Query 001375
Match_columns 1091
No_of_seqs 44 out of 46
Neff 2.6
Searched_HMMs 46136
Date Thu Mar 28 23:12:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001375.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001375hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00380 cobD cobalamin biosy 42.6 12 0.00025 41.9 1.2 60 650-715 199-259 (305)
2 PF03186 CobD_Cbib: CobD/Cbib 36.1 20 0.00042 39.6 1.6 57 653-715 195-256 (295)
3 PRK08878 adenosylcobinamide-ph 34.4 19 0.0004 40.5 1.1 59 650-715 202-261 (317)
4 COG1270 CbiB Cobalamin biosynt 27.8 29 0.00063 39.6 1.3 65 652-721 201-272 (320)
5 PRK01209 cobD cobalamin biosyn 27.6 37 0.00079 37.9 1.9 60 650-715 195-259 (312)
6 PRK07630 CobD/CbiB family prot 27.1 32 0.00069 38.3 1.4 47 650-697 193-239 (312)
7 PF10382 DUF2439: Protein of u 25.1 23 0.0005 32.8 -0.1 14 779-792 13-27 (83)
8 PF10755 DUF2585: Protein of u 21.2 45 0.00097 35.2 1.0 35 621-655 73-107 (165)
9 PF14210 DUF4322: Domain of un 21.0 63 0.0014 29.8 1.8 21 566-586 4-25 (66)
10 PRK00944 hypothetical protein; 20.5 47 0.001 35.8 1.1 16 620-635 101-116 (195)
No 1
>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=42.58 E-value=12 Score=41.93 Aligned_cols=60 Identities=23% Similarity=0.442 Sum_probs=39.1
Q ss_pred hhhhhhhhhhchhhHHHHHHhhhhhhccccccccccCCCCCCCcccchhhHHHHHHHH-HhhhCccc
Q 001375 650 ATGLKDLADFLPASLATIVSYFSAEVSRGVWKPAFMNGMDWPSPATNLTNVEEHIKKI-LATTGIDI 715 (1091)
Q Consensus 650 ~TGLrDL~DFLPASlatIvSYFSAEvTRGiWKpv~MNGtDWPSPAAnL~~VE~~Ik~I-Aa~tGVdv 715 (1091)
+.-+.|+.+|+||-|.++.--+.+-=.++-|+-..=.+.+||||.+-.. ... |...||..
T Consensus 199 aarlddiln~iPaRLtal~~~~~~~~~~~a~~~~~r~~~~~~spNsG~~------~Aa~AgaLgVrL 259 (305)
T TIGR00380 199 AARLDDILNYIPSRLTVFMLLFLSGKPKGAFAIVLRDAPKDPSPNSGWT------MAAYAAALGIQL 259 (305)
T ss_pred HHHHHHHHccHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCcCCCccHH------HHHHHHHcceEe
Confidence 3458899999999999864333321113456666668999999988763 223 44367665
No 2
>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=36.10 E-value=20 Score=39.62 Aligned_cols=57 Identities=21% Similarity=0.401 Sum_probs=43.6
Q ss_pred hhhhhhhchhhHHHHHHhhhhhhcc----ccccccccCCCCCCCcccchhhHHHHHHHH-HhhhCccc
Q 001375 653 LKDLADFLPASLATIVSYFSAEVSR----GVWKPAFMNGMDWPSPATNLTNVEEHIKKI-LATTGIDI 715 (1091)
Q Consensus 653 LrDL~DFLPASlatIvSYFSAEvTR----GiWKpv~MNGtDWPSPAAnL~~VE~~Ik~I-Aa~tGVdv 715 (1091)
|.|+++|+||-|.+..--+.+=..+ +-|+...=.+..||||.+-... .. |...||..
T Consensus 195 ldd~ln~iPaRLtal~~~l~~~~~~~~~~~a~~~~~r~~~~~~SpNsg~~~------Aa~AgaL~v~L 256 (295)
T PF03186_consen 195 LDDLLNWIPARLTALLIALAAPFLGLDWKGALRAWRRDARKHPSPNSGWPE------AAFAGALGVRL 256 (295)
T ss_pred HHHHhCcHHHHHHHHHHHHHHccccccHHHHHHHHHhhhcCCCCCCcccHH------HHHHHHhCeee
Confidence 7899999999999888777776664 6678888889999999776542 23 44477765
No 3
>PRK08878 adenosylcobinamide-phosphate synthase; Provisional
Probab=34.35 E-value=19 Score=40.52 Aligned_cols=59 Identities=14% Similarity=0.298 Sum_probs=38.7
Q ss_pred hhhhhhhhhhchhhHHHHHHhhhhhhccccccccccCCCCCCCcccchhhHHHHHHHH-HhhhCccc
Q 001375 650 ATGLKDLADFLPASLATIVSYFSAEVSRGVWKPAFMNGMDWPSPATNLTNVEEHIKKI-LATTGIDI 715 (1091)
Q Consensus 650 ~TGLrDL~DFLPASlatIvSYFSAEvTRGiWKpv~MNGtDWPSPAAnL~~VE~~Ik~I-Aa~tGVdv 715 (1091)
+.-+.|+.||+||-|.+..--..+- .++-||-..=.+..||||.+-... .. |...||..
