Query 000719
Match_columns 1333
No_of_seqs 47 out of 49
Neff 2.8
Searched_HMMs 46136
Date Mon Apr 1 22:41:27 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000719.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000719hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11277 Med24_N: Mediator com 95.8 1.3 2.9E-05 57.0 23.6 601 21-912 13-629 (990)
2 PRK02866 cyanate hydratase; Va 81.7 2.9 6.2E-05 43.9 5.7 93 55-152 30-129 (147)
3 TIGR00673 cynS cyanate hydrata 63.7 3.7 8E-05 43.2 1.5 54 98-152 72-132 (150)
4 TIGR00380 cobD cobalamin biosy 33.2 18 0.00038 41.6 0.8 48 890-937 199-246 (305)
5 PF12949 HeH: HeH/LEM domain; 28.7 39 0.00086 28.3 1.8 18 942-959 7-24 (35)
6 PF03186 CobD_Cbib: CobD/Cbib 27.9 29 0.00063 39.4 1.3 46 893-938 195-244 (295)
7 PRK08878 adenosylcobinamide-ph 26.2 28 0.00061 40.2 0.8 47 890-937 202-248 (317)
8 KOG0818 GTPase-activating prot 21.0 2.8E+02 0.0061 34.9 7.5 122 109-238 220-353 (669)
9 COG1270 CbiB Cobalamin biosynt 20.7 43 0.00094 39.2 0.9 46 892-937 201-251 (320)
10 PF02560 Cyanate_lyase: Cyanat 20.6 8.9 0.00019 36.6 -3.7 46 104-150 8-53 (73)
11 PF10382 DUF2439: Protein of u 20.1 33 0.00072 32.6 -0.1 14 1019-1032 13-27 (83)
No 1
>PF11277 Med24_N: Mediator complex subunit 24 N-terminal; InterPro: IPR021429 This subunit of the Mediator complex appears to be conserved only from insects to humans. It is essential for correct retinal development in fish. Subunit composition of the mediator contributes to the control of differentiation in the vertebrate CNS as there are divergent functions of the mediator subunits Crsp34/Med27, Trap100/Med24, and Crsp150/Med14 [].
Probab=95.83 E-value=1.3 Score=57.04 Aligned_cols=601 Identities=21% Similarity=0.247 Sum_probs=333.6
Q ss_pred HHhhCCCchhHHHHHHHHhhhcCCCCCCCCCcHHHHHHHHHhhhcCC-CCcchHHHHHHHHhcCCCChHHHHHhhhcccc
Q 000719 21 AQDRNTDPLTWAIQLSSTLNSAADGDGPTLPSTELAHLLVSHICWDN-HVPITWKFLEKALTLKIVPPSLVLALLSTRVI 99 (1333)
Q Consensus 21 AQer~~~PLlWA~evas~l~sa~~~~Gv~LPS~ELA~~LVs~LCfdn-n~Ps~WKfLe~AlssrLv~PLhvLALLSsRVI 99 (1333)
|=.++-+|..|++-+=..+.. |++-=-.+||+.|+.+..-+. ..|-+=.||++|+++++|+...||.-++---
T Consensus 13 aW~ERw~d~~w~i~iK~~~~~-----g~~~d~~~LAe~LL~qa~iG~~Pn~LiLSYLk~al~sqlvs~~~vl~~I~k~~- 86 (990)
T PF11277_consen 13 AWRERWTDIQWGINIKKIIPR-----GVSGDIYNLAECLLQQAFIGPSPNPLILSYLKYALSSQLVSYAAVLEAISKFD- 86 (990)
T ss_pred HHHhcCChhhHHHHHHHHccC-----CCcccHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHhcchhHHHHHHHHhhcc-
Confidence 334456889999999888864 333233679999999877663 6677999999999999999999887664321
Q ss_pred cCcccchhHHHHHHHHhhhcccccccccCCCchhHHHhcHHHHhccccccCCccccCCeeehhHHHHHHHHHhhhccccc
Q 000719 100 SNRQLHPAAYRLYLEFLTRHAFSFASLVNGPNYDKIMNSIDDVLNLSQIFGLKVCESGVLLVEFVFSVVWQLLDASLDDE 179 (1333)
Q Consensus 100 P~R~~qPeAYRLYLELL~r~aFs~~~~i~~pn~~kimkSID~~L~LS~~~g~~~~e~G~~vV~Fvfsiv~~L~Da~LdD~ 179 (1333)
...+|.--.=-||++...-= ...|+-| .|-++ +--=+++++.-|+-+.-.-.
