Query psy198
Match_columns 245
No_of_seqs 138 out of 1339
Neff 6.7
Searched_HMMs 46136
Date Fri Aug 16 21:07:15 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy198.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/198hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0009 SUA5 Putative translat 100.0 2.5E-57 5.4E-62 391.2 21.6 193 34-229 13-207 (211)
2 TIGR00057 Sua5/YciO/YrdC/YwlC 100.0 1.6E-56 3.5E-61 384.8 20.1 195 30-227 4-199 (201)
3 PRK11630 hypothetical protein; 100.0 3E-56 6.5E-61 384.5 20.4 191 30-224 10-203 (206)
4 PRK10634 tRNA(ANN) t(6)A37 thr 100.0 1.9E-54 4.2E-59 369.0 18.8 182 32-219 5-190 (190)
5 PF01300 Sua5_yciO_yrdC: Telom 100.0 1.6E-53 3.5E-58 359.7 14.2 175 42-219 1-179 (179)
6 TIGR00143 hypF [NiFe] hydrogen 100.0 1.1E-39 2.4E-44 323.9 21.5 205 33-242 161-377 (711)
7 KOG3051|consensus 100.0 3.1E-31 6.7E-36 229.7 9.6 182 37-221 18-204 (261)
8 COG0068 HypF Hydrogenase matur 99.9 9.9E-25 2.1E-29 211.9 14.3 203 35-242 198-412 (750)
9 COG2192 Predicted carbamoyl tr 98.1 4.7E-05 1E-09 73.9 12.2 146 36-192 379-548 (555)
10 PF02543 CmcH_NodU: Carbamoylt 92.5 0.1 2.2E-06 48.9 3.1 65 36-101 253-326 (360)
11 cd07985 LPLAT_GPAT Lysophospho 74.0 8.3 0.00018 34.2 5.7 51 32-82 99-157 (235)
12 PRK00135 scpB segregation and 54.3 23 0.0005 30.2 4.6 67 10-77 10-83 (188)
13 TIGR00281 segregation and cond 54.0 23 0.0005 30.2 4.5 65 12-76 9-80 (186)
14 cd00354 FBPase Fructose-1,6-bi 42.0 9.3 0.0002 35.3 0.3 60 37-98 233-311 (315)
15 COG4821 Uncharacterized protei 41.8 1.1E+02 0.0024 26.9 6.7 135 35-195 26-170 (243)
16 PLN02262 fructose-1,6-bisphosp 41.2 12 0.00025 35.1 0.8 62 36-99 251-331 (340)
17 PLN02542 fructose-1,6-bisphosp 39.6 12 0.00026 35.9 0.6 60 37-98 329-407 (412)
18 TIGR00631 uvrb excinuclease AB 39.2 35 0.00075 34.7 3.9 119 33-172 14-148 (655)
19 KOG0360|consensus 39.1 25 0.00054 34.4 2.6 93 85-178 253-354 (545)
20 PF04079 DUF387: Putative tran 39.0 65 0.0014 26.7 4.9 62 13-76 7-74 (159)
21 PF05785 CNF1: Rho-activating 37.7 14 0.00029 33.7 0.6 34 132-171 103-136 (281)
22 PF02082 Rrf2: Transcriptional 36.0 67 0.0015 23.1 4.0 46 19-65 25-72 (83)
23 cd08210 RLP_RrRLP Ribulose bis 35.3 34 0.00073 32.2 2.9 49 147-195 116-165 (364)
24 PLN02349 glycerol-3-phosphate 35.2 52 0.0011 31.6 4.1 45 34-80 280-335 (426)
25 COG1638 DctP TRAP-type C4-dica 31.5 76 0.0016 29.4 4.5 67 85-156 108-186 (332)
26 cd08205 RuBisCO_IV_RLP Ribulos 30.3 47 0.001 31.3 2.9 49 147-195 120-170 (367)
27 PRK09293 fructose-1,6-bisphosp 30.2 21 0.00046 33.1 0.6 61 36-98 240-319 (327)
28 PRK09375 quinolinate synthetas 28.7 78 0.0017 29.4 4.0 84 36-122 78-164 (319)
29 KOG2819|consensus 27.8 9.8 0.00021 35.5 -2.0 113 9-131 19-148 (413)
30 KOG3051|consensus 26.9 53 0.0012 29.5 2.5 177 30-222 33-238 (261)
31 PF00316 FBPase: Fructose-1-6- 25.8 8.7 0.00019 35.7 -2.7 61 36-98 239-318 (324)
32 COG0379 NadA Quinolinate synth 25.7 86 0.0019 29.1 3.7 86 35-123 79-167 (324)
33 cd08148 RuBisCO_large Ribulose 24.2 57 0.0012 30.8 2.3 47 147-193 117-165 (366)
34 TIGR00506 ribB 3,4-dihydroxy-2 24.1 1.8E+02 0.0039 25.1 5.2 58 36-98 4-67 (199)
35 PF00926 DHBP_synthase: 3,4-di 23.9 2.1E+02 0.0046 24.5 5.6 38 37-74 1-44 (194)
36 KOG3999|consensus 22.3 98 0.0021 28.1 3.3 35 136-170 156-192 (284)
37 PF03279 Lip_A_acyltrans: Bact 21.8 73 0.0016 28.3 2.5 22 35-56 179-200 (295)
38 COG1623 Predicted nucleic-acid 21.5 3.6E+02 0.0079 25.0 6.8 89 67-164 25-127 (349)
39 COG4506 Uncharacterized protei 21.4 83 0.0018 25.7 2.4 23 199-222 52-74 (143)
40 PRK10148 hypothetical protein; 20.8 1.6E+02 0.0034 23.8 4.0 28 28-55 90-117 (147)
41 TIGR00091 tRNA (guanine-N(7)-) 20.7 1.1E+02 0.0023 25.6 3.1 24 34-57 112-135 (194)
No 1
>COG0009 SUA5 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.5e-57 Score=391.19 Aligned_cols=193 Identities=37% Similarity=0.604 Sum_probs=179.3
Q ss_pred HHHHHHHHHHHHcCCeEEEecCcEEEEeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCccccccccCchHHHHHHhhC
Q psy198 34 PKAALLAAQCLKKGCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWADTHTVSFELLAELL 113 (245)
Q Consensus 34 ~~~i~~a~~~L~~GgvVi~PTdTvYgL~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~~~~~~~~~~~~l~~~~w 113 (245)
+..+++|++.|++|++|+|||||+|||||++.|++||+|||++|||+.+|||+++++|+++++.|+.+++...+++++||
T Consensus 13 ~~~~~~a~~~l~~G~vVa~PTeTVYGLg~~~~~~~Av~~i~~~K~Rp~~kpLil~~~~~~~l~~~~~~~~~~~~l~~~fw 92 (211)
T COG0009 13 PRAIEKAVEALRKGGVVAYPTDTVYGLGADATNEEAVERLYEIKQRPSDKPLILHVASLEQLKEYADVPDVARKLLKAFW 92 (211)
T ss_pred hHHHHHHHHHHHcCCEEEEEccchheeecCCCCHHHHHHHHHHhCCCCCCCEEEEeCCHHHHHHHhcCCHHHHHHHHHhC
Confidence 56899999999999999999999999999999999999999999999999999999999999999998888999999999
Q ss_pred CCCEEEEecCCCcccc-ccCCCCCeEEEEecCcHHHHHHHHHcCCCeeeccCCCCCCCCCCCHHHHHhhc-CCccEEEeC
Q psy198 114 PGPVTIVFNRSEHLNL-ELNPNVTKVAVRIPDHKFLRQLLKLMDSPLALTSANESNEPSTLCINEFQKLW-SQLSVVIDG 191 (245)
Q Consensus 114 PGplTlIl~~~~~lp~-~l~~~~~tvgvRip~~~~~~~Li~~~g~PL~sTSAN~SG~~~~~~~e~~~~~~-~~vd~ivd~ 191 (245)
|||+|||+|+++..|. ..+.+.+|||||||+||++++||+++|.||++||||+||++++++.+++.+.| +++|+|+|+
T Consensus 93 PGPlT~Il~~~~~~~~~~~~~~~~TiavRvP~hpi~~~Li~~~G~Pl~stSANlsG~ps~tt~~ev~~~~~~~v~~iidg 172 (211)
T COG0009 93 PGPLTFILPATKEVPRRLVTAGLSTIAVRVPDHPIALALIEALGEPLASTSANLSGQPSPTTAEEVRADFGGQVDLIIDG 172 (211)
T ss_pred CCCeEEEEeCCCCCChhhhcCCCCeEEEECCCCHHHHHHHHHhCCceEEcCcCcCCCCCCCCHHHHHHHhcccCeEEEeC
Confidence 9999999999888885 44667789999999999999999999999999999999999999999987655 689999999
Q ss_pred CCCCCCCCCCCeEEEEEeCCceEEEecCCChHHHHHHH
Q psy198 192 GIISNPERFGSTIVDLSEENVYSIVRKGVCYDKILKIL 229 (245)
Q Consensus 192 g~~~~~~~~~STIVd~~~~~~~~ilR~G~~~~~~~~~l 229 (245)
|.+.. +.+|||||++ +++++++|+|++..+.++.+
T Consensus 173 g~~~~--g~pSTIiDlt-~~~~~ilR~G~i~~~~i~~~ 207 (211)
T COG0009 173 GPCRG--GLPSTIIDLT-DDPPRILRPGAISLEEIEKL 207 (211)
T ss_pred CccCC--CCCceEEECC-CCCcEEEeCCCCCHHHHHHH
Confidence 99874 9999999999 78899999999877666554
No 2
>TIGR00057 Sua5/YciO/YrdC/YwlC family protein. partial match to sua5, which is involved in regulation of translation initiation. 3' end of sua5 has matches to sua5, BS3690, and weakly to AF0781 and BB0734.
