999999999999996433
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=47.80 E-value=21 Score=31.79 Aligned_cols=28 Identities=29% Similarity=0.333 Sum_probs=16.3
Q ss_pred CCcCCHHHHHHHHHHcCCCCCcEEEEEec
Q 013315 275 LCPLTPEEAVLMLAALGFNRKTHVFVAGA 303 (445)
Q Consensus 275 ~CPLtPeEvgl~L~alGf~~~T~IYlA~g 303 (445)
.|||||||+...|++|--+ ....||..+
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 7999999999999999754 467787665
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=37.46 E-value=24 Score=27.97 Aligned_cols=16 Identities=50% Similarity=0.765 Sum_probs=13.8
Q ss_pred CCCcCCHHHHHHHHHHc
Q 013315 274 GLCPLTPEEAVLMLAAL 290 (445)
Q Consensus 274 G~CPLtPeEvgl~L~al 290 (445)
|-| +||||-+.+++++
T Consensus 42 ~~C-itpEE~~~I~e~~ 57 (60)
T PF10892_consen 42 GDC-ITPEEDREILEAT 57 (60)
T ss_pred hcc-CCHHHHHHHHHHH
Confidence 567 9999999999875
No 7
>COG0859 RfaF ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]
Probab=32.83 E-value=58 Score=33.17 Aligned_cols=71 Identities=31% Similarity=0.351 Sum_probs=44.3
Q ss_pred HHHHHHHHHcCCCCCcEEEEEeccccCccccchHHHhhCCCccccccCCCccccccccccccccchhhheeeccCceeee
Q 013315 281 EEAVLMLAALGFNRKTHVFVAGAQIYGGTRRLGALNSLYPYLVTKENLLSATELEPFKNFSSQLAALDFIGCTAANAFAM 360 (445)
Q Consensus 281 eEvgl~L~alGf~~~T~IYlA~geiyGg~~~l~~L~~~FPnl~tKe~L~s~eEL~pf~~~ss~lAALDy~Vcl~SDvFv~ 360 (445)
.|++..|.+-| .+|.|.+|. .-....+.+.+..++.+. |+....|.. ++||- ..||.||+
T Consensus 198 ~~l~~~l~~~~----~~Vvl~g~~--~e~e~~~~i~~~~~~~~~---l~~k~sL~e-------~~~li----~~a~l~I~ 257 (334)
T COG0859 198 AELAELLIAKG----YQVVLFGGP--DEEERAEEIAKGLPNAVI---LAGKTSLEE-------LAALI----AGADLVIG 257 (334)
T ss_pred HHHHHHHHHCC----CEEEEecCh--HHHHHHHHHHHhcCCccc---cCCCCCHHH-------HHHHH----hcCCEEEc
Confidence 46788888888 779999986 333445667777776554 333222222 23332 68999999
Q ss_pred CCCCC-chhHhh
Q 013315 361 TDSGS-QLSSLV 371 (445)
Q Consensus 361 t~~G~-n~a~~V 371 (445)
+++|. .+|.++
T Consensus 258 ~DSg~~HlAaA~ 269 (334)
T COG0859 258 NDSGPMHLAAAL 269 (334)
T ss_pred cCChHHHHHHHc
Confidence 98883 344443
No 8
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=31.24 E-value=46 Score=25.99 Aligned_cols=24 Identities=42% Similarity=0.506 Sum_probs=20.0
Q ss_pred hhcCCCCcCCHHHHHHHHHHcCCCC
Q 013315 270 IRSEGLCPLTPEEAVLMLAALGFNR 294 (445)
Q Consensus 270 ~R~~G~CPLtPeEvgl~L~alGf~~ 294 (445)
.+..|. .++++|+.-+|+.|||+-
T Consensus 12 ~~llG~-~i~~~ei~~~L~~lg~~~ 35 (71)
T smart00874 12 NRLLGL-DLSAEEIEEILKRLGFEV 35 (71)
T ss_pred HHHHCC-CCCHHHHHHHHHHCCCeE
Confidence 355665 499999999999999975
No 9
>PF00036 EF-hand_1: EF hand; InterPro: IPR018248 Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both sides by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand).; PDB: 1BJF_A 1XFW_R 1XFV_O 2K0J_A 2F3Z_A 3BYA_A 1XFU_Q 2R28_B 1ZOT_B 3G43_D ....