T Consensus 87 --~f~k~~c~~~ll~~l~~~~~------~~sC~gk-------------------~EE~i-L~~Alls~v~WLL~~~~~~l 138 (990)
T PF11277_consen 87 --DFSKPHCINALLELLESIID------GLSCRGK-------------------AEECI-LCRALLSLVHWLLQCYEYSL 138 (990)
T ss_pred --ccchhHHHHHHHHHHHHhcC------CcccCCc-------------------chHHH-HHHHHHHHHHHHHHHHHHHH
Confidence 13445555555555543111 1111111 22222 22224555554444331100
Q ss_pred CcccccccCCCCCCCCCCcccccCCCCccccccchhhhhccchhHHHHHHHHHHHhhhhHHHHHHHHhhcCCCchhhHHH
Q 000719 180 GLLEFASDKNFKWPTRPQDMEIDGIDGFIDKRSEHHEGLFRANTTMAIELIGEFLQNKVTSRILYLAHMNMPSHWGGFIE 259 (1333)
Q Consensus 180 Gl~~~~~~~~~~~~~~~qdMeiDg~~~~~~kr~e~~E~Lrk~NT~mAiEvI~~fl~nK~ts~iLrL~~~Nmpe~w~~f~Q 259 (1333)
+ +.+|+. +. ..++.+ +.-+..+++++++++++...+||+++.|=|+-|+...|
T Consensus 139 -------~-------~~~e~~----~~----~~~~e~-----~l~~~~~~L~~i~~s~f~~aLL~Iak~ee~e~w~~v~q 191 (990)
T PF11277_consen 139 -------E-------KLRENN----EL----SAEQEE-----ILEKCCQRLEKILESTFLRALLYIAKLEEPESWNEVEQ 191 (990)
T ss_pred -------H-------HHhhcC----CC----cchHHH-----HHHHHHHHHHHHHcCchHHHHHHHhhhccHhHHHHHHH
Confidence 0 011110 00 122333 44567899999999999999999999999999999999
Q ss_pred HHHHHHHhHHHhhhccCCChHHHHHhhhhcccc--cCCCcc-ccCccceeeeccCCccccccccccCcccccccchhHHh
Q 000719 260 RLRLLALKSAALRNSKVITPEALLQLASDTRGD--LGRKSK-TAPQKECHAVAFPGSLMSLAGQCNGTSRSALWLPIDLF 336 (1333)
Q Consensus 260 RLqllea~s~al~~~k~~~~~~l~~L~~~~~~v--~~~e~k-~~~~~~~~~~~~~~s~~s~~g~~~Gas~SAlWlPfDiy 336 (1333)
+..-|+...... .-+..+..+.+-..++... ...+-+ .+..+..+.+ .++ =..+ |+
T Consensus 192 ~~~~l~~~l~~~--~~~~~~~tL~~~l~kl~sl~~~~~~m~~v~~~~~~e~~---~~s------------VqaL----I~ 250 (990)
T PF11277_consen 192 KCAKLKNSLSNS--GFVKSNVTLRDQLEKLASLEKSIPSMKPVNSEQLSETI---FPS------------VQAL----IA 250 (990)
T ss_pred HHHHHHHHhccc--ccccCchHHHHHHHHHHHHHhcCccccCCCcccCCCCC---cch------------HHHH----HH
Confidence 999988743331 1112344444444443331 111100 1111111100 000 0122 34
Q ss_pred hhhccCCcccccchhHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhhhcCCCCCCCCCccccchhhhhhhhhhhHhh
Q 000719 337 LEDAMDGTQVAATSAVEILTGLVKALQVVNGTTWHDTFLGLWIAALRLLQRERDPSEGPVPRIDSSLCMVLSVTTLTVAD 416 (1333)
Q Consensus 337 lEdaMDG~qv~~tSaIEiL~~liKtlQ~vN~asW~dtFlaLWiaaLRLVQReRdp~EGPiPhldsrLCMLLsI~pLaIa~ 416 (1333)
+|-.| +.++-++-+.+-...+|.+.+=++.+-|.=+|=|.+=-.- |..||. -|++.| +.+-|=|=.