Probab=100.00 E-value=1.6e-56 Score=384.84 Aligned_cols=195 Identities=31% Similarity=0.515 Sum_probs=180.5
Q ss_pred cCCCHHHHHHHHHHHHcCCeEEEecCcEEEEeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCccccccccCchHHHHH
Q psy198 30 KVTDPKAALLAAQCLKKGCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWADTHTVSFELL 109 (245)
Q Consensus 30 ~~~~~~~i~~a~~~L~~GgvVi~PTdTvYgL~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~~~~~~~~~~~~l~ 109 (245)
++++.+.+++|+++|++||+|++||||+|||+|+++|++|++|||++|+|+.+|||++|++|++++.+|+.+++...+++
T Consensus 4 ~~~~~~~i~~a~~~L~~G~ii~~PTdTvYgL~~~~~~~~av~ri~~iK~R~~~Kpl~~l~~~~~~l~~~~~~~~~~~~l~ 83 (201)
T TIGR00057 4 ENPSQRGIEQAVKILRKGGIVVYPTDTVYGIGADALDEDAVRRLYRIKGRPSNKPLTVLVSDLSEIEKYAYVPDDAKRLM 83 (201)
T ss_pred CCCCHHHHHHHHHHHHCCCEEEEeCCCHHHhhcCCCCHHHHHHHHHHhCCCCCCCeEEEECCHHHHHHHhcCCHHHHHHH
Confidence 44567789999999999999999999999999999999999999999999999999999999999999998877788999
Q ss_pred HhhCCCCEEEEecCCCccccccCCCCCeEEEEecCcHHHHHHHHHcCCCeeeccCCCCCCCCCCCHHHHHhhc-CCccEE
Q psy198 110 AELLPGPVTIVFNRSEHLNLELNPNVTKVAVRIPDHKFLRQLLKLMDSPLALTSANESNEPSTLCINEFQKLW-SQLSVV 188 (245)
Q Consensus 110 ~~~wPGplTlIl~~~~~lp~~l~~~~~tvgvRip~~~~~~~Li~~~g~PL~sTSAN~SG~~~~~~~e~~~~~~-~~vd~i 188 (245)
++|||||+|+|+++++.+|+.++++.+|||||+|+|+++++|++.+|.||++||||+||++++++.+++.+.+ +.+|+|
T Consensus 84 ~~~~Pgp~T~Il~~~~~~~~~l~~~~~tigiRvP~~~~~~~L~~~~g~PL~~TSAN~sG~~~~~~~~~i~~~~~~~vd~i 163 (201)
T TIGR00057 84 KKFWPGPLTLVLKKTPEIPRRVSGKRKTIGIRVPDNPIALELLEELGKPIVATSANLSGKPSATDVEEAVDELGKLVDLI 163 (201)
T ss_pred HhcCCCCeEEEEECCCCCCHhHcCCCCeEEEECCCCHHHHHHHHHhCCCEEECCCCCCCCCCCCCHHHHHHHhCCCccEE
Confidence 9999999999999999999999888899999999999999999999999999999999999999999987555 689999
Q ss_pred EeCCCCCCCCCCCCeEEEEEeCCceEEEecCCChHHHHH
Q psy198 189 IDGGIISNPERFGSTIVDLSEENVYSIVRKGVCYDKILK 227 (245)
Q Consensus 189 vd~g~~~~~~~~~STIVd~~~~~~~~ilR~G~~~~~~~~ 227 (245)
+|+|++. .+.+|||||++ ++.++|+|+|++++++.+
T Consensus 164 ld~g~~~--~~~~STVid~~-~~~~~ilR~G~~~~~i~~ 199 (201)
T TIGR00057 164 IDAGPCL--GGEPSTIIDLT-DDTPKVLREGVGSEPIEK 199 (201)
T ss_pred EcCCCCC--CCCCCcEEEcc-CCceEEEecCCCHHHHHH
Confidence 9999766 38999999998 788999999999854443
No 3
>PRK11630 hypothetical protein; Provisional
Probab=100.00 E-value=3e-56 Score=384.54 Aligned_cols=191 Identities=21% Similarity=0.386 Sum_probs=175.2
Q ss_pred cCCCHHHHHHHHHHHHcCCeEEEecCcEEEEeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCccccccccCchHHHHH
Q psy198 30 KVTDPKAALLAAQCLKKGCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWADTHTVSFELL 109 (245)
Q Consensus 30 ~~~~~~~i~~a~~~L~~GgvVi~PTdTvYgL~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~~~~~~~~~~~~l~ 109 (245)
++++.+.+++|+++|++||+|+|||||+|||+|+++|++||+|||++|+|+.+|||+++++|++++.+|+.+++..++++
T Consensus 10 ~~~~~~~i~~a~~~L~~G~vi~~PTdTvYgL~~d~~n~~Av~~l~~lK~R~~~Kpl~ll~~~~~~~~~~~~~~~~~~~l~ 89 (206)
T PRK11630 10 DNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQLPDGHNFTLMCRDLSELSTYSFVDNVAFRLM 89 (206)
T ss_pred CCCCHHHHHHHHHHHHCCCEEEEeCCChHhhhcCCCCHHHHHHHHHHcCCCCCCCeEEEECCHHHHHHHhcCCHHHHHHH
Confidence 34566679999999999999999999999999999999999999999999999999999999999999998877788999
Q ss_pred HhhCCCCEEEEecCCCcccc-ccCCCCCeEEEEecCcHHHHHHHHHcCCCeeeccCCCCCCCC-CCCHHHHHh-hcCCcc
Q psy198 110 AELLPGPVTIVFNRSEHLNL-ELNPNVTKVAVRIPDHKFLRQLLKLMDSPLALTSANESNEPS-TLCINEFQK-LWSQLS 186 (245)
Q Consensus 110 ~~~wPGplTlIl~~~~~lp~-~l~~~~~tvgvRip~~~~~~~Li~~~g~PL~sTSAN~SG~~~-~~~~e~~~~-~~~~vd 186 (245)
++|||||+|+|+++++.+|+ +++++.+|||||+|+|+++++|++.+|.||++||||+||+++ ..+.+++.+ +.+.+|
T Consensus 90 ~~~wPGplT~Il~a~~~~p~~~~~~~~~tigiRip~~~~~~~L~~~~g~PL~~TSAN~sG~~~~~~~~~~i~~~~~~~vd 169 (206)
T PRK11630 90 KNNTPGNYTFILKGTKEVPRRLLQEKRKTIGLRVPSNPIALALLEALGEPMLSTSLMLPGSDFTESDPEEIKDRLEKQVD 169 (206)
T ss_pred HhcCCCCeEEEEECCCCCCHHHcCCCCCeEEEECCCCHHHHHHHHHhCCcEEECCcCcCCCCCCCCCHHHHHHHhcCCce
Confidence 99999999999999999996 667778999999999999999999999999999999999876 588999865 446899
Q ss_pred EEEeCCCCCCCCCCCCeEEEEEeCCceEEEecCCChHH
Q psy198 187 VVIDGGIISNPERFGSTIVDLSEENVYSIVRKGVCYDK 224 (245)
Q Consensus 187 ~ivd~g~~~~~~~~~STIVd~~~~~~~~ilR~G~~~~~ 224 (245)
+|+|+|.+. +.||||||++ +++++|||+|++..+
T Consensus 170 ~ildg~~~~---~~pSTIvd~~-~~~~~ilR~G~~~~~ 203 (206)
T PRK11630 170 LIIHGGYLG---QQPTTVIDLT-DDTPVVVREGVGDVK 203 (206)
T ss_pred EEEeCCCCC---CCCCEEEEcc-CCceEEEecCCCchh
Confidence 999988764 6999999998 788999999998654
No 4
>PRK10634 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional
Probab=100.00 E-value=1.9e-54 Score=369.01 Aligned_cols=182 Identities=27% Similarity=0.406 Sum_probs=168.1
Q ss_pred CCHHHHHHHHHHHHcCCeEEEecCcEEEEeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCccccccc---cCchHHHH
Q psy198 32 TDPKAALLAAQCLKKGCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWAD---THTVSFEL 108 (245)
Q Consensus 32 ~~~~~i~~a~~~L~~GgvVi~PTdTvYgL~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~~~~~---~~~~~~~l 108 (245)
++.+.+++|+++|++||+|+|||||+|||+|++.|++||+|||++|+|+.+|||+++++|++++.+|+. +++...++
T Consensus 5 ~~~~~i~~a~~~L~~G~vv~~PTdTvYgL~~~~~n~~Av~ri~~iK~R~~~Kpl~ll~~~~~~l~~~~~~~~~~~~~~~l 84 (190)
T PRK10634 5 LQGDAIAAAVDVLNEERVIAYPTEAVFGVGCDPDSETAVMRLLELKQRPVDKGLILIAANYEQLKPYIDDSMLTDAQRET 84 (190)
T ss_pred ccHHHHHHHHHHHHCCCEEEEeCCchhhhhcCCCCHHHHHHHHHHhCCCCCCCcEEEECCHHHHHHHHHhcCCCHHHHHH
Confidence 467789999999999999999999999999999999999999999999999999999999999999986 45666789
Q ss_pred HHhhCCCCEEEEecCCCccccccCCCCCeEEEEecCcHHHHHHHHHcCCCeeeccCCCCCCCCCCCHHHHHhhc-CCccE
Q psy198 109 LAELLPGPVTIVFNRSEHLNLELNPNVTKVAVRIPDHKFLRQLLKLMDSPLALTSANESNEPSTLCINEFQKLW-SQLSV 187 (245)
Q Consensus 109 ~~~~wPGplTlIl~~~~~lp~~l~~~~~tvgvRip~~~~~~~Li~~~g~PL~sTSAN~SG~~~~~~~e~~~~~~-~~vd~ 187 (245)
+++|||||+|+|+++++.+|++++++.+|||||+|+|+++++|++.+|.||++||||+||++++++.+++.+.| +.+|
T Consensus 85 ~~~~wPGPlTlil~~~~~~p~~l~~~~~tigvRiP~~~~~~~ll~~~g~Pl~~TSAN~sG~~~~~~~~~i~~~~~~~v~- 163 (190)
T PRK10634 85 IFSCWPGPVTFVFPAPATTPRWLTGRFDSLAVRVTDHPLVVALCQAYGKPLVSTSANLSGLPPCRTVEEVRAQFGAAFP- 163 (190)
T ss_pred HHHhCCCCEEEEEECCCCCCHHHcCCCCeEEEECCCCHHHHHHHHHhCCcEEECCcccCCCCCCCCHHHHHHHhCCCcE-
Confidence 99999999999999999999999888999999999999999999999999999999999999999999987655 6788
Q ss_pred EEeCCCCCCCCCCCCeEEEEEeCCceEEEecC
Q psy198 188 VIDGGIISNPERFGSTIVDLSEENVYSIVRKG 219 (245)
Q Consensus 188 ivd~g~~~~~~~~~STIVd~~~~~~~~ilR~G 219 (245)
++|+|.... +.||||||++ ++ +|||+|
T Consensus 164 i~dg~~~~~--~~pSTIvd~~-~~--~ilR~G 190 (190)
T PRK10634 164 VVPGETGGR--LNPSEIRDAL-TG--ELFRQG 190 (190)
T ss_pred EEcCCCCCC--CCCCeEEECC-CC--eEEeCC
Confidence 578776653 7999999998 44 899998
No 5
>PF01300 Sua5_yciO_yrdC: Telomere recombination; InterPro: IPR006070 The YrdC family of hypothetical proteins are widely distributed in eukaryotes and prokaryotes and occur as: (i) independent proteins, (ii) with C-terminal extensions, and (iii) as domains in larger proteins, some of which are implicated in regulation []. The YrdC protein, which consists solely of this domain, forms an alpha/beta twisted open-sheet structure composed of seven alpha helices and seven beta strands []. YrdC from Escherichia coli preferentially binds to double-stranded RNA and DNA. YrdC is predicted to be an rRNA maturation factor, as deletions in its gene lead to immature ribosomal 30S subunits and, consequently, fewer translating ribosomes []. Therefore, YrdC may function by keeping an rRNA structure needed for proper processing of 16S rRNA, especially at lower temperatures. Sua5 is an example of a multi-domain protein that contains an N-terminal YrdC-like domain and a C-terminal Sua5 domain. Sua5 was identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a translation initiation defect in the cytochrome c gene and is required for normal growth in yeast; however its exact function remains unknown []. HypF is involved in the synthesis of the active site of [NiFe]-hydrogenases [].; PDB: 3L7V_A 1KK9_A 1K7J_A 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A 2EQA_A ....
Probab=100.00 E-value=1.6e-53 Score=359.75 Aligned_cols=175 Identities=40% Similarity=0.648 Sum_probs=154.3
Q ss_pred HHHHcCCeEEEecCcEEEEeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCccccccc--cCchHHHHHHhhCCCCEEE
Q psy198 42 QCLKKGCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWAD--THTVSFELLAELLPGPVTI 119 (245)
Q Consensus 42 ~~L~~GgvVi~PTdTvYgL~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~~~~~--~~~~~~~l~~~~wPGplTl 119 (245)
|+|++||+|++||||+|||+|+++|++|++|||++|+|+.+|||+++++|++|+++|+. +++...+++++|||||+|+
T Consensus 1 e~Lk~G~vvi~PTdT~ygl~~~~~n~~av~ri~~iK~R~~~Kpl~ll~~~~~~l~~~~~~~~~~~~~~l~~~~wPgp~t~ 80 (179)
T PF01300_consen 1 EILKAGGVVIYPTDTVYGLGCDAFNPEAVERIYKIKQRPKNKPLILLVSSIEQLEEYVDSPVSPKARRLLEKFWPGPLTL 80 (179)
T ss_dssp -HHHTT-EEEEEESSSEEEEEETTSHHHHHHHHHHHTSSTTS--EEEESSHHHHHHHEETT--HHHHHHHHHCHSSSEEE
T ss_pred CccccCCEEEEECCCEEEEEEecCCHHHHHHHHHhhcccCCCCEEEEECCHHHHHHHhhccccHHHHHHHHhccccCeeE
Confidence 57999999999999999999999999999999999999999999999999999999997 6667788999999999999
Q ss_pred EecCCCc-cccccCCCCCeEEEEecCcHHHHHHHHHcCCCeeeccCCCCCCCCCCCHHHHHh-hcCCccEEEeCCCCCCC
Q psy198 120 VFNRSEH-LNLELNPNVTKVAVRIPDHKFLRQLLKLMDSPLALTSANESNEPSTLCINEFQK-LWSQLSVVIDGGIISNP 197 (245)
Q Consensus 120 Il~~~~~-lp~~l~~~~~tvgvRip~~~~~~~Li~~~g~PL~sTSAN~SG~~~~~~~e~~~~-~~~~vd~ivd~g~~~~~ 197 (245)
|+++++. +|+.++++.+|||||+|+++++++|++.+|+||++||||+||+++..+.+++.+ +.+.+|+|+|+|...