T Consensus 202 aArlddiLnwiPARLtal~~~l~~~-~~~a~~~~~rd~~~~~SpNsG~~~------Aa~AgaLgv~L 261 (317)
T PRK08878 202 AVRILAILDFIPLRLFALLILLGKN-AGHTFQGLLQQSKSWPLPGPAWLL------CAIGNKLQLSL 261 (317)
T ss_pred HHHHHHHHccHHHHHHHHHHHHHhh-HHHHHHHHHHhcccCCCCCchHHH------HHHHHHheeee
Confidence 4457899999999998765444332 245566555578999999886431 23 33366665
No 4
>COG1270 CbiB Cobalamin biosynthesis protein CobD/CbiB [Coenzyme metabolism]
Probab=27.85 E-value=29 Score=39.56 Aligned_cols=65 Identities=20% Similarity=0.412 Sum_probs=44.5
Q ss_pred hhhhhhhhchhhHHHHHHh-----hhhhhccccccccccCCCCCCCcccchhhHHHHHHHHHhhhCccc--CCCCCC
Q 001375 652 GLKDLADFLPASLATIVSY-----FSAEVSRGVWKPAFMNGMDWPSPATNLTNVEEHIKKILATTGIDI--PSLAAG 721 (1091)
Q Consensus 652 GLrDL~DFLPASlatIvSY-----FSAEvTRGiWKpv~MNGtDWPSPAAnL~~VE~~Ik~IAa~tGVdv--P~~~~g 721 (1091)
-+.|+++|+||-|.++.-- .+.+-+|..||-+-=....||||.+--.. -..|...||.. |+-+.+
T Consensus 201 rlDD~lN~iPARLt~~l~~~~~~~~~~~~~~~a~~~~~rda~~~~SpNsg~p~-----AA~AgaLgv~L~gp~~Y~~ 272 (320)
T COG1270 201 RLDDLLNYIPARLTALLLALASLVLGGGPTRQALRIWRRDARKHPSPNAGWPE-----AAMAGALGVRLGGPGIYGG 272 (320)
T ss_pred HHHHHHhhhhHHHHHHHHHHHHHhhccCcHHHHHHHHHHHhccCCCCCCccHH-----HHHHHhhceeecCCeeeec
Confidence 3789999999998754322 23566788999888889999999886431 12233377765 444444
No 5
>PRK01209 cobD cobalamin biosynthesis protein; Provisional
Probab=27.56 E-value=37 Score=37.85 Aligned_cols=60 Identities=20% Similarity=0.343 Sum_probs=40.0
Q ss_pred hhhhhhhhhhchhhHHHHHHhhhhhhccccc----cccccCCCCCCCcccchhhHHHHHHHH-HhhhCccc
Q 001375 650 ATGLKDLADFLPASLATIVSYFSAEVSRGVW----KPAFMNGMDWPSPATNLTNVEEHIKKI-LATTGIDI 715 (1091)
Q Consensus 650 ~TGLrDL~DFLPASlatIvSYFSAEvTRGiW----Kpv~MNGtDWPSPAAnL~~VE~~Ik~I-Aa~tGVdv 715 (1091)
+.-+.|+.||+||-|.++.=-..|=+.+|=+ +-..=.+.+||||.+-.. ... |...||..