T Consensus 251 vE~ll-----Npt~dtq~lVeqL~mlqrlk~~~~~~ly~EIirACfl~L~---e~~~ts---~E~~w~---AFtFlKlPq 316 (990)
T PF11277_consen 251 VEVLL-----NPTSDTQQLVEQLMMLQRLKGIPNPRLYCEIIRACFLGLI---ESPETS---EELKWC---AFTFLKLPQ 316 (990)
T ss_pred HHHHH-----ccCccHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHhhhc---cCCCCC---cchhhh---hhhhhhHHH
Confidence 44433 4578888888888999999999999999999988775332 222444 578888 555455555
Q ss_pred hhhhhhhhccccccCCCCCCCCCCCCCccchhhhHHHhhhhcccccccCCchhhhhHHHHHHHHHHHHHhccccCCCccc
Q 000719 417 IIEEEESELIDETEQSPSNLPKDKQAPGRRRKDLVTSLQLLGDFEDMLTPPPFVRSIANQAAAKAIMFISGLTVGNGYYE 496 (1333)
Q Consensus 417 IieEe~~~~~~~~~~~p~~~~~~k~~~~~~R~~LisSLQvLG~y~gLL~PP~~vv~aANqAA~KAa~FiSg~~~~~g~~~ 496 (1333)
||.+=-......+ +++ + ++.-..+++.++..|=++..||-
T Consensus 317 Il~~L~~~~~~~~---~~d----~--~~~~~~dl~~Afe~Ll~~~pLLD------------------------------- 356 (990)
T PF11277_consen 317 ILKQLHALSRGDK---PQD----K--IAEYSEDLVEAFELLLQLTPLLD------------------------------- 356 (990)
T ss_pred HHHHHHHhccCCC---ccc----c--cccccHHHHHHHHHHHccchhhH-------------------------------
Confidence 5554333211000 011 1 34556789999999998888871
Q ss_pred cccCCCCcccccCchhHHHHHHHhhhcccccc--ceecccccccCCCCCccCCccccCCCccccccCCCCChhhhhhhhc
Q 000719 497 SVSMNGLATSCLGNMRHLIVEACIARNLLDTS--AYLWPGYVNASDSNQVPCSIATQMSGWSSLMKGSPLTPSLTNALVV 574 (1333)
Q Consensus 497 ~~~~~d~~~~~~GNmrHLIVEaCIaRnLlDtS--~Y~WpGyv~~~~~~~~~~s~p~q~s~Ws~fM~GspLt~~L~naLv~ 574 (1333)
. +.+||.-|.--.+.|-|-..|||+-+ .++ ...+. +.+++
T Consensus 357 ---~--~D~kc~Cn~v~~LL~e~~K~~lise~~~k~l-----~~kR~---------~~~~~------------------- 398 (990)
T PF11277_consen 357 ---K--MDQKCNCNCVECLLNELVKLGLISESQVKNL-----LAKRE---------EMSPG------------------- 398 (990)
T ss_pred ---H--HhhhcCCcHHHHHHHHHHHcCcccHHHHHHH-----HHHhh---------hhhhh-------------------
Confidence 1 22578889999999999999999865 211 11000 00001
Q ss_pred CCCCcHHHHHHHHHHHccCCchhhhhhhhhhcccccccccchhhHHHHHHHHhcCCCCCCCCCCCcccccchhhHHHHHH
Q 000719 575 TPASSLAEIEKVYEIAVNGSDDEKICAATVLCGASLVRGWSVQENTILFIIKLLSPPVPADYSGSESHLIGYAALLNTLL 654 (1333)
Q Consensus 575 tPAsSlaElEKly~iA~~GS~eEk~aAA~ILCGASL~RGWniQEH~v~~vvkLLSppvP~~~sg~~s~li~~~pmLn~ll 654 (1333)
+++.- |+.. +.-.--||. -|-++-=|+|.|+ +||+-...-+++ ||+-++
T Consensus 399 -----------l~~~~-n~~~--qp~~~lIlR----------AE~tl~~IlKtl~----ad~~k~~e~ll~---vL~~ml 447 (990)
T PF11277_consen 399 -----------LQKLE-NTNQ--QPNPKLILR----------AEPTLTGILKTLD----ADYSKSQEGLLG---VLCQML 447 (990)
T ss_pred -----------hhhcc-cCCC--CCCcceEEe----------cccHHHHHHHHhc----cccccchHHHHH---HHHhhc