T Consensus 81 I~~~~~~~l~~~~~~~~~ti~vRip~~~~~~~l~~~~g~Pl~~TSAN~sg~~~~~~~~~i~~~~~~~vd~iv~~~~~~-- 158 (179)
T PF01300_consen 81 ILPAKKENLPKYLTSKRGTIGVRIPDHPILRELLEALGGPLISTSANLSGEPPATDFEEIIERFGDKVDLIVDGGEIP-- 158 (179)
T ss_dssp EEEEGTTCSHHHHHTTTSEEEEECHCSHHHHHHHHHHTS-EEEEESSSTTSSCTTSHHHHHHHHTTTSSEEEECCHHS--
T ss_pred eeccccccCChhhcCCCCeEEEEecChHHHHHHHHhcCCceEecccccccCCCCCCHHHHHHHhccCceEEEECCCCC--
Confidence 9998554 999998899999999999999999999999999999999999999999999865 447999999999665
Q ss_pred CCCCCeEEEEEeCCceEEEecC
Q psy198 198 ERFGSTIVDLSEENVYSIVRKG 219 (245)
Q Consensus 198 ~~~~STIVd~~~~~~~~ilR~G 219 (245)
++.+|||||++ +++++|||+|
T Consensus 159 ~~~~STIvd~~-~~~~~ilR~G 179 (179)
T PF01300_consen 159 SGQPSTIVDLT-NGKPKILREG 179 (179)
T ss_dssp SSS--EEEETT-SSSSEEEE--
T ss_pred CCCCCeEEEee-CCceEEEeeC
Confidence 48999999999 8899999998
No 6
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=100.00 E-value=1.1e-39 Score=323.91 Aligned_cols=205 Identities=25% Similarity=0.334 Sum_probs=175.4
Q ss_pred CHHHHHHHHHHHHcCCeEEEecCcEEEEeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCccccccccCchHHHHHHhh
Q psy198 33 DPKAALLAAQCLKKGCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWADTHTVSFELLAEL 112 (245)
Q Consensus 33 ~~~~i~~a~~~L~~GgvVi~PTdTvYgL~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~~~~~~~~~~~~l~~~~ 112 (245)
..+.+++|+++|++||+|++||||+|||+|+++|++||+|||++|+|+ +|||++|++|++++++|+.+++...+++. .
T Consensus 161 ~~~~i~~aa~~L~~G~IVaipt~ggy~L~cda~n~~AV~rLr~~K~Rp-~KPlavmv~d~~~~~~~~~~~~~e~~lL~-~ 238 (711)
T TIGR00143 161 QDDALLEAAKLLKKGKIIAIKGIGGFHLACDARNDEVVERLRLRKNRP-LKPFAVMSPDLESAEQHAELNNLECELLT-S 238 (711)
T ss_pred chHHHHHHHHHHhCCCEEEEEcCCcceeecCCCCHHHHHHHHHHhCCC-CCCEEEEECCHHHHHHHhcCCHHHHHHHH-c
Confidence 357899999999999999999999999999999999999999999997 79999999999999999998776667774 5
Q ss_pred CCCCEEEEecCCC--ccccccCCCCCeEEEEecCcHHHHHHHHHcCCCeeeccCCCCCCCCCCCHHHHH-hhcCCccEEE
Q psy198 113 LPGPVTIVFNRSE--HLNLELNPNVTKVAVRIPDHKFLRQLLKLMDSPLALTSANESNEPSTLCINEFQ-KLWSQLSVVI 189 (245)
Q Consensus 113 wPGplTlIl~~~~--~lp~~l~~~~~tvgvRip~~~~~~~Li~~~g~PL~sTSAN~SG~~~~~~~e~~~-~~~~~vd~iv 189 (245)
||+|+++ +++++ .+++.++++.+|||||+|+||+++.|++.+|.||++||||+||+|+.++.+++. ++.+.+|+++
T Consensus 239 ~~~Pivl-l~~~~~~~l~~~v~~~~~tiGvrlP~~pl~~~Ll~~~g~PLv~TSAN~SGep~~~~~~e~~~~l~~~~D~~L 317 (711)
T TIGR00143 239 PAAPIVL-LRKKPDIKLAPNIAPNLPTIGVMLPYTPLHHLLLQLLAFPLVMTSANLPGLPMAIDNAEILDKLQGIADGFL 317 (711)
T ss_pred CCCCEEE-EECCCCCCCChhhcCCCCEEEEEcCCCHHHHHHHHHcCCcEEECccCCCCCCCCCCHHHHHHHhcCCccEEE
Confidence 8999875 77765 578888888999999999999999999999999999999999999999999975 5567999988
Q ss_pred eCCCCCCCCCCCCeEEEEEeCCceEEEecCCChH--HHHH-------HHHhCCccccCCcCC
Q psy198 190 DGGIISNPERFGSTIVDLSEENVYSIVRKGVCYD--KILK-------ILHKYHLVEKNTFPI 242 (245)
Q Consensus 190 d~g~~~~~~~~~STIVd~~~~~~~~ilR~G~~~~--~~~~-------~l~~~~~~~~~~~~~ 242 (245)
++++.. ..+.+||||+++ ++++++||+|..+- .+.- .+=+.|-+++|+|.+
T Consensus 318 ~~~r~i-~~~~dsSVV~~~-~~~~~ilR~~RG~aP~~~~l~~~~~~~~vla~G~~lknt~~l 377 (711)
T TIGR00143 318 VHNRRI-VNRVDDSVVQHV-AGEILFLRRSRGFAPQPLTLPPNGNPKKILALGAELKNTFSL 377 (711)
T ss_pred eCCCCc-CCCCCCceEEEE-CCeeEEEeccCCCCCcccccCCcCCCCcEEEechhhcceEEE
Confidence 877644 258999999998 88999999987542 2211 122567777777753
No 7
>KOG3051|consensus
Probab=99.97 E-value=3.1e-31 Score=229.70 Aligned_cols=182 Identities=36% Similarity=0.555 Sum_probs=161.4
Q ss_pred HHHHHH-HHHcCCeEEEecCcEEEEeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCcccccccc--CchHHHHHHhhC
Q psy198 37 ALLAAQ-CLKKGCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWADT--HTVSFELLAELL 113 (245)
Q Consensus 37 i~~a~~-~L~~GgvVi~PTdTvYgL~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~~~~~~--~~~~~~l~~~~w 113 (245)
...|+. +-+.++.+++||||+||+++++.++.|+.+||+.|.|+..+|+++.+++..+++..... +.....|++.+|
T Consensus 18 ~~~aa~~~r~~~~~va~pT~t~yg~g~~~~~~~av~~v~~~K~rP~~~pL~~~~~s~~~~~~v~~~~i~~~~~~L~~~l~ 97 (261)
T KOG3051|consen 18 LYDAALIVRRTDKRVAFPTETVYGLGASAYNEVAVLRLYKLKNRPADNPLIVHVSSVDQLKRVVAINIPSLYLPLASYLW 97 (261)
T ss_pred hhhhhhheeccCCceecCchhhhhhhhhhhccccchhhhhhhcCccccchhhccccHHHHHHHHhhcchhhhhHHHhhcC
Confidence 334444 45589999999999999999999999999999999999999999999999999886543 455567899999
Q ss_pred CCCEEEEecCCC-ccccccCCCCCeEEEEecCcHHHHHHHHHcCCCeeeccCCCCCCCCC-CCHHHHHhhcCCccEEEeC
Q psy198 114 PGPVTIVFNRSE-HLNLELNPNVTKVAVRIPDHKFLRQLLKLMDSPLALTSANESNEPST-LCINEFQKLWSQLSVVIDG 191 (245)
Q Consensus 114 PGplTlIl~~~~-~lp~~l~~~~~tvgvRip~~~~~~~Li~~~g~PL~sTSAN~SG~~~~-~~~e~~~~~~~~vd~ivd~ 191 (245)
|||+|++++... -+++.++.+..++|+|+|+|+++++||..++.|++.||||.|++++. ...++++.+++++++|+|+
T Consensus 98 PGPltlll~~~~~~l~~~~~~~~~svAvRiP~~~~a~~li~~~~~Pla~tSAN~Ssr~s~tlai~~~~Dl~~~i~lilDg 177 (261)
T KOG3051|consen 98 PGPLTLLLERADECLSKLTNPGLPSVAVRIPDHPVASALIPKLGVPLALTSANASSRPSPTLAIHVFADLQPKIPLILDG 177 (261)
T ss_pred CCceEEEeecchhhccccccCCCcceeEEccCCHHHHHHHHHhCCCccccccccccCCCCcchhhhhhhhccchhheecC
Confidence 999999999988 48888888899999999999999999999999999999999999974 5677788888999999999
Q ss_pred CCCCCCCCCCCeEEEEEeCCceEEEecCCC
Q psy198 192 GIISNPERFGSTIVDLSEENVYSIVRKGVC 221 (245)
Q Consensus 192 g~~~~~~~~~STIVd~~~~~~~~ilR~G~~ 221 (245)
|.|.. ++.||+++.. .|...++|+|.+
T Consensus 178 G~c~~--g~~~~~~~g~-~~p~~i~~pgG~ 204 (261)
T KOG3051|consen 178 GACGS--GVESTVVEGS-TDPVDILRPGGI 204 (261)
T ss_pred ccccc--CcCceeeccc-cCcceeeccCCc
Confidence 99984 9999999998 777889998863
No 8
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=99.92 E-value=9.9e-25 Score=211.91 Aligned_cols=203 Identities=26% Similarity=0.334 Sum_probs=170.7
Q ss_pred HHHHHHHHHHHcCCeEEEecCcEEEEeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCccccccccCchHHHHHHhhCC
Q psy198 35 KAALLAAQCLKKGCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWADTHTVSFELLAELLP 114 (245)
Q Consensus 35 ~~i~~a~~~L~~GgvVi~PTdTvYgL~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~~~~~~~~~~~~l~~~~wP 114 (245)
+++.+|++.|+.|++|++..-.+|+|+|+++|++||++|++.|+|| .|||++|+.|++++++||.+++..++++..- -
T Consensus 198 ~ai~~a~klL~~G~IvAIKGiGGFhLaCda~~~eaV~~LR~rk~Rp-~KPFAvM~kdl~~i~~~a~~~~~E~~lL~S~-~ 275 (750)
T COG0068 198 EAIRKAAKLLKVGKIVAIKGIGGFHLACDARNEEAVAKLRKRKNRP-LKPFAVMAKDLETIEEFAEVNDEEEELLTSP-S 275 (750)
T ss_pred HHHHHHHHHHhhCCEEEEeecCceeeeecCCchHHHHHHHHhcCCC-CCCceeeeccHHHHHHhhccCHHHHHHhcCc-c
Confidence 3889999999999999999999999999999999999999999997 9999999999999999999988777776632 3
Q ss_pred CCEEEEecCCCc--cccccCCCCCeEEEEecCcHHHHHHHH-HcCCCeeeccCCCCCCCCCCCHHHH-HhhcCCccEEEe
Q psy198 115 GPVTIVFNRSEH--LNLELNPNVTKVAVRIPDHKFLRQLLK-LMDSPLALTSANESNEPSTLCINEF-QKLWSQLSVVID 190 (245)
Q Consensus 115 GplTlIl~~~~~--lp~~l~~~~~tvgvRip~~~~~~~Li~-~~g~PL~sTSAN~SG~~~~~~~e~~-~~~~~~vd~ivd 190 (245)
.|++++ ++++. ++..+.++.++|||++|.+|++.-|++ ....|++.||||+||+|...+.+++ .++.+-.|+++.