Probab=28.28 E-value=57 Score=21.82 Aligned_cols=24 Identities=21% Similarity=0.386 Sum_probs=18.4
Q ss_pred HHHHHHhc--CCCcchHHHHHHHHHH
Q 013315 392 RLAAIFVK--NSTIEWKVFEQRVRKA 415 (445)
Q Consensus 392 ~l~~lf~~--~~~~~w~~f~~~v~~~ 415 (445)
.+-+.||. +|.|++.||...++++
T Consensus 4 ~~F~~~D~d~dG~I~~~Ef~~~~~~L 29 (29)
T PF00036_consen 4 EAFREFDKDGDGKIDFEEFKEMMKKL 29 (29)
T ss_dssp HHHHHHSTTSSSEEEHHHHHHHHHHT
T ss_pred HHHHHHCCCCCCcCCHHHHHHHHHhC
Confidence 45566774 6789999999988764
No 10
>KOG3705 consensus Glycoprotein 6-alpha-L-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=27.74 E-value=2.8e+02 Score=30.31 Aligned_cols=64 Identities=17% Similarity=0.218 Sum_probs=37.0
Q ss_pred CCCCCcEEEEEeccccCccccchHHHhhCCCccccccCCCccccccccccc------ccc-chhhheeeccCceeeeCC
Q 013315 291 GFNRKTHVFVAGAQIYGGTRRLGALNSLYPYLVTKENLLSATELEPFKNFS------SQL-AALDFIGCTAANAFAMTD 362 (445)
Q Consensus 291 Gf~~~T~IYlA~geiyGg~~~l~~L~~~FPnl~tKe~L~s~eEL~pf~~~s------s~l-AALDy~Vcl~SDvFv~t~ 362 (445)
|=+-.-+||||+-+. ..+.--+.-|||.. +....|.+.-..-. |.+ --+|..+.+.+|..|.|.
T Consensus 402 g~~~~rRiflAsDDp----~vv~EAk~kYPnYe----~igd~eia~~A~l~nRYTd~sL~GvIlDIh~LS~~d~LVCTF 472 (580)
T KOG3705|consen 402 GKPLERRIFLASDDP----TVVPEAKNKYPNYE----VIGDTEIAKTAQLNNRYTDASLMGVILDIHILSKVDYLVCTF 472 (580)
T ss_pred CCchhheEEEecCCc----hhchHhhccCCCcE----EeccHHHHHHhhccccchhhhhhheeeeeeeecccceEEEec
Confidence 545566899999976 34566778899863 44444554433222 222 334555556666655544
No 11
>COG4878 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.77 E-value=66 Score=33.14 Aligned_cols=121 Identities=17% Similarity=0.134 Sum_probs=74.8
Q ss_pred HHHHHHHcCCC-CCcEEEEEeccccCccccchHHHhhCCCccccccCCCccccccccccccccchhhheeeccCceeeeC
Q 013315 283 AVLMLAALGFN-RKTHVFVAGAQIYGGTRRLGALNSLYPYLVTKENLLSATELEPFKNFSSQLAALDFIGCTAANAFAMT 361 (445)
Q Consensus 283 vgl~L~alGf~-~~T~IYlA~geiyGg~~~l~~L~~~FPnl~tKe~L~s~eEL~pf~~~ss~lAALDy~Vcl~SDvFv~t 361 (445)
++.++..|--. -+|.||++-++| +-++.-.+|.+.||++-|=.++.+.+|+.+|...+-++.-. |. |==+
T Consensus 93 L~~y~~~ls~~~y~~~vfVppSni-l~q~gk~alvk~~p~lktissiy~~deykd~~se~g~~ktg----~~----lPR~ 163 (309)
T COG4878 93 LADYGDILSITGYDTFVFVPPSNI-LLQKGKFALVKQAPSLKTISSIYNTDEYKDFNSESGIQKTG----LI----LPRV 163 (309)
T ss_pred HHHHHHHHhccccceEEEeCcccc-cchhHHHHHHHhCCCcceeeeEecccccCcccchheecccc----cc----cccc
Confidence 44455555444 478999999999 66777899999999999999999999999996544333211 10 1012
Q ss_pred CCCC-----chhHhhhhchhcccCCCCceeccchHHHHHHHh--cC-CCcchHHHHHHHHHHHHhc
Q 013315 362 DSGS-----QLSSLVSGYRIYYGGGKMPTIRPNKRRLAAIFV--KN-STIEWKVFEQRVRKAVRQT 419 (445)
Q Consensus 362 ~~G~-----n~a~~V~GhR~y~g~g~~kti~Pdr~~l~~lf~--~~-~~~~w~~f~~~v~~~~~~~ 419 (445)
.+|. .|-.++-+--.+ | -..-.+.||-. +| .+ .-.+|++...+.+.++.+.