Confidence 11111 1111 101111111 2667777888887 566543332222 344444
Q ss_pred hcCCcccce-eeeccccchhhhHhhhhhhhhhhcCCCCCCCcccCCCCccchhhhHHHHHHHHHHHhhcCCCchhhcccC
Q 000719 655 VGISSVDCI-QIFSLHGWVPLLAAALMPICEVFGSSIPNASWTLSSGEEFSCYAVFSNAFTILVRLWRFHKPPLEQLTVD 733 (1333)
Q Consensus 655 ~GissvD~v-hI~SlhGlvP~~Aa~LMPiCEvFGS~~P~~~~t~~~gee~S~~~VFS~AFl~LlRLWkF~~PPlE~l~~~ 733 (1333)
+| +|.|.| -...--|=.+.+|..|.=+=|.--.+ |.-.- -...+-...|=.-|+.|-|.=+-|-
T Consensus 448 sG-~SfdlilAaAa~~GkLk~FaskLIk~Ne~~K~~-~~e~~----K~a~~Ra~LFDiSFLMLc~i~q~YG--------- 512 (990)
T PF11277_consen 448 SG-KSFDLILAAAAVTGKLKSFASKLIKCNEFSKQI-SGEGS----KSAQTRALLFDISFLMLCSIVQTYG--------- 512 (990)
T ss_pred cC-CcHHHHHHHHHHcccHHHHHHHHHhhccccccC-Ccccc----ccchhHHHHHhhHHHHHHHHHHHcC---------
Confidence 43 344443 12233566777777777666654331 11110 0123445678888888877655442
Q ss_pred CCccccCCCchhhhhhcccccccCCCCccchhcccccccccccCCCcccccccchhhHHHhhhhh----HHHHhhhcccc
Q 000719 734 MPLVASQLSPEYLLLVRNSKLASFGTSPKDQMKSKRFSKNIKFSTDPIFMDSFPKLKRWYRQNEE----CIASTLTGLVH 809 (1333)
Q Consensus 734 g~~vgs~lt~eyLLllrN~~~~~~~~~~~~~~~~~~~~~~~~~s~~Pv~iDSFPKLk~WY~Q~qa----CiAStlSgl~~ 809 (1333)
+|.-+. .+. ||| ...|+++.-- +. |.-..+..
T Consensus 513 -----sevvls-------------------------------e~~-----~Sf--Fe~Wv~~~m~e~~~~~-sP~~~~~~ 548 (990)
T PF11277_consen 513 -----SEVVLS-------------------------------ENG-----DSF--FEKWVRECMPEEGKSK-SPDQPLAL 548 (990)
T ss_pred -----CcEEEC-------------------------------CCC-----CcH--HHHHHHHhcccccCCC-Chhhhhhc
Confidence 221000 000 111 3456654210 00 00011111
Q ss_pred CChHHHHHHHHHHHHHHhhcCCCCCCCCCCCCCcCCCCCCCccccccCCcchh-HHhhhhhhHHHHHHhhhccCCCCchh
Q 000719 810 GTSVHLIVDALLTKMFRKINRSGTPLTSATSGSTNSSGSGLEDVSIKLKVPAW-DILEATPFVLDAALAACAHGRLSPRE 888 (1333)
Q Consensus 810 g~pvhqv~~~lL~mm~~K~nk~g~~~~~~ss~sSsSs~~~~dD~~~rp~lPAW-eiLEAvPfVlda~LTACaHGrLS~Rd 888 (1333)
|=...+|.+|+.+ |+ ++ ..+|.---| ||--.+|.|+-=+|.|=-+|-+|.-|
T Consensus 549 --~d~~~vd~ll~~l----~~-------------------~~--~~k~~~~kW~eiC~~iP~~i~eiL~AwE~g~ls~~~ 601 (990)
T PF11277_consen 549 --CDPAKVDSLLAQL----NS-------------------SQ--EFKLSQVKWHEICLNIPGAIKEILNAWENGTLSIEE 601 (990)
T ss_pred --cCchhHHHHHHHh----cC-------------------cc--ccCcccCcHHHHHHhhHHHHHHHHHHHHhCcccHHH
Confidence 2234667777662 22 12 244433445 78899999999999999999999988
Q ss_pred h---hhhhhhhhhccc-hhHHHHHHHhh
Q 000719 889 L---ATGLKELSDCLP-ATLATVVSYFS 912 (1333)
Q Consensus 889 L---~TGLrdL~DFLP-ASlatIvSYfS 912 (1333)
+ +.++||=+-+|| .--|-+.+|-.