T Consensus 276 rPIVll-~Kk~~~~~~~~iAP~l~~iGVMLPYtpLhhLLl~~~~~~~~VmTSaNl~g~Pm~~dN~eal~kL~~IADyfL~ 354 (750)
T COG0068 276 RPIVLL-KKKKVFLLESNIAPGLHTIGVMLPYTPLHHLLLQESLDIPYVMTSANLPGEPMAIDNEEALEKLKGIADYFLL 354 (750)
T ss_pred CceEEe-ccccccccccccCCCCCCcceeecCCchhhhhhhhccCceEEEecCCCCCCCcccCCHHHHHHhhhhhheeee
Confidence 578765 54443 456688889999999999999999998 7788999999999999988877774 567778999998
Q ss_pred CCCCCCCCCCCCeEEEEEeCCceEEEecC--CChHHHHHH------HHhCCccccCCcCC
Q psy198 191 GGIISNPERFGSTIVDLSEENVYSIVRKG--VCYDKILKI------LHKYHLVEKNTFPI 242 (245)
Q Consensus 191 ~g~~~~~~~~~STIVd~~~~~~~~ilR~G--~~~~~~~~~------l~~~~~~~~~~~~~ 242 (245)
+.+.. .+....+||++. +|...+||+- ..++.+.-. +=..|-++.|+|.+
T Consensus 355 HNR~I-~~r~DDSVVrvV-~g~~~~iRrSRGy~P~pi~lp~~~~~~ila~GaelknTf~l 412 (750)
T COG0068 355 HNREI-VNRCDDSVVRVV-AGRIAFIRRSRGYAPKPIELPFNNVKKILALGAELKNTFCL 412 (750)
T ss_pred ccccc-ccccCCcceeEe-CCceeeeehhcCCCCcceecCCCCccceeeecccccceEEE
Confidence 87655 368999999998 8999999985 455544432 23667788888864
No 9
>COG2192 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=4.7e-05 Score=73.85 Aligned_cols=146 Identities=21% Similarity=0.241 Sum_probs=107.7
Q ss_pred HHHHHHHHHHcCCeEE-EecCcEEE--------EeccCCChHHHHHHHHHhC-CCCCCCcEEEeCCcCccccccccCchH
Q psy198 36 AALLAAQCLKKGCVVA-LPTDTLYG--------LACDATNSKAINILYEIKK-RDVNKPLAICVSEITDIPKWADTHTVS 105 (245)
Q Consensus 36 ~i~~a~~~L~~GgvVi-~PTdTvYg--------L~a~a~n~~Av~rI~~iK~-R~~~Kpl~ll~~s~~~l~~~~~~~~~~ 105 (245)
-.+.+++.|.+|++|. +...--|| |.++|.++...+||+...+ |+.-+||+-.+-+ |.+.+|.
T Consensus 379 l~~~va~~LadgkvVgwfqGRmEfGPRALGnRSILadPr~~~~kd~iN~~vK~Re~FrPFAPsiL~-E~~~~~f------ 451 (555)
T COG2192 379 LPDRVAELLADGKVVGWFQGRMEFGPRALGNRSILADPRDPGMKDKINLKVKFREGFRPFAPSILE-EDVERYF------ 451 (555)
T ss_pred HHHHHHHHHhCCCeEEEEeeccccCccccCCceeecCCCChHHHHHHHHHhcccCccCCcCcchhh-hhhhHHh------
Confidence 5789999999999998 89999998 8899999999999996555 9999999877643 4555553
Q ss_pred HHHHHhhCCCC-EEEEecCCCc----ccccc--CCCCCeEEEEecCcHHHHHHHHHc----CCC-eeeccCCCCCCCCCC
Q psy198 106 FELLAELLPGP-VTIVFNRSEH----LNLEL--NPNVTKVAVRIPDHKFLRQLLKLM----DSP-LALTSANESNEPSTL 173 (245)
Q Consensus 106 ~~l~~~~wPGp-lTlIl~~~~~----lp~~l--~~~~~tvgvRip~~~~~~~Li~~~----g~P-L~sTSAN~SG~~~~~ 173 (245)
+.--|.| .|++++.++. +|..+ .+....--|+=-.+|....||+++ |.| ++.||-|..|+|-.-
T Consensus 452 ----e~~~~sPyM~~~~~~~~~~r~~lpaV~HvDgTaR~QtV~r~~nP~y~~ll~aF~~~TG~gvllNTSFN~~GEPIVc 527 (555)
T COG2192 452 ----ELPSPSPYMTLVFRVREEFRERLPAVTHVDGTARPQTVRRDANPRYYGLLRAFKERTGVGVLLNTSFNVHGEPIVC 527 (555)
T ss_pred ----hCCCCCCceeeeehhhHHHHhhCCceEeecCCccceeeccccChhHHHHHHHHHHhcCCcEEEecccccCCCceec
Confidence 3224566 6677776543 55533 222233445666778888988864 667 669999999999888
Q ss_pred CHHHHHhhc--CCccEEEeCC
Q psy198 174 CINEFQKLW--SQLSVVIDGG 192 (245)
Q Consensus 174 ~~e~~~~~~--~~vd~ivd~g 192 (245)
+++++...| ..+|..+-++
T Consensus 528 sp~DA~~~f~~t~~d~Lvi~~ 548 (555)
T COG2192 528 SPADAIRTFLSTGLDALVLED 548 (555)
T ss_pred CHHHHHHHHHhCCCcEEEEcC
Confidence 888875544 4788776544
No 10
>PF02543 CmcH_NodU: Carbamoyltransferase; InterPro: IPR003696 The putative O-carbamoyltransferases (O-Cases) encoded by the nodU genes of Rhizobium fredii and Bradyrhizobium japonicum are involved in the synthesis of nodulation factors []. The cmcH genes of Nocardia lactamdurans and Streptomyces clavuligerus encode a functional 3'-hydroxymethylcephem O-carbamoyltransferase 2.1.3.7 from EC for cephamycin biosynthesis that shows significant similarity to the O-carbamoyltransferases [].; GO: 0003824 catalytic activity, 0009058 biosynthetic process; PDB: 3VES_A 3VER_A 3VEN_A 3VF2_A 3VEX_A 3VEW_A 3VET_A 3VEO_A 3VEZ_A 3VF4_A.
Probab=92.55 E-value=0.1 Score=48.89 Aligned_cols=65 Identities=20% Similarity=0.256 Sum_probs=47.6
Q ss_pred HHHHHHHHHHcCCeEE-EecCcEEE--------EeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCcccccccc
Q psy198 36 AALLAAQCLKKGCVVA-LPTDTLYG--------LACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWADT 101 (245)
Q Consensus 36 ~i~~a~~~L~~GgvVi-~PTdTvYg--------L~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~~~~~~ 101 (245)
..++++++|.+|+||. +..-.-|| |.|+|.+++..++|.+.|||+...||+-.+- .|.+.+|.+.
T Consensus 253 ~~~~~A~lLa~gkiVgwfqGr~EfGPRALGnRSILAdP~~~~~~d~iN~~iKRE~fRPfAPsvl-~E~a~~~f~~ 326 (360)
T PF02543_consen 253 LAEQVAELLADGKIVGWFQGRMEFGPRALGNRSILADPRSPDMKDRINRRIKREWFRPFAPSVL-EEDAEEYFEL 326 (360)
T ss_dssp HHHHHHHHHHTT--EEEE-SS-B-SSS--SSEEEEEESS-SSHHHHHHHTTS--TT---EEEEE-HHHHHHHBSS
T ss_pred HHHHHHHHHHcCCEEEEEecCccccCccccccccccCCCChHHHHHHhhhcCccccCCcCcchh-HHHHHHhccC
Confidence 7789999999999998 88888888 8999999999999999999999999998885 4777888654
No 11
>cd07985 LPLAT_GPAT Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT. Lysophospholipid acyltransferase (LPLAT) superfamily member: glycerol-3-phosphate 1-acyltransferase (GPAT, PlsB). LPLATs are acyltransferases of de novo and remodeling pathways of glycerophospholipid biosynthesis which catalyze the incorporation of an acyl group from either acylCoAs or acyl-acyl carrier proteins (acylACPs) into acceptors such as glycerol 3-phosphate, dihydroxyacetone phosphate or lyso-phosphatidic acid. This subgroup includes glycerol-3-phosphate 1-acyltransferase (GPAT, PlsB).
Probab=74.04 E-value=8.3 Score=34.20 Aligned_cols=51 Identities=12% Similarity=0.080 Sum_probs=37.7
Q ss_pred CCHHHHHHHHHHHHcCCe--EEEecCcEEE------EeccCCChHHHHHHHHHhCCCCC
Q psy198 32 TDPKAALLAAQCLKKGCV--VALPTDTLYG------LACDATNSKAINILYEIKKRDVN 82 (245)
Q Consensus 32 ~~~~~i~~a~~~L~~Ggv--Vi~PTdTvYg------L~a~a~n~~Av~rI~~iK~R~~~ 82 (245)
.+..+++.+.++|++|+. .+||.-|-.- +.-.+++.++++-...+=+++..
T Consensus 99 ~~~~alk~~~~lLk~G~~~i~IfPEGtR~r~~~~g~~~p~~Fd~~~~~~~~~La~~s~~ 157 (235)
T cd07985 99 ANLATLKEMQQLLNEGGQLIWVAPSGGRDRPDANGEWYPDPFDPSAVEMMRLLAQKSRV 157 (235)
T ss_pred ccHHHHHHHHHHHHcCCeEEEEcCCCCCCCCCCCCCccCCccchHHHHHHHHHHHhcCC
Confidence 467799999999999986 4789866542 22346888888888877777633
No 12
>PRK00135 scpB segregation and condensation protein B; Reviewed
Probab=54.26 E-value=23 Score=30.22 Aligned_cols=67 Identities=13% Similarity=0.177 Sum_probs=52.0
Q ss_pred hhcchhcccc-cCchhhhccccCCCHHHHHHHHHHHH------cCCeEEEecCcEEEEeccCCChHHHHHHHHHh
Q psy198 10 TLGLFYHNAI-ALPSKMCSIVKVTDPKAALLAAQCLK------KGCVVALPTDTLYGLACDATNSKAINILYEIK 77 (245)
Q Consensus 10 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~i~~a~~~L~------~GgvVi~PTdTvYgL~a~a~n~~Av~rI~~iK 77 (245)
---||.-.-| --.++++++++.+ .+.++.+++.|+ +.|+.+.-.+.+|-+...+...+.+++++.-|
T Consensus 10 EA~LF~sg~pgls~~~La~~l~~~-~~~v~~~l~~L~~~y~~~~~gi~i~~~~~~y~l~tk~e~~~~v~~~~~~~ 83 (188)
T PRK00135 10 EALLFVSGEEGLSLEQLAEILELE-PTEVQQLLEELQEKYEGDDRGLKLIEFNDVYKLVTKEENADYLQKLVKTP 83 (188)
T ss_pred HHHHHHcCCCCCCHHHHHHHHCCC-HHHHHHHHHHHHHHHhhCCCCEEEEEECCEEEEEEcHHHHHHHHHHhccc
Confidence 3346777776 7888999988764 456777777762 55999999999999999988888888876544
No 13
>TIGR00281 segregation and condensation protein B. Shown to be required for chromosome segregation and condensation in B. subtilis.