T Consensus 164 tSg~y~d~~t~w~~~n~l~~~-g-~~~hfvHPddv-----idlDr~~k~k~Wnel~k~~~sl~~e~ 222 (309)
T COG4878 164 TSGSYEDHFTHWLFPNLLQHS-G-SLEHFVHPDDV-----IDLDRDCKVKAWNELSKQLTSLLWEK 222 (309)
T ss_pred ccCccchHHHHHHhcchhhcc-c-ceeeecCchhh-----hccccCcccccHHHHHHHHHHHHHHH
Confidence 2332 122222222222 1 12235778743 34 23 3468999998888887753
No 12
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=24.23 E-value=72 Score=28.97 Aligned_cols=29 Identities=28% Similarity=0.339 Sum_probs=25.9
Q ss_pred cCCHHHHHHHHHHcCCCCCcEEEEEeccc
Q 013315 277 PLTPEEAVLMLAALGFNRKTHVFVAGAQI 305 (445)
Q Consensus 277 PLtPeEvgl~L~alGf~~~T~IYlA~gei 305 (445)
+++|+|...+|+..||.+-+.-+++.|-+
T Consensus 125 f~~~~el~~ll~~aGF~~~~~~~~~~g~~ 153 (160)
T PLN02232 125 YLTGEELETLALEAGFSSACHYEISGGFM 153 (160)
T ss_pred CcCHHHHHHHHHHcCCCcceEEECcchHh
Confidence 58999999999999999999888888754
No 13
>PF08924 DUF1906: Domain of unknown function (DUF1906); InterPro: IPR015020 This entry represents a family of uncharacterised hypothetical bacterial proteins. ; PDB: 1SFS_A.
Probab=22.77 E-value=90 Score=28.19 Aligned_cols=22 Identities=36% Similarity=0.466 Sum_probs=14.3
Q ss_pred HHHHHHHHcCCCCCcEEEEEec
Q 013315 282 EAVLMLAALGFNRKTHVFVAGA 303 (445)
Q Consensus 282 Evgl~L~alGf~~~T~IYlA~g 303 (445)
.....-++||||..|.||.|.=
T Consensus 81 ~A~~~A~~lG~p~gt~IYfavD 102 (136)
T PF08924_consen 81 DAVAAARALGFPAGTPIYFAVD 102 (136)
T ss_dssp HHHHHHHHTT--SS-EEEEE--
T ss_pred HHHHHHHHcCCCCCCEEEEEee
Confidence 4556778999999999999976
No 14
>PF03484 B5: tRNA synthetase B5 domain; InterPro: IPR005147 Domain B5 is found in phenylalanine-tRNA synthetase beta subunits. This domain has been shown to bind DNA through a winged helix-turn-helix motif []. Phenylalanine-tRNA synthetase may influence common cellular processes via DNA binding, in addition to its aminoacylation function.; GO: 0000287 magnesium ion binding, 0003723 RNA binding, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation; PDB: 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B 3PCO_D 2CXI_C 1JJC_B 1EIY_B ....
Probab=21.98 E-value=57 Score=25.92 Aligned_cols=26 Identities=31% Similarity=0.561 Sum_probs=17.6
Q ss_pred hhcCCCCcCCHHHHHHHHHHcCCCCCc
Q 013315 270 IRSEGLCPLTPEEAVLMLAALGFNRKT 296 (445)
Q Consensus 270 ~R~~G~CPLtPeEvgl~L~alGf~~~T 296 (445)
.+..|.. ++++|+.-+|+.|||.-..