T Consensus 602 Vk~ild~ik~~~~~l~VCa~awLcay~~ 629 (990)
T PF11277_consen 602 VKRILDNIKGKMCCLSVCAAAWLCAYMR 629 (990)
T ss_pred HHHHHHHhhcccccHHHHHHHHHHHHHH
Confidence 5 778888777777 33445566654
No 2
>PRK02866 cyanate hydratase; Validated
Probab=81.72 E-value=2.9 Score=43.91 Aligned_cols=93 Identities=20% Similarity=0.225 Sum_probs=61.9
Q ss_pred HHHHHHHhhhcCCCCcchHHHHHHHHhcCCCChHHHHHhhhcccccCcc-------cchhHHHHHHHHhhhccccccccc
Q 000719 55 LAHLLVSHICWDNHVPITWKFLEKALTLKIVPPSLVLALLSTRVISNRQ-------LHPAAYRLYLEFLTRHAFSFASLV 127 (1333)
Q Consensus 55 LA~~LVs~LCfdnn~Ps~WKfLe~AlssrLv~PLhvLALLSsRVIP~R~-------~qPeAYRLYLELL~r~aFs~~~~i 127 (1333)
+.+.-+..+|.+.|.++. ---++++..|=.|--+.+.|. ..|.|- .-|.-|||| |.+..|+-+++..|
T Consensus 30 ~S~v~vaaa~lGQ~~ls~--e~A~kla~~LgL~~~~~~~l~--~~P~rg~~~~~~ptdP~iYR~y-E~v~vYG~~~K~~i 104 (147)
T PRK02866 30 LSEVWVTAALLGQMTLPA--EEAEKVAELLGLDEDAVALLQ--EVPYRGSLPPAVPTDPLIYRFY-EMVQVYGTTLKALI 104 (147)
T ss_pred CCHHHHHHHHhCCCCCCH--HHHHHHHHHhCCCHHHHHHHh--cCCcCCCCCCCCCCCcHHHHHH-HHHHHhhHHHHHHH
Confidence 346666677777766651 111122222222223455555 478884 468899999 99999999999998
Q ss_pred CCCchhHHHhcHHHHhccccccCCc
Q 000719 128 NGPNYDKIMNSIDDVLNLSQIFGLK 152 (1333)
Q Consensus 128 ~~pn~~kimkSID~~L~LS~~~g~~ 152 (1333)
+-.-=|-||..||=-+.+-+.-+-.
T Consensus 105 ~E~FGDGIMSAIdf~~~v~k~~dp~ 129 (147)
T PRK02866 105 HEKFGDGIMSAIDFKLDVDKVEDPK 129 (147)
T ss_pred HHHhCCceeeeeeeceeeeeccCCC
Confidence 8766689999999877777655444
No 3
>TIGR00673 cynS cyanate hydratase. Alternate names include cyanate lyase, cyanase and cyanate hydrolase.
Probab=63.74 E-value=3.7 Score=43.24 Aligned_cols=54 Identities=26% Similarity=0.370 Sum_probs=43.9
Q ss_pred cccCcc-------cchhHHHHHHHHhhhcccccccccCCCchhHHHhcHHHHhccccccCCc
Q 000719 98 VISNRQ-------LHPAAYRLYLEFLTRHAFSFASLVNGPNYDKIMNSIDDVLNLSQIFGLK 152 (1333)
Q Consensus 98 VIP~R~-------~qPeAYRLYLELL~r~aFs~~~~i~~pn~~kimkSID~~L~LS~~~g~~ 152 (1333)
..|.|- .-|.-|||| |.+..|+-+++..|+-.-=|-||..||=-+.+.+.-+-.