Probab=54.04 E-value=23 Score=30.24 Aligned_cols=65 Identities=11% Similarity=0.094 Sum_probs=49.6
Q ss_pred cchhcccc-cCchhhhccccCCCHHHHHHHHHHHHc------CCeEEEecCcEEEEeccCCChHHHHHHHHH
Q psy198 12 GLFYHNAI-ALPSKMCSIVKVTDPKAALLAAQCLKK------GCVVALPTDTLYGLACDATNSKAINILYEI 76 (245)
Q Consensus 12 ~~~~~~~~-~~~~~~~~~~~~~~~~~i~~a~~~L~~------GgvVi~PTdTvYgL~a~a~n~~Av~rI~~i 76 (245)
-||+.+-| --.++++++++.+..+.++.+.+.|++ .|+-+...+.+|-+...+...+.+++++.-
T Consensus 9 lLF~sg~pgls~~~La~il~~~~~~~~~~~l~~l~~~~~~~~~gl~l~~~~~~y~l~tk~e~~~~i~~~~~~ 80 (186)
T TIGR00281 9 LLFVSGEPGVTLAELVRILGKEKAEKLNAIMELLEDYLSRDTAGIEIIKFGQSYSLVTKPAFADYIHRFLPA 80 (186)
T ss_pred HHHHcCCCCCCHHHHHHHhCCCchHHHHHHHHHHHHHHhcCCCCEEEEEECCEEEEEEhHHHHHHHHHHhcc
Confidence 36777666 778899999977655667777776632 379999999999999988777777777543
No 14
>cd00354 FBPase Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1,7-biphosphatases that play a role in pentose phosphate pathway (Calvin cycle).
Probab=41.97 E-value=9.3 Score=35.28 Aligned_cols=60 Identities=12% Similarity=0.202 Sum_probs=45.2
Q ss_pred HHHHHHHHHcCCeEEEecCcEEE-------------------EeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCcccc
Q psy198 37 ALLAAQCLKKGCVVALPTDTLYG-------------------LACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPK 97 (245)
Q Consensus 37 i~~a~~~L~~GgvVi~PTdTvYg-------------------L~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~~ 97 (245)
+..+-+.|-.||+..||.|+.|. -|+.+++. .++|..++-+..++-..++++|.+++.+
T Consensus 233 VaD~hr~L~~GGif~yP~~~~~~~gkLRllyEa~P~afi~EqAGG~as~G--~~~iLdi~p~~~hqR~p~~~GS~~eV~~ 310 (315)
T cd00354 233 VADVHRILVRGGIFLYPADKKSPKGKLRLLYEANPMAFLVEQAGGKATDG--KERILDIVPTSLHQRVPVILGSKEEVER 310 (315)
T ss_pred ehHhHHhhhcCeEEEccCCCCCCCCcEeeeeeccHHHHHHHHhCCeecCC--CccccccCCCccccCCCeEEeCHHHHHH
Confidence 34556667799999999999752 12333333 3799999998889999999999888776
Q ss_pred c
Q psy198 98 W 98 (245)
Q Consensus 98 ~ 98 (245)
+
T Consensus 311 ~ 311 (315)
T cd00354 311 V 311 (315)
T ss_pred H
Confidence 5
No 15
>COG4821 Uncharacterized protein containing SIS (Sugar ISomerase) phosphosugar binding domain [General function prediction only]
Probab=41.79 E-value=1.1e+02 Score=26.88 Aligned_cols=135 Identities=19% Similarity=0.247 Sum_probs=72.8
Q ss_pred HHHHHHHHHHHcCCeEEEecCcEEEEeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCcccc------ccc-cCchHHH
Q psy198 35 KAALLAAQCLKKGCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPK------WAD-THTVSFE 107 (245)
Q Consensus 35 ~~i~~a~~~L~~GgvVi~PTdTvYgL~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~~------~~~-~~~~~~~ 107 (245)
++.+.+++.+.+||+| |-+||-=+.--|.+--|+.-+-...||+ ++..+ ++.+ |.+ ++...+-
T Consensus 26 kaa~lVAesi~n~g~i-------~~FG~GHShm~aeEv~yRAGGLa~~~pI--L~~pl-MLhega~ass~lErieg~~~~ 95 (243)
T COG4821 26 KAAKLVAESIMNDGRI-------YVFGSGHSHMLAEEVFYRAGGLAPIKPI--LMEPL-MLHEGAVASSYLERIEGYAKL 95 (243)
T ss_pred HHHHHHHHHHhcCCEE-------EEecCchHHHHHHHHHhhcCCccccccc--cCChh-hhcccccccchhHhhhhHHHH
Confidence 3455666778899875 6677754455566666677777777764 23221 2222 211 1122222
Q ss_pred HHHh--hCCCCEEEEecCCCccccccCCCCCeEEEEecCcHHHHHHHHHcCC-CeeeccCCCCCCCCCCCHHHHHhhcCC
Q psy198 108 LLAE--LLPGPVTIVFNRSEHLNLELNPNVTKVAVRIPDHKFLRQLLKLMDS-PLALTSANESNEPSTLCINEFQKLWSQ 184 (245)
Q Consensus 108 l~~~--~wPGplTlIl~~~~~lp~~l~~~~~tvgvRip~~~~~~~Li~~~g~-PL~sTSAN~SG~~~~~~~e~~~~~~~~ 184 (245)
++++ .-||-+-+++.. ++.+.+.| -+.+..++-|. -|+.||.--|.......-. =..+++-
T Consensus 96 ~l~~~~i~~~DVliviSn---------SGrNpvpi------e~A~~~rekGa~vI~vTSl~ySq~~~SRh~S-GK~Ly~~ 159 (243)
T COG4821 96 FLHRLQIRPNDVLIVISN---------SGRNPVPI------EVAEYAREKGAKVIAVTSLDYSQSQASRHKS-GKLLYEF 159 (243)
T ss_pred HHHHhcCCCCCEEEEEeC---------CCCCCcch------HHHHHHHhcCCeEEEEehhhhhhhchhcccc-hhHHhhh
Confidence 3333 368888887764 23344432 23334445454 3668888777443222111 0123456
Q ss_pred ccEEEeCCCCC
Q psy198 185 LSVVIDGGIIS 195 (245)
Q Consensus 185 vd~ivd~g~~~ 195 (245)
+|.|+|+|...
T Consensus 160 aDvVlDN~av~ 170 (243)
T COG4821 160 ADVVLDNGAVK 170 (243)
T ss_pred cceeeeCCCcc
Confidence 89999988655
No 16
>PLN02262 fructose-1,6-bisphosphatase
Probab=41.22 E-value=12 Score=35.10 Aligned_cols=62 Identities=11% Similarity=0.111 Sum_probs=47.0
Q ss_pred HHHHHHHHHHcCCeEEEecCcEEE-------------------EeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCccc
Q psy198 36 AALLAAQCLKKGCVVALPTDTLYG-------------------LACDATNSKAINILYEIKKRDVNKPLAICVSEITDIP 96 (245)
Q Consensus 36 ~i~~a~~~L~~GgvVi~PTdTvYg-------------------L~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~ 96 (245)
-+..+-+.|-.||+..||.|..|- -|..+++ ..+||.+++=+..++-..++++|.+++.
T Consensus 251 mVaD~hriL~~GGif~YP~d~~~~~GkLRllyEa~P~afi~EqAGG~As~--G~~~iLdi~p~~lHqR~pl~~GS~~eV~ 328 (340)
T PLN02262 251 MVADVHRTLLYGGIFLYPADKKSPNGKLRVLYEVFPMSFLVEQAGGQAFT--GKQRALDLVPTKIHERSPIFLGSYDDVE 328 (340)
T ss_pred chHHHHHHHhcCeEEeccCCCCCCCCcEEEEeecchHHHHHHHhCCcccc--CCccccccCCCccccCCCeEEeCHHHHH
Confidence 345566778889999999998872 1223333 3479999999989999999999998887
Q ss_pred ccc
Q psy198 97 KWA 99 (245)
Q Consensus 97 ~~~ 99 (245)
++.
T Consensus 329 ~~~ 331 (340)
T PLN02262 329 EIK 331 (340)
T ss_pred HHH
Confidence 763
No 17
>PLN02542 fructose-1,6-bisphosphatase
Probab=39.60 E-value=12 Score=35.87 Aligned_cols=60 Identities=10% Similarity=0.217 Sum_probs=45.6
Q ss_pred HHHHHHHHHcCCeEEEecCcEEE-------------------EeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCcccc
Q psy198 37 ALLAAQCLKKGCVVALPTDTLYG-------------------LACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPK 97 (245)
Q Consensus 37 i~~a~~~L~~GgvVi~PTdTvYg-------------------L~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~~ 97 (245)
+-.+-+.|-.|||..||.|..|. -|+.+++. .+||..++=...++-..++++|.+++.+
T Consensus 329 VaDvHRiLl~GGIF~YP~d~~~~~GKLRLLYEa~PmAfivEqAGG~AsdG--~~rILDi~P~~lHqR~Pl~~GS~~eV~~ 406 (412)
T PLN02542 329 VGDFHRTLLYGGIYGYPRDKKSKNGKLRLLYECAPMSFIVEQAGGKGSDG--HQRILDIQPTEIHQRVPLYIGSVEEVEK 406 (412)
T ss_pred hHHHHHHhhcCeEEecCCCCCCCCCcEeEeeecchHHHHHHHhCCcccCC--CccccccCCCccccCCCeEEcCHHHHHH
Confidence 44566677779999999998773 12333333 4799999988889999999999888876
Q ss_pred c
Q psy198 98 W 98 (245)
Q Consensus 98 ~ 98 (245)
+
T Consensus 407 ~ 407 (412)
T PLN02542 407 L 407 (412)
T ss_pred H
Confidence 5
No 18
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=39.21 E-value=35 Score=34.69 Aligned_cols=119 Identities=20% Similarity=0.194 Sum_probs=67.9
Q ss_pred CHHHHHHHHHHHHcCCeEEEecCcEEEEeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCccccccccCchHHHHHHhh
Q psy198 33 DPKAALLAAQCLKKGCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWADTHTVSFELLAEL 112 (245)
Q Consensus 33 ~~~~i~~a~~~L~~GgvVi~PTdTvYgL~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~~~~~~~~~~~~l~~~~ 112 (245)
++.++++..+.+++|+--. +++|+...+. .-.+..+++ + .++|..+++.|...+.++.. -++.|
T Consensus 14 Q~~ai~~l~~~~~~~~~~~----~l~Gvtgs~k-t~~~a~~~~--~--~~~p~Lvi~~n~~~A~ql~~-------el~~f 77 (655)
T TIGR00631 14 QPKAIAKLVEGLTDGEKHQ----TLLGVTGSGK-TFTMANVIA--Q--VNRPTLVIAHNKTLAAQLYN-------EFKEF 77 (655)
T ss_pred HHHHHHHHHHhhhcCCCcE----EEECCCCcHH-HHHHHHHHH--H--hCCCEEEEECCHHHHHHHHH-------HHHHh
Confidence 5667888888888874211 3567666431 112333333 2 35689999999877766632 25667
Q ss_pred CCCCEEEEe-------------cCCCccccccC-CCCCeEEEEecCcHHHHHHHHHcCCCeeec--cCCCCCCCCC
Q psy198 113 LPGPVTIVF-------------NRSEHLNLELN-PNVTKVAVRIPDHKFLRQLLKLMDSPLALT--SANESNEPST 172 (245)
Q Consensus 113 wPGplTlIl-------------~~~~~lp~~l~-~~~~tvgvRip~~~~~~~Li~~~g~PL~sT--SAN~SG~~~~ 172 (245)
+|..-...+ |..+.+|.... .+....+.| ...+..|++.-. .++.+ || +-|-+++