T Consensus 195 aarlddilnwiPaRLtal~~~l~a~~~~g~~~~a~~~~~~~~~~~~spn~g~~------~Aa~AgaLgv~L 259 (312)
T PRK01209 195 AARLDDVLNYIPARLTALLLALAAPLLGGDPRGALRIWRRDARKHPSPNAGWP------EAAMAGALGVQL 259 (312)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHhccCCHHHHHHHHHHhhcCCcCCCchHH------HHHHHHHhceee
Confidence 5568999999999998776555544444433 334457899999987643 223 33367755
No 6
>PRK07630 CobD/CbiB family protein; Provisional
Probab=27.06 E-value=32 Score=38.34 Aligned_cols=47 Identities=15% Similarity=0.198 Sum_probs=34.5
Q ss_pred hhhhhhhhhhchhhHHHHHHhhhhhhccccccccccCCCCCCCcccch
Q 001375 650 ATGLKDLADFLPASLATIVSYFSAEVSRGVWKPAFMNGMDWPSPATNL 697 (1091)
Q Consensus 650 ~TGLrDL~DFLPASlatIvSYFSAEvTRGiWKpv~MNGtDWPSPAAnL 697 (1091)
+.-|.|+.||+||-|.++.=-..+.. .+.|+...=.+.+||||.+..
T Consensus 193 aarldd~lnwiPaRL~al~~al~g~~-~~a~~~~~~~~~~~~spn~g~ 239 (312)
T PRK07630 193 AQRAFFVIDWVPARLTALGFAIVGNF-EDAIYAWRNQARQWPDENDGI 239 (312)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHcCH-HHHHHHHHHhhccCCCCCchH
Confidence 45688999999999988765555543 234555555688999998876
No 7
>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=25.05 E-value=23 Score=32.84 Aligned_cols=14 Identities=50% Similarity=1.082 Sum_probs=10.8
Q ss_pred Hhhhhcccc-eEEEe
Q 001375 779 TQKAKRWFD-FLVFS 792 (1091)
Q Consensus 779 ~QKVkRW~d-fiV~S 792 (1091)
+||.|+||| |+.|.
T Consensus 13 ~kK~K~W~DG~l~~~ 27 (83)
T PF10382_consen 13 TKKRKKWHDGFLKYH 27 (83)
T ss_pred cccceeeECCEEEEE
Confidence 699999999 44444
No 8
>PF10755 DUF2585: Protein of unknown function (DUF2585); InterPro: IPR019691 This family is conserved in Proteobacteria. The function is not known, but it is thought to be a transmembrane protein. ; GO: 0005886 plasma membrane
Probab=21.23 E-value=45 Score=35.24 Aligned_cols=35 Identities=20% Similarity=0.418 Sum_probs=22.4
Q ss_pred hhhHhhhhhhHHHHHHhhccCCCCCchhhhhhhhh
Q 001375 621 AWDILEAVPFVVDAALTGCAHGRLSPRELATGLKD 655 (1091)
Q Consensus 621 AWeiLEAvPFVlea~LTACaHGrLS~RdL~TGLrD 655 (1091)
+|||+|..|||+|--=++-.-..-.---.+...-|
T Consensus 73 ~WEi~ENsp~II~rYR~~Tia~~Y~GDSV~NSv~D 107 (165)
T PF10755_consen 73 AWEIVENSPFIIERYRAATIALDYFGDSVLNSVSD 107 (165)
T ss_pred hhhhhhCCHHHHHHHHHhhhcccccchHHHHHHHH
Confidence 89999999999986544443333333334444444
No 9
>PF14210 DUF4322: Domain of unknown function (DUF4322)
Probab=20.99 E-value=63 Score=29.83 Aligned_cols=21 Identities=38% Similarity=0.588 Sum_probs=18.0
Q ss_pred cccCCCchhHHHHHHHHHH-HH
Q 001375 566 GLVHGTQVHQTVDELLSMM-FR 586 (1091)
Q Consensus 566 gl~~g~pvhqv~~~lL~mm-f~ 586 (1091)
++-|-|-++||..+||+|+ |+
T Consensus 4 ~~phqnn~qQIgyKLlSml~Fk 25 (66)
T PF14210_consen 4 DLPHQNNIQQIGYKLLSMLNFK 25 (66)
T ss_pred CCCchhHHHHHHHHHHHHHccc
Confidence 4568889999999999999 63
No 10
>PRK00944 hypothetical protein; Provisional
Probab=20.46 E-value=47 Score=35.79 Aligned_cols=16 Identities=31% Similarity=0.927 Sum_probs=14.1
Q ss_pred chhhHhhhhhhHHHHH
Q 001375 620 PAWDILEAVPFVVDAA 635 (1091)
Q Consensus 620 PAWeiLEAvPFVlea~ 635 (1091)
.||||+|..|||+|--
T Consensus 101 ~aWEi~ENsp~II~RY 116 (195)
T PRK00944 101 SAWELLENSPLIIERY 116 (195)
T ss_pred hhhHhhcCCHHHHHHH
Confidence 5899999999999853
Done!