T Consensus 72 ~~P~rg~~~~~~ptdP~iYR~y-E~v~vYG~~~K~~i~E~FGDGIMSAIdF~~~v~k~~dp~ 132 (150)
T TIGR00673 72 MAPLRGCIDPVIPTDPTMYRFY-EMLQVYGTTLKAVVHEKFGDGIMSAIDFKLDVEKVADPG 132 (150)
T ss_pred cCCCCCCCCCCCCCCchHHHHH-HHHHHhhHHHHHHHHHHhCcceeeeeeeceeeeeecCCC
Confidence 468885 578899999 999999999999988666689999999877777655443
No 4
>TIGR00380 cobD cobalamin biosynthesis protein CobD. This protein is involved in cobalamin (vitamin B12) biosynthesis and porphyrin biosynthesis. It converts cobyric acid to cobinamide by the addition of aminopropanol on the F carboxylic group. It is part of the cob operon.
Probab=33.23 E-value=18 Score=41.62 Aligned_cols=48 Identities=19% Similarity=0.392 Sum_probs=32.5
Q ss_pred hhhhhhhhhccchhHHHHHHHhhhhhccccccccccCCCCCCCcccch
Q 000719 890 ATGLKELSDCLPATLATVVSYFSAEVTRGLWKPAFMNGTDWPSPATNL 937 (1333)
Q Consensus 890 ~TGLrdL~DFLPASlatIvSYfSAEvTRGiWKpv~MNGtDWPSPaAnL 937 (1333)
+.-+.|+.+|+||-|.++.--+.+-=.++-|+-..=.+.+||||.+-.
T Consensus 199 aarlddiln~iPaRLtal~~~~~~~~~~~a~~~~~r~~~~~~spNsG~ 246 (305)
T TIGR00380 199 AARLDDILNYIPSRLTVFMLLFLSGKPKGAFAIVLRDAPKDPSPNSGW 246 (305)
T ss_pred HHHHHHHHccHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCcCCCccH
Confidence 345889999999999986433332111345566566788999998765
No 5
>PF12949 HeH: HeH/LEM domain; PDB: 2OUT_A.
Probab=28.66 E-value=39 Score=28.29 Aligned_cols=18 Identities=39% Similarity=0.748 Sum_probs=12.6
Q ss_pred HHHHHHHHhhCCCCcccC
Q 000719 942 QQIKKILAATGVDVPTVA 959 (1333)
Q Consensus 942 ~~ik~ILAatGVdvP~~~ 959 (1333)
.|+|+||.+.||++|+-+
T Consensus 7 ~~Lk~iL~~~~I~~ps~A 24 (35)
T PF12949_consen 7 AQLKRILDEHGIEFPSNA 24 (35)
T ss_dssp HHHHHHHHHHT---SSS-
T ss_pred HHHHHHHHHcCCCCCCCC
Confidence 589999999999999853
No 6
>PF03186 CobD_Cbib: CobD/Cbib protein; InterPro: IPR004485 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents the CbiB protein, which is involved in cobalamin biosynthesis and porphyrin biosynthesis. It converts cobyric acid to cobinamide by the addition of aminopropanol on the F carboxylic group. It is part of the cob operon [].; GO: 0009236 cobalamin biosynthetic process, 0016021 integral to membrane
Probab=27.94 E-value=29 Score=39.39 Aligned_cols=46 Identities=22% Similarity=0.368 Sum_probs=37.0
Q ss_pred hhhhhhccchhHHHHHHHhhhhhcc----ccccccccCCCCCCCcccchh
Q 000719 893 LKELSDCLPATLATVVSYFSAEVTR----GLWKPAFMNGTDWPSPATNLS 938 (1333)
Q Consensus 893 LrdL~DFLPASlatIvSYfSAEvTR----GiWKpv~MNGtDWPSPaAnL~ 938 (1333)
|.|+++|+||-|.+..--+.+=..+ +-|+...=.+..||||.+-..
T Consensus 195 ldd~ln~iPaRLtal~~~l~~~~~~~~~~~a~~~~~r~~~~~~SpNsg~~ 244 (295)
T PF03186_consen 195 LDDLLNWIPARLTALLIALAAPFLGLDWKGALRAWRRDARKHPSPNSGWP 244 (295)
T ss_pred HHHHhCcHHHHHHHHHHHHHHccccccHHHHHHHHHhhhcCCCCCCcccH
Confidence 7899999999998887777776664 567777788999999976543
No 7
>PRK08878 adenosylcobinamide-phosphate synthase; Provisional
Probab=26.21 E-value=28 Score=40.23 Aligned_cols=47 Identities=15% Similarity=0.367 Sum_probs=32.9
Q ss_pred hhhhhhhhhccchhHHHHHHHhhhhhccccccccccCCCCCCCcccch
Q 000719 890 ATGLKELSDCLPATLATVVSYFSAEVTRGLWKPAFMNGTDWPSPATNL 937 (1333)
Q Consensus 890 ~TGLrdL~DFLPASlatIvSYfSAEvTRGiWKpv~MNGtDWPSPaAnL 937 (1333)
+.-+.|+.||+||-|.+..--..+- .++-||-..=.+..||||.+-.