T Consensus 12 ~~~lG~~-i~~~~i~~~L~~lg~~~~~ 37 (70)
T PF03484_consen 12 NKLLGID-ISPEEIIKILKRLGFKVEK 37 (70)
T ss_dssp HHHHTS----HHHHHHHHHHTT-EEEE
T ss_pred HHHhCCC-CCHHHHHHHHHHCCCEEEE
Confidence 3555664 9999999999999998644
No 15
>PRK10556 hypothetical protein; Provisional
Probab=21.93 E-value=59 Score=28.62 Aligned_cols=26 Identities=31% Similarity=0.566 Sum_probs=20.5
Q ss_pred CCHHHHHHHHHHcCCCCCcEEEEEeccccC
Q 013315 278 LTPEEAVLMLAALGFNRKTHVFVAGAQIYG 307 (445)
Q Consensus 278 LtPeEvgl~L~alGf~~~T~IYlA~geiyG 307 (445)
|-|.||+.+|...||..+.. +-+.||
T Consensus 3 LRPDEVArVLe~aGF~~D~v----t~~aYG 28 (111)
T PRK10556 3 LRPDEVARVLEKAGFTVDVV----TQKAYG 28 (111)
T ss_pred cChHHHHHHHHhcCceEEEe----echhcc
Confidence 78999999999999988643 344555
No 16
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=21.74 E-value=76 Score=23.38 Aligned_cols=28 Identities=25% Similarity=0.434 Sum_probs=23.3
Q ss_pred ChHhhhcCCCCcCCHHHHHHHHHHcCCCC
Q 013315 266 SPAEIRSEGLCPLTPEEAVLMLAALGFNR 294 (445)
Q Consensus 266 ~~~~~R~~G~CPLtPeEvgl~L~alGf~~ 294 (445)
|++.+.....| -+|+|+.-+.+..||.=
T Consensus 16 d~~l~~~l~~~-~~~~e~~~lA~~~Gy~f 43 (49)
T PF07862_consen 16 DPELREQLKAC-QNPEEVVALAREAGYDF 43 (49)
T ss_pred CHHHHHHHHhc-CCHHHHHHHHHHcCCCC
Confidence 56666777788 49999999999999974
No 17
>PF13756 Stimulus_sens_1: Stimulus-sensing domain
Probab=20.92 E-value=1.1e+02 Score=26.75 Aligned_cols=28 Identities=25% Similarity=0.354 Sum_probs=23.3
Q ss_pred CCHHHHHHHHHHcCCCCCcE--EEEEeccc
Q 013315 278 LTPEEAVLMLAALGFNRKTH--VFVAGAQI 305 (445)
Q Consensus 278 LtPeEvgl~L~alGf~~~T~--IYlA~gei 305 (445)
|.||.++-+|+-|.-+.+|+ ||=+.|..
T Consensus 1 l~pe~a~plLrrL~~Pt~~RARlyd~dG~L 30 (112)
T PF13756_consen 1 LNPERARPLLRRLISPTRTRARLYDPDGNL 30 (112)
T ss_pred CCHHHHHHHHHHhCCCCCceEEEECCCCCE
Confidence 68999999999999999986 55566655
No 18
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=20.42 E-value=1.3e+02 Score=33.85 Aligned_cols=55 Identities=13% Similarity=0.399 Sum_probs=42.9
Q ss_pred ceeccchHHHHHHHhcCCCcchHHHHHHHHHHHHhccccCCCCCCCCcccCCCCCCCCCC
Q 013315 384 PTIRPNKRRLAAIFVKNSTIEWKVFEQRVRKAVRQTKHIQSRSKGRSVYRYPRCKECMCP 443 (445)
Q Consensus 384 kti~Pdr~~l~~lf~~~~~~~w~~f~~~v~~~~~~~~~~~~~~~~~s~y~~P~~peC~C~ 443 (445)
++..-=|+.||+++. +.-+|+.++...++.+++..++-..+.+-++|.+- +|-|.
T Consensus 376 ~nlKeIK~ELVpsli--~e~dWnsWsqkAK~ilKk~t~f~a~~s~~D~Yv~~---~~~~s 430 (711)
T COG1747 376 KNLKEIKQELVPSLI--PEGDWNSWSQKAKKILKKSTRFAAPPSNKDPYVVR---SCGVS 430 (711)
T ss_pred ccHHHHHHHHHHhhC--ChhhhhHHHHHHHHHHhcCCcccCCCCCCCCeEeC---CCCcC
Confidence 444445899999986 56789999999999999888876667777888866 66664
No 19
>cd06418 GH25_BacA-like BacA is a bacterial lysin from Enterococcus faecalis that degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. BacA is homologous to the YbfG and YkuG lysins of Bacillus subtilis. BacA has a C-terminal catalytic glycosyl hydrolase family 25 (GH25) domain and an N-terminal peptidoglycan-binding domain comprised of three alpha helices which is similar to a domain found in matrixins.
Probab=20.29 E-value=1.1e+02 Score=29.77 Aligned_cols=26 Identities=31% Similarity=0.211 Sum_probs=20.7
Q ss_pred HHHHHHHHcCCCCCcEEEEEeccccC
Q 013315 282 EAVLMLAALGFNRKTHVFVAGAQIYG 307 (445)
Q Consensus 282 Evgl~L~alGf~~~T~IYlA~geiyG 307 (445)
++...-++||||..|.||+|.=.-..
T Consensus 93 ~A~~~A~~lG~p~gs~IYfavD~d~~ 118 (212)
T cd06418 93 DAVAAARALGFPPGTIIYFAVDFDAL 118 (212)
T ss_pred HHHHHHHHcCCCCCCEEEEEeecCCC
Confidence 45567789999999999999875543
Done!