T Consensus 78 ~p~~~V~~f~sy~d~y~pe~y~P~~d~~~~k~~~~~~~i~~~R---~~al~~L~~~~~-~ivVasv~~-i~~l~~p 148 (655)
T TIGR00631 78 FPENAVEYFVSYYDYYQPEAYVPSKDTYIEKDASINDEIERLR---HSATRSLLERRD-VIVVASVSC-IYGLGSP 148 (655)
T ss_pred CCCCeEEEEeeecccCCccccCCCccccccccCCCChHHHHHH---HHHHHHHHhCCC-eEEEEcHHH-hcCCCCH
Confidence 888766666 77766654332 222334444 344666665422 34444 55 6666544
No 19
>KOG0360|consensus
Probab=39.07 E-value=25 Score=34.36 Aligned_cols=93 Identities=15% Similarity=0.176 Sum_probs=57.0
Q ss_pred cEEEeCCcCccccccccC-chHHHHHHhhCCCCEEEEecCCCccccccC---CCCCeEEEEecCcHHHHHHHHHcCCCee
Q psy198 85 LAICVSEITDIPKWADTH-TVSFELLAELLPGPVTIVFNRSEHLNLELN---PNVTKVAVRIPDHKFLRQLLKLMDSPLA 160 (245)
Q Consensus 85 l~ll~~s~~~l~~~~~~~-~~~~~l~~~~wPGplTlIl~~~~~lp~~l~---~~~~tvgvRip~~~~~~~Li~~~g~PL~ 160 (245)
..+++.|++++.+....+ ++..+-+++..---.-+|+-.+ .+.+.+. -..+-+|||-..-..++.+.+..|.-++
T Consensus 253 v~vvv~dp~kle~ir~~e~~itkeRi~kIl~~ganvVLtt~-gIddmc~K~~veagamAVrR~~k~dlk~iakatGat~~ 331 (545)
T KOG0360|consen 253 VQVVVDDPEKLEQIRQREQDITKERIKKILATGANVVLTTG-GIDDMCLKYFVEAGAMAVRRCKKEDLKRIAKATGATLL 331 (545)
T ss_pred ceEEEcChHHHHHHHHHHhHhHHHHHHHHHhcCCcEEEEcC-CccHHHHHHHHHcchhhhHHHHHHHHHHHHHhhCCeee
Confidence 455667777776664321 2222233343332334444322 2332211 1246799999998999999999999999
Q ss_pred eccCCCCCCCCCC-----CHHHH
Q psy198 161 LTSANESNEPSTL-----CINEF 178 (245)
Q Consensus 161 sTSAN~SG~~~~~-----~~e~~ 178 (245)
+|=||+.|+.+-- ..+++
T Consensus 332 sSla~l~geetf~~~~lG~a~ev 354 (545)
T KOG0360|consen 332 SSLANLEGEETFEPASLGSADEV 354 (545)
T ss_pred ehhhccccccccChhhccchhHH
Confidence 9999999997432 36665
No 20
>PF04079 DUF387: Putative transcriptional regulators (Ypuh-like); InterPro: IPR005234 This family represents ScpB, which along with ScpA (IPR003768 from INTERPRO) interacts with SMC in vivo forming a complex that is required for chromosome condensation and segregation [, ]. The SMC-Scp complex appears to be similar to the MukB-MukE-Muk-F complex in Escherichia coli [], where MukB (IPR007406 from INTERPRO) is the homologue of SMC. ScpA and ScpB have little sequence similarity to MukE (IPR007385 from INTERPRO) or MukF (IPR005582 from INTERPRO), they are predicted to be structurally similar, being predominantly alpha-helical with coiled coil regions. In general scpA and scpB form an operon in most bacterial genomes. Flanking genes are highly variable suggesting that the operon has moved throughout evolution. Bacteria containing an smc gene also contain scpA or scpB but not necessarily both. An exception is found in Deinococcus radiodurans, which contains scpB but neither smc nor scpA. In the archaea the gene order SMC-ScpA is conserved in nearly all species, as is the very short distance between the two genes, indicating co-transcription of the both in different archaeal genera and arguing that interaction of the gene products is not confined to the homologues in Bacillus subtilis. It would seem probable that, in light of all the studies, SMC, ScpA and ScpB proteins or homologues act together in chromosome condensation and segregation in all prokaryotes []. ; GO: 0051304 chromosome separation; PDB: 1T6S_B 2Z99_A.
Probab=39.02 E-value=65 Score=26.69 Aligned_cols=62 Identities=11% Similarity=0.105 Sum_probs=44.1
Q ss_pred chhcccccCchhhhccccCCCHHHHHHHHHH----H--HcCCeEEEecCcEEEEeccCCChHHHHHHHHH
Q psy198 13 LFYHNAIALPSKMCSIVKVTDPKAALLAAQC----L--KKGCVVALPTDTLYGLACDATNSKAINILYEI 76 (245)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~i~~a~~~----L--~~GgvVi~PTdTvYgL~a~a~n~~Av~rI~~i 76 (245)
||...-|--.++++++++ +.+.++++.+- . .+.|+-+.-.+.+|-+...+...+.+++++.-
T Consensus 7 LF~s~~pvs~~~La~~l~--~~~~v~~~l~~L~~~y~~~~~gl~l~~~~~~y~l~tk~~~~~~v~~~~~~ 74 (159)
T PF04079_consen 7 LFASGEPVSIEELAEILG--SEDEVEEALEELQEEYNEEDRGLELVEVGGGYRLQTKPEYAEYVEKLFKK 74 (159)
T ss_dssp HHH-SS-B-HHHHHHHCT---HHHHHHHHHHHHHHHHHCT-SEEEEEETTEEEEEE-GGGHHHHHHHHCT
T ss_pred HHHcCCCCCHHHHHHHhC--CHHHHHHHHHHHHHHhccCCCCEEEEEECCEEEEEEhHHHHHHHHHHhcc
Confidence 566666777888999998 45555555544 4 58899999999999999999888888887755
No 21
>PF05785 CNF1: Rho-activating domain of cytotoxic necrotizing factor; InterPro: IPR008430 This entry represents several bacterial cytotoxic necrotizing factor proteins as well as related dermonecrotic toxin (DNT) from Bordetella species. Cytotoxic necrotizing factor 1 (CNF1) is a toxin whose structure from Escherichia coli revealed a 4-layer alpha/beta/beta/alpha structure containing mixed beta-sheets []. CNF1 is expressed in strains of E. coli causing uropathogenic and neonatal meningitis. CNF1 alters host cell actin cytoskeleton and promotes bacterial invasion of the blood-brain barrier endothelial cells []. CNF1 belongs to a unique group of large cytotoxins that cause constitutive activation of Rho guanosine triphosphatases (GTPases), which are key regulators of the actin cytoskeleton []. Bordetella dermonecrotic toxin (DNT) stimulates the assembly of actin stress fibres and focal adhesions by deamidating or polyaminating Gln63 of the small GTPase Rho. DNT is an A-B toxin composed of an N-terminal receptor-binding (B) domain and a C-terminal enzymatically active (A) domain [].; PDB: 1HZG_A 1HQ0_A.
Probab=37.73 E-value=14 Score=33.67 Aligned_cols=34 Identities=18% Similarity=0.125 Sum_probs=21.8
Q ss_pred CCCCCeEEEEecCcHHHHHHHHHcCCCeeeccCCCCCCCC
Q psy198 132 NPNVTKVAVRIPDHKFLRQLLKLMDSPLALTSANESNEPS 171 (245)
Q Consensus 132 ~~~~~tvgvRip~~~~~~~Li~~~g~PL~sTSAN~SG~~~ 171 (245)
++..+++|+||+-..+ .-|.|++.||.++||.-.
T Consensus 103 NG~rGt~GikI~L~~i------~~g~pviitsG~LSGCT~ 136 (281)
T PF05785_consen 103 NGARGTNGIKIALSDI------KEGKPVIITSGALSGCTM 136 (281)
T ss_dssp -BTEEEEEEEEEGGG-------BTTB-EEEE---BSS-EE
T ss_pred CCCCcceeEEEEHHHc------CCCCeEEEeCCccCCCEE
Confidence 4567899999987653 337899999999999864
No 22
>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp. (strain PCC 6803) hypothetical protein slr0846. These are small proteins of 12 to 18kDa which seem to contain a signal sequence, and may represent a family of probable transcriptional regulators.; PDB: 3T8T_A 3T8R_A 3K69_A 3LWF_C 1XD7_A 2Y75_E 1YLF_C.
Probab=36.00 E-value=67 Score=23.05 Aligned_cols=46 Identities=17% Similarity=0.110 Sum_probs=32.3
Q ss_pred ccCchhhhccccCCCHHHHHHHHHHHHcCCeEEE-ec-CcEEEEeccCC
Q psy198 19 IALPSKMCSIVKVTDPKAALLAAQCLKKGCVVAL-PT-DTLYGLACDAT 65 (245)
Q Consensus 19 ~~~~~~~~~~~~~~~~~~i~~a~~~L~~GgvVi~-PT-dTvYgL~a~a~ 65 (245)
+...+++++.+.. ....++++.+.|++.|+|-- +. ..+|-|+.+|.
T Consensus 25 ~~s~~eiA~~~~i-~~~~l~kil~~L~~~Gli~s~~G~~GGy~L~~~~~ 72 (83)
T PF02082_consen 25 PVSSKEIAERLGI-SPSYLRKILQKLKKAGLIESSRGRGGGYRLARPPE 72 (83)
T ss_dssp -BEHHHHHHHHTS--HHHHHHHHHHHHHTTSEEEETSTTSEEEESS-CC
T ss_pred CCCHHHHHHHHCc-CHHHHHHHHHHHhhCCeeEecCCCCCceeecCCHH
Confidence 4455666666666 56688999999999998764 33 48999999874
No 23
>cd08210 RLP_RrRLP Ribulose bisphosphate carboxylase like proteins (RLPs) similar to R.rubrum RLP. RLP from Rhodospirillum rubrum plays a role in an uncharacterized sulfur salvage pathway and has been shown to catalyze a novel isomerization reaction that converts 5-methylthio-d-ribulose 1-phosphate to a 3:1 mixture of 1-methylthioxylulose 5-phosphate and 1-methylthioribulose 5-phosphate.
Probab=35.31 E-value=34 Score=32.23 Aligned_cols=49 Identities=14% Similarity=0.139 Sum_probs=35.0
Q ss_pred HHHHHHHHcCCCeeeccCCCCCCCCCCCHHHHHhhc-CCccEEEeCCCCC
Q psy198 147 FLRQLLKLMDSPLALTSANESNEPSTLCINEFQKLW-SQLSVVIDGGIIS 195 (245)
Q Consensus 147 ~~~~Li~~~g~PL~sTSAN~SG~~~~~~~e~~~~~~-~~vd~ivd~g~~~ 195 (245)
-+++++...++||++|-.-..|-.+....+.+.++. +++|+|-|++...