T Consensus 202 aArlddiLnwiPARLtal~~~l~~~-~~~a~~~~~rd~~~~~SpNsG~ 248 (317)
T PRK08878 202 AVRILAILDFIPLRLFALLILLGKN-AGHTFQGLLQQSKSWPLPGPAW 248 (317)
T ss_pred HHHHHHHHccHHHHHHHHHHHHHhh-HHHHHHHHHHhcccCCCCCchH
Confidence 4458899999999998765444332 2445655555789999998764
No 8
>KOG0818 consensus GTPase-activating proteins of the GIT family [Signal transduction mechanisms]
Probab=21.02 E-value=2.8e+02 Score=34.90 Aligned_cols=122 Identities=16% Similarity=0.135 Sum_probs=77.2
Q ss_pred HHHHHHHhhhcccccccccCC--CchhHHHhcHHHHhccccccCCccccCCeeehhHHHHHHHHHhhhcccccCcccccc
Q 000719 109 YRLYLEFLTRHAFSFASLVNG--PNYDKIMNSIDDVLNLSQIFGLKVCESGVLLVEFVFSVVWQLLDASLDDEGLLEFAS 186 (1333)
Q Consensus 109 YRLYLELL~r~aFs~~~~i~~--pn~~kimkSID~~L~LS~~~g~~~~e~G~~vV~Fvfsiv~~L~Da~LdD~Gl~~~~~ 186 (1333)
|..+-|+..|.+|-+...... .+.|.|+--+-|.|+||+.-.......-.+-=.-|+-++--+.|-+=..|
T Consensus 220 ~e~~y~vtDR~~f~lcgrKpDHkngqhfiIP~~~~sld~se~~k~ar~klq~l~n~~FeeL~mD~yDEvdRRE------- 292 (669)
T KOG0818|consen 220 VEIQYELTDRLAFYLCGRKPDHKNGQHFIIPQMADSLDLSELAKAAKKKLQSLSNHLFEELAMDVYDEVDRRE------- 292 (669)
T ss_pred HHHHHHHHHHHHHHHhcCCCcccCCcceeccccccchhHHHHHHHHHHHHhhcchhhHHHHHHHHHHHHhhhh-------
Confidence 445578999999988664433 23388888888889888877665555545545556666666666554433
Q ss_pred cCCCCCCC----------CCCcccccCCCCccccccchhhhhccchhHHHHHHHHHHHhhhh
Q 000719 187 DKNFKWPT----------RPQDMEIDGIDGFIDKRSEHHEGLFRANTTMAIELIGEFLQNKV 238 (1333)
Q Consensus 187 ~~~~~~~~----------~~qdMeiDg~~~~~~kr~e~~E~Lrk~NT~mAiEvI~~fl~nK~ 238 (1333)
.+..|.. .+-.-=+..+--++.-|++.|.+|.|-|..-=--+|-.++.|-|
T Consensus 293 -~eavW~~tqnhsal~a~~~tvpFLP~nP~~SAtRNQgRQKLArFn~~eFt~LliDil~dak 353 (669)
T KOG0818|consen 293 -TDAVWLATQNHSALVTETTTVPFLPVNPEYSATRNQGRQKLARFNAHEFATLLIDILSDAK 353 (669)
T ss_pred -hhhHHhhhccchhhcccCccccccCCCchhhhhhhhhhHHHhhcCHHHHHHHHHHHHHHHH
Confidence 2333322 11112245556678889999999999997654445555555544
No 9
>COG1270 CbiB Cobalamin biosynthesis protein CobD/CbiB [Coenzyme metabolism]
Probab=20.72 E-value=43 Score=39.20 Aligned_cols=46 Identities=22% Similarity=0.311 Sum_probs=35.5
Q ss_pred hhhhhhhccchhHHHHHHH-----hhhhhccccccccccCCCCCCCcccch
Q 000719 892 GLKELSDCLPATLATVVSY-----FSAEVTRGLWKPAFMNGTDWPSPATNL 937 (1333)
Q Consensus 892 GLrdL~DFLPASlatIvSY-----fSAEvTRGiWKpv~MNGtDWPSPaAnL 937 (1333)
-+.|+++|+||-|.++.-- .+..-+|..||-+-=....||||.+--
T Consensus 201 rlDD~lN~iPARLt~~l~~~~~~~~~~~~~~~a~~~~~rda~~~~SpNsg~ 251 (320)
T COG1270 201 RLDDLLNYIPARLTALLLALASLVLGGGPTRQALRIWRRDARKHPSPNAGW 251 (320)
T ss_pred HHHHHHhhhhHHHHHHHHHHHHHhhccCcHHHHHHHHHHHhccCCCCCCcc
Confidence 3789999999998754322 235667888998888888999998754
No 10
>PF02560 Cyanate_lyase: Cyanate lyase C-terminal domain; InterPro: IPR003712 Some bacteria can overcome the toxicity of environmental cyanate by hydrolysis of cyanate. This reaction is catalyzed by cyanate lyase (also known as cyanase) []. Cyanate lyase is found in bacteria and plants and catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. The cyanate lyase monomer is composed of two domains. The N-terminal domain shows structural similarity to the DNA-binding alpha-helix bundle motif. The C-terminal domain has an 'open fold' with no structural homology to other proteins. The dimer structure reveals the C-terminal domains to be intertwined, and the decamer is formed by a pentamer of these dimers. The active site of the enzyme is located between dimers and is comprised of residues from four adjacent subunits of the homodecamer []. ; GO: 0008824 cyanate hydratase activity, 0009439 cyanate metabolic process; PDB: 2IV1_B 2IUO_A 2IVQ_B 1DW9_A 1DWK_E 2IVG_G 2IU7_J 2IVB_A.
Probab=20.59 E-value=8.9 Score=36.57 Aligned_cols=46 Identities=26% Similarity=0.397 Sum_probs=34.5
Q ss_pred cchhHHHHHHHHhhhcccccccccCCCchhHHHhcHHHHhccccccC
Q 000719 104 LHPAAYRLYLEFLTRHAFSFASLVNGPNYDKIMNSIDDVLNLSQIFG 150 (1333)
Q Consensus 104 ~qPeAYRLYLELL~r~aFs~~~~i~~pn~~kimkSID~~L~LS~~~g 150 (1333)
+-|..|||| |.+..|+-+++..++-.-=|-||..||=-+.+-+.-+
T Consensus 8 tDP~iYR~y-E~v~vYG~~~K~li~E~FGDGIMSAIdF~~~v~k~~d 53 (73)
T PF02560_consen 8 TDPLIYRLY-EIVQVYGPAIKALIHEKFGDGIMSAIDFKMDVEKVED 53 (73)
T ss_dssp -SHHHHHHH-HHHHHHHHHHHHHHHHHT-SEEEEEEEEEEEEEEEE-
T ss_pred CCCeEeeee-hhhHhhCHHHHHHHHHhhCcceEEEeeEEEEEEEeeC
Confidence 579999999 8999999999888776655888888886666555443
No 11
>PF10382 DUF2439: Protein of unknown function (DUF2439); InterPro: IPR018838 This domain is found at the N-terminal of proteins implicated in telomere maintenance in Saccharomyces cerevisiae (Baker's yeast) [] and in meiotic chromosome segregation in Schizosaccharomyces pombe (Fission yeast) [].
Probab=20.11 E-value=33 Score=32.65 Aligned_cols=14 Identities=43% Similarity=1.035 Sum_probs=10.8
Q ss_pred Hhhhhcccc-eEEEe
Q 000719 1019 AQKVKRWND-FLVFS 1032 (1333)
Q Consensus 1019 ~QKVkRW~d-fiV~S 1032 (1333)
+||.|+||| |+.|.
T Consensus 13 ~kK~K~W~DG~l~~~ 27 (83)
T PF10382_consen 13 TKKRKKWHDGFLKYH 27 (83)
T ss_pred cccceeeECCEEEEE
Confidence 699999999 45444
Done!