T Consensus 116 g~R~~lgv~~rPl~~tiiKP~GL~~~~~a~~~~~~~~gGvD~IKdDe~l~ 165 (364)
T cd08210 116 GLRALLGIPERPLLCSALKPQGLSAAELAELAYAFALGGIDIIKDDHGLA 165 (364)
T ss_pred HHHHHhCCCCCceEEEEeccccCCHHHHHHHHHHHHhcCCCeeecCcccc
Confidence 568889888999999988776665444344444544 7999998876544
No 24
>PLN02349 glycerol-3-phosphate acyltransferase
Probab=35.24 E-value=52 Score=31.59 Aligned_cols=45 Identities=11% Similarity=0.183 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHcCCeEEE-----------ecCcEEEEeccCCChHHHHHHHHHhCCC
Q psy198 34 PKAALLAAQCLKKGCVVAL-----------PTDTLYGLACDATNSKAINILYEIKKRD 80 (245)
Q Consensus 34 ~~~i~~a~~~L~~GgvVi~-----------PTdTvYgL~a~a~n~~Av~rI~~iK~R~ 80 (245)
.++++++.+.|++||.++. |-+..|.. +++++++|+-.+.+=+++
T Consensus 280 ~kslk~~~~lL~~Gg~~iwIaPsGgRdR~d~~~g~~~p--apFD~~svd~mR~l~~~s 335 (426)
T PLN02349 280 TRTLKEMALLLREGGQLIWIAPSGGRDRPDPLTGEWTP--APFDPSAVDNMRRLTEKS 335 (426)
T ss_pred HHHHHHHHHHHhcCCeEEEEeCCCCCCCCCccCCCccC--CCCChHHHHHHHHHHHhc
Confidence 3578889999999998875 31333444 789999999999887775
No 25
>COG1638 DctP TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=31.54 E-value=76 Score=29.41 Aligned_cols=67 Identities=19% Similarity=0.265 Sum_probs=40.4
Q ss_pred cEEEeCCcCccccccccCchHHHHHHhh----------CC-CCEEEEecCCCc-cccccCCCCCeEEEEecCcHHHHHHH
Q psy198 85 LAICVSEITDIPKWADTHTVSFELLAEL----------LP-GPVTIVFNRSEH-LNLELNPNVTKVAVRIPDHKFLRQLL 152 (245)
Q Consensus 85 l~ll~~s~~~l~~~~~~~~~~~~l~~~~----------wP-GplTlIl~~~~~-lp~~l~~~~~tvgvRip~~~~~~~Li 152 (245)
++.++.|.+++.++.+ ++..+++.+.+ |. |.-.+.-.+++- -|.-+ +.+-+|+|++|...+.+
T Consensus 108 lPflf~d~~~~~~~~~-~~~g~~l~~~~e~~g~~~l~~~~~G~R~~t~~k~PI~~peDl----kGlkiRv~~s~~~~~~~ 182 (332)
T COG1638 108 LPFLFRDEEHARRVLD-SEFGEELLKSLEAKGLKGLAFWENGFRQFTSNKRPIKTPEDL----KGLKIRVPQSPLLLAMF 182 (332)
T ss_pred CCeeeCCHHHHHHHHc-cHHHHHHHHHHHHcCCEEEEEecCceeeeecCCCCCCChHHh----CCCeeecCCCHHHHHHH
Confidence 4556777777777754 34445554432 44 333333222111 12222 45889999999999999
Q ss_pred HHcC
Q psy198 153 KLMD 156 (245)
Q Consensus 153 ~~~g 156 (245)
+.+|
T Consensus 183 ~a~G 186 (332)
T COG1638 183 KALG 186 (332)
T ss_pred HHcC
Confidence 9998
No 26
>cd08205 RuBisCO_IV_RLP Ribulose bisphosphate carboxylase like proteins, Rubisco-Form IV. Ribulose bisphosphate carboxylase (Rubisco) plays an important role in the Calvin reductive pentose phosphate pathway. It catalyzes the primary CO2 fixation step. Rubisco is activated by carbamylation of an active site lysine, stabilized by a divalent cation, which then catalyzes the proton abstraction from the substrate ribulose 1,5 bisphosphate (RuBP) and leads to the formation of two molecules of 3-phosphoglycerate. Members of the Rubisco family can be divided into 4 subgroups, Form I-IV, which differ in their taxonomic distribution and subunit composition. Form I-III have Rubisco activity, while Form IV, also called Rubisco-like proteins (RLP), are missing critical active site residues and therefore do not catalyze CO2 fixation. They are believed to utilize a related enzymatic mechanism, but have divergent functions, like for example 2,3-diketo-5-methylthiopentyl-1-phosphate enolase or 5-methyl
Probab=30.25 E-value=47 Score=31.26 Aligned_cols=49 Identities=27% Similarity=0.245 Sum_probs=34.3
Q ss_pred HHHHHHHHcCCCeeeccCCCCCCCCCCCHHH-HHhhc-CCccEEEeCCCCC
Q psy198 147 FLRQLLKLMDSPLALTSANESNEPSTLCINE-FQKLW-SQLSVVIDGGIIS 195 (245)
Q Consensus 147 ~~~~Li~~~g~PL~sTSAN~SG~~~~~~~e~-~~~~~-~~vd~ivd~g~~~ 195 (245)
-+++++...++|++.|--+..+.-+.....+ +.++. .++|+|.|.|...
T Consensus 120 g~R~~~gv~~rPli~Ti~kp~~gld~~~la~~~~~l~~gGvD~Ikdde~~g 170 (367)
T cd08205 120 GLRRLLGVHDRPLLGTIIKPSIGLSPEELAELAYELALGGIDLIKDDELLA 170 (367)
T ss_pred hHHHHhCCCCCCeeeeeeCCCCCCCHHHHHHHHHHHHhcCCCeeecccccc
Confidence 4688888899999999999885533333222 34444 6899998876554
No 27
>PRK09293 fructose-1,6-bisphosphatase; Provisional
Probab=30.17 E-value=21 Score=33.09 Aligned_cols=61 Identities=13% Similarity=0.255 Sum_probs=47.1
Q ss_pred HHHHHHHHHHcCCeEEEecCcEEE-------------------EeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCccc
Q psy198 36 AALLAAQCLKKGCVVALPTDTLYG-------------------LACDATNSKAINILYEIKKRDVNKPLAICVSEITDIP 96 (245)
Q Consensus 36 ~i~~a~~~L~~GgvVi~PTdTvYg-------------------L~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~ 96 (245)
-+..+-+.|-.||+..||.|..|- -|..+++ .-+||.+++-...++-..++++|.+++.
T Consensus 240 mVaD~hr~L~~GGif~YP~~~~~~~GkLRllyEa~P~afi~EqAGG~as~--G~~~iLd~~p~~lHqr~p~~~GS~~eV~ 317 (327)
T PRK09293 240 MVADVHRILLKGGIFLYPADEPYPNGKLRLLYEANPMAFLVEQAGGAASD--GKQRILDIEPESLHQRVPLFLGSKEEVE 317 (327)
T ss_pred ehHHHhHHhhcCeEEEcCCCCCCCCCcEEEEeecchHHHHHHHhCCcccc--CCccccccCCCccccCCCeEEeCHHHHH
Confidence 355677789999999999997763 1223333 3589999999888999999999988877
Q ss_pred cc
Q psy198 97 KW 98 (245)
Q Consensus 97 ~~ 98 (245)
++
T Consensus 318 ~~ 319 (327)
T PRK09293 318 RV 319 (327)
T ss_pred HH
Confidence 76
No 28
>PRK09375 quinolinate synthetase; Provisional
Probab=28.66 E-value=78 Score=29.38 Aligned_cols=84 Identities=14% Similarity=0.173 Sum_probs=56.1
Q ss_pred HHHHHHHHHHcCCeEEEecCcEEEEeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCcccccccc---CchHHHHHHhh
Q psy198 36 AALLAAQCLKKGCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWADT---HTVSFELLAEL 112 (245)
Q Consensus 36 ~i~~a~~~L~~GgvVi~PTdTvYgL~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~~~~~~---~~~~~~l~~~~ 112 (245)
-..+.+.+|..++-|++|.- .-||.--+.-..+.|.++|++-++-.+...+.+-..++.++++ +....+.++.+
T Consensus 78 FMaEtAkIL~p~k~VllP~~---~AgC~mAd~~~~~~i~~lk~~~p~a~vVaYvNssaeVKA~aD~~cTSSnAl~iv~~~ 154 (319)
T PRK09375 78 FMAETAKILSPEKTVLLPDL---EAGCSLADMCPAEEFRAFKEAHPDATVVTYVNTSAAVKARADIVCTSSNAVKIVEAL 154 (319)
T ss_pred ehhhhHHhcCCCCeEECCCC---CCCCcccccCCHHHHHHHHHHCCCCEEEEEeCCCHHHHHhCCeEEeCHHHHHHHhcc
Confidence 45567788999999999987 3466555555568888888775566666677777788887764 43445555655
Q ss_pred CCCCEEEEec
Q psy198 113 LPGPVTIVFN 122 (245)
Q Consensus 113 wPGplTlIl~ 122 (245)
.++..-+.+|
T Consensus 155 ~~~~~IlF~P 164 (319)
T PRK09375 155 PQGKKILFLP 164 (319)
T ss_pred CCCCeEEEeC
Confidence 4555444444
No 29
>KOG2819|consensus
Probab=27.84 E-value=9.8 Score=35.54 Aligned_cols=113 Identities=17% Similarity=0.236 Sum_probs=67.6
Q ss_pred hhhcchhcccccCchhhhccccCC-----CHHHHHHHHHHHHcCCeEEEecCcEEEEeccCCChHH-HHHHHHHhCCCCC
Q psy198 9 FTLGLFYHNAIALPSKMCSIVKVT-----DPKAALLAAQCLKKGCVVALPTDTLYGLACDATNSKA-INILYEIKKRDVN 82 (245)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~i~~a~~~L~~GgvVi~PTdTvYgL~a~a~n~~A-v~rI~~iK~R~~~ 82 (245)
|+||.-.-.|+|.++|=.+++++- +++.+ .. -+|+.=++++.-|-=||+|+.- +=.++.+|+- +-
T Consensus 19 F~lGMpi~qaiAiiqqh~riik~VqvlYsd~~Pl-------~~-DiIinl~qdGirL~FD~~sQrLKlIEV~dl~~v-kl 89 (413)
T KOG2819|consen 19 FVLGMPIAQAIAIIQQHPRIIKNVQVLYSDQDPL-------SH-DIIINLPQDGIRLMFDPFSQRLKLIEVFDLKKV-KL 89 (413)
T ss_pred eEecChHHHHHHHHHhCccceeeEEEEEecCCCc-------ce-eEEEecCCCceEEEechhhhceeEEEEecceEE-EE
Confidence 789999999999999988776542 22222 22 4677777778899999987521 1112344432 23
Q ss_pred CCcEEEeCCcCccccccccC-----------chHHHHHHhhCCCCEEEEecCCCcccccc
Q psy198 83 KPLAICVSEITDIPKWADTH-----------TVSFELLAELLPGPVTIVFNRSEHLNLEL 131 (245)
Q Consensus 83 Kpl~ll~~s~~~l~~~~~~~-----------~~~~~l~~~~wPGplTlIl~~~~~lp~~l 131 (245)
+=..++++|.+-+..+..++ +.+..+...+||| |++-+|.....++.+
T Consensus 90 rY~gv~fnsp~~lpTieqi~~sFGaThPGvYd~~~~iy~l~~~G-LSF~fp~~~~~~~~~ 148 (413)
T KOG2819|consen 90 RYCGVHFNSPAILPTIEQIDQSFGATHPGVYDSAHQIYVLSWPG-LSFCFPGGENSNPKV 148 (413)
T ss_pred EEeeeEecCcccchhHHHHHHhhCCCCCCCcCChhhhceeecCc-eEEECCCCCCCCccc
Confidence 34556666665554432221 2234555667998 888888444444433
No 30
>KOG3051|consensus
Probab=26.90 E-value=53 Score=29.48 Aligned_cols=177 Identities=17% Similarity=0.143 Sum_probs=92.7
Q ss_pred cCCCHHHHHHHHHHHHcCCeEEEecCcEEEEe----ccCCChHHHHHHHHHhCCC----------CCCCcEEEeCCcCc-
Q psy198 30 KVTDPKAALLAAQCLKKGCVVALPTDTLYGLA----CDATNSKAINILYEIKKRD----------VNKPLAICVSEITD- 94 (245)
Q Consensus 30 ~~~~~~~i~~a~~~L~~GgvVi~PTdTvYgL~----a~a~n~~Av~rI~~iK~R~----------~~Kpl~ll~~s~~~- 94 (245)
.-+.++....++..++.+-+..+++++.|+.. |.+.+....+++++.+ ++ .--|+.++....+.
T Consensus 33 a~pT~t~yg~g~~~~~~~av~~v~~~K~rP~~~pL~~~~~s~~~~~~v~~~~-i~~~~~~L~~~l~PGPltlll~~~~~~ 111 (261)
T KOG3051|consen 33 AFPTETVYGLGASAYNEVAVLRLYKLKNRPADNPLIVHVSSVDQLKRVVAIN-IPSLYLPLASYLWPGPLTLLLERADEC 111 (261)
T ss_pred ecCchhhhhhhhhhhccccchhhhhhhcCccccchhhccccHHHHHHHHhhc-chhhhhHHHhhcCCCceEEEeecchhh
Confidence 44566777888888999999999999999854 4445555666665552 11 12356666654442
Q ss_pred cccc--------c-ccC--chHHHHHHhhCCCCEEEEecCCCccccccCCCCCeEEEEecCcHHHHHHHHHcCCCeeecc
Q psy198 95 IPKW--------A-DTH--TVSFELLAELLPGPVTIVFNRSEHLNLELNPNVTKVAVRIPDHKFLRQLLKLMDSPLALTS 163 (245)
Q Consensus 95 l~~~--------~-~~~--~~~~~l~~~~wPGplTlIl~~~~~lp~~l~~~~~tvgvRip~~~~~~~Li~~~g~PL~sTS 163 (245)
+... | +++ ....+++.++ -+|+.. +..=.+++.+.++++-....++.-+...-.+..++|
T Consensus 112 l~~~~~~~~~svAvRiP~~~~a~~li~~~-~~Pla~--------tSAN~Ssr~s~tlai~~~~Dl~~~i~lilDgG~c~~ 182 (261)
T KOG3051|consen 112 LSKLTNPGLPSVAVRIPDHPVASALIPKL-GVPLAL--------TSANASSRPSPTLAIHVFADLQPKIPLILDGGACGS 182 (261)
T ss_pred ccccccCCCcceeEEccCCHHHHHHHHHh-CCCccc--------cccccccCCCCcchhhhhhhhccchhheecCccccc
Confidence 1111 0 111 1112333322 233221 000012233445555544444444444433445554
Q ss_pred CCCCCCCC-CCCHHHHHhhc--CCccEEEeCCCCCCCCCCCCeEEEEEeCCceEEEecCCCh
Q psy198 164 ANESNEPS-TLCINEFQKLW--SQLSVVIDGGIISNPERFGSTIVDLSEENVYSIVRKGVCY 222 (245)
Q Consensus 164 AN~SG~~~-~~~~e~~~~~~--~~vd~ivd~g~~~~~~~~~STIVd~~~~~~~~ilR~G~~~ 222 (245)
.--|-... ..+.-++-.-+ ..-|+++++| | ..+||++|.. +...+++|+|..+
T Consensus 183 g~~~~~~~g~~~p~~i~~pgG~~~~~~vv~gG-c----a~~~t~~~~~-~~~~~~~~pG~~~ 238 (261)
T KOG3051|consen 183 GVESTVVEGSTDPVDILRPGGITGEDIVVRGG-C----AVESTKVDMT-EPGEKVITPGMKY 238 (261)
T ss_pred CcCceeeccccCcceeeccCCccceeEEEecC-c----cceeeeeccc-CCcceeecCCccc
Confidence 32221110 11122222222 2357888888 4 4789999998 7788999999864
No 31
>PF00316 FBPase: Fructose-1-6-bisphosphatase; InterPro: IPR000146 This entry represents the fructose-1,6-bisphosphatase (FBPase) class 1 family. FBPase is a critical regulatory enzyme in gluconeogenesis that catalyses the removal of 1-phosphate from fructose 1,6-bis-phosphate to form fructose 6-phosphate [, ]. It is involved in many different metabolic pathways and found in most organisms. FBPase requires metal ions for catalysis (Mg2+ and Mn2+ being preferred) and the enzyme is potently inhibited by Li+. The fold of fructose-1,6-bisphosphatase was noted to be identical to that of inositol-1-phosphatase (IMPase) []. Inositol polyphosphate 1-phosphatase (IPPase), IMPase and FBPase share a sequence motif (Asp-Pro-Ile/Leu-Asp-Gly/Ser-Thr/Ser) which has been shown to bind metal ions and participate in catalysis. This motif is also found in the distantly-related fungal, bacterial and yeast IMPase homologues. It has been suggested that these proteins define an ancient structurally conserved family involved in diverse metabolic pathways, including inositol signalling, gluconeogenesis, sulphate assimilation and possibly quinone metabolism []. This entry also includes sedoheptulose-1,7-bisphosphatase, which is a member of the FBPase class 1 family.; GO: 0042578 phosphoric ester hydrolase activity, 0005975 carbohydrate metabolic process; PDB: 2GQ1_A 2QVR_A 2Q8M_B 2OX3_A 2OWZ_A 3KC0_C 2WBB_A 1FTA_C 2VT5_F 2Y5L_F ....
Probab=25.76 E-value=8.7 Score=35.67 Aligned_cols=61 Identities=13% Similarity=0.265 Sum_probs=41.4
Q ss_pred HHHHHHHHHHcCCeEEEecCcEEE-------------------EeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCccc
Q psy198 36 AALLAAQCLKKGCVVALPTDTLYG-------------------LACDATNSKAINILYEIKKRDVNKPLAICVSEITDIP 96 (245)
Q Consensus 36 ~i~~a~~~L~~GgvVi~PTdTvYg-------------------L~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~ 96 (245)
-+..+-+.|-.|||.+||.|.-|- -|..+++.. +||.+++-...++-..++++|.+++.
T Consensus 239 mVaD~HRiL~~GGif~YP~d~~~~~GKLRlLYEa~PmAflvEqAGG~As~G~--~riLdi~p~~lHqR~pl~~GS~~eV~ 316 (324)
T PF00316_consen 239 MVADVHRILLKGGIFLYPADKKYPNGKLRLLYEANPMAFLVEQAGGKASDGR--ERILDIVPESLHQRTPLFLGSAEEVE 316 (324)
T ss_dssp HHHHHHHHHHHTCEEEE-SBSSBTTCSSBTTTTHHHHHHHHHHTTCEEESSS--SBGGGS--SSTT-BE-EEEESHHHHH
T ss_pred cchhHHHHHhhCcEEECCCCCCCCCCceeEEEeccHHHHHHHHcCCEeccCC--cccccCCCCcccCCCCeEEcCHHHHH
Confidence 466777889999999999998743 122222332 78999998888888999999988877
Q ss_pred cc
Q psy198 97 KW 98 (245)
Q Consensus 97 ~~ 98 (245)
++
T Consensus 317 ~~ 318 (324)
T PF00316_consen 317 EL 318 (324)
T ss_dssp HH
T ss_pred HH
Confidence 65
No 32
>COG0379 NadA Quinolinate synthase [Coenzyme metabolism]
Probab=25.66 E-value=86 Score=29.12 Aligned_cols=86 Identities=15% Similarity=0.219 Sum_probs=63.0
Q ss_pred HHHHHHHHHHHcCCeEEEecCcEEEEeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCcccccccc---CchHHHHHHh
Q psy198 35 KAALLAAQCLKKGCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWADT---HTVSFELLAE 111 (245)
Q Consensus 35 ~~i~~a~~~L~~GgvVi~PTdTvYgL~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~~~~~~---~~~~~~l~~~ 111 (245)
.-..+.+++|.-.+-|++|+- .-+|+-.+.-..+.+.+.|.+=++-|+..++.+-+.++.++++ +.-+.+.++.
T Consensus 79 ~FMaETAkiLnPeK~VL~Pd~---~AgCsmA~~~~~~~~~~~~~~~P~~~vV~YvNtsA~vKA~~Di~cTSsNAvkvVe~ 155 (324)
T COG0379 79 HFMAETAKILNPEKTVLLPDL---EAGCSMADMITAEEVRAFKEKHPDAPVVTYVNTSAEVKAEADICCTSSNAVKVVES 155 (324)
T ss_pred eehHhhHhhcCCCCeEecCCC---CCCCCcccCCCHHHHHHHHHHCCCCceEEEeeChHHHHhhcCeEEecchHHHHHHh
Confidence 345677888998888999983 4466655555668888888887899999999999999888763 4445566665
Q ss_pred hCCCCEEEEecC
Q psy198 112 LLPGPVTIVFNR 123 (245)
Q Consensus 112 ~wPGplTlIl~~ 123 (245)
.+++.-.+.+|.
T Consensus 156 ~~~~~~Iif~PD 167 (324)
T COG0379 156 ALDGDKILFLPD 167 (324)
T ss_pred ccCCCcEEEcCc
Confidence 566666666663
No 33
>cd08148 RuBisCO_large Ribulose bisphosphate carboxylase large chain. Ribulose bisphosphate carboxylase (Rubisco) plays an important role in the Calvin reductive pentose phosphate pathway. It catalyzes the primary CO2 fixation step. Rubisco is activated by carbamylation of an active site lysine, stabilized by a divalent cation, which then catalyzes the proton abstraction from the substrate ribulose 1,5 bisphosphate (RuBP) and leads to the formation of two molecules of 3-phosphoglycerate. Members of the Rubisco family can be divided into 4 subgroups, Form I-IV, which differ in their taxonomic distribution and subunit composition. Form I-III have Rubisco activity, while Form IV, also called Rubisco-like proteins (RLP), are missing critical active site residues and therefore do not catalyze CO2 fixation. They are believed to utilize a related enzymatic mechanism, but have divergent functions.
Probab=24.21 E-value=57 Score=30.81 Aligned_cols=47 Identities=17% Similarity=0.126 Sum_probs=34.9
Q ss_pred HHHHHHHHcCCCeeeccCCCC-CCCCCCCHHHHHhhc-CCccEEEeCCC
Q psy198 147 FLRQLLKLMDSPLALTSANES-NEPSTLCINEFQKLW-SQLSVVIDGGI 193 (245)
Q Consensus 147 ~~~~Li~~~g~PL~sTSAN~S-G~~~~~~~e~~~~~~-~~vd~ivd~g~ 193 (245)
-+++++...++||++|..-.+ |..+....+.+.++. +++|+|=|+..
T Consensus 117 G~R~~lgv~~RPl~gtiiKP~~Glsp~~~a~~~y~~~~GG~D~IKDDE~ 165 (366)
T cd08148 117 GIRKLLGVYGRPLVGTIIKPKLGLNPKYTAEAAYAAALGGLDLIKDDET 165 (366)
T ss_pred hHHHHhCCCCCceeEeecccccCCCHHHHHHHHHHHHhCCCCccccccc
Confidence 467888888999999988887 776555555555555 78998877643
No 34
>TIGR00506 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase. Several members of the family are bifunctional, involving both ribA and ribB function. In these cases, ribA tends to be on the C-terminal end of the protein and ribB tends to be on the N-terminal.
Probab=24.08 E-value=1.8e+02 Score=25.10 Aligned_cols=58 Identities=19% Similarity=0.082 Sum_probs=36.3
Q ss_pred HHHHHHHHHHcCCeEEEecCcE------EEEeccCCChHHHHHHHHHhCCCCCCCcEEEeCCcCccccc
Q psy198 36 AALLAAQCLKKGCVVALPTDTL------YGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKW 98 (245)
Q Consensus 36 ~i~~a~~~L~~GgvVi~PTdTv------YgL~a~a~n~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~~~ 98 (245)
.+++|++.|++|+.|++=.|-. .-+.+..-+++.+..+.+ ..+.++.+.-+.+.+.++
T Consensus 4 ~ie~ai~al~~G~~Viv~Dd~~REnEgdlv~aAe~~T~e~v~fm~~-----~~~GliC~~~~~~~a~~L 67 (199)
T TIGR00506 4 RVEEALEALKKGEIVLVYDDEDRENEGDLIVAAEFITPEQIAFMRR-----HAGGLICVAITPDIADKL 67 (199)
T ss_pred hHHHHHHHHHCCCeEEEEeCCCCCccEeEEEEhhhCCHHHHHHHHH-----hCCCCEEEECCHHHHhhC
Confidence 5899999999999999876532 445555556654444433 133555555455555554
No 35
>PF00926 DHBP_synthase: 3,4-dihydroxy-2-butanone 4-phosphate synthase; InterPro: IPR000422 3,4-dihydroxy-2-butanone 4-phosphate synthase (4.1.99.12 from EC) (DHBP synthase) (RibB) catalyses the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate, the latter serving as the biosynthetic precursor for the xylene ring of riboflavin []. In Photobacterium leiognathi, the riboflavin synthesis genes ribB (DHBP synthase), ribE (riboflavin synthase), ribH (lumazone synthase) and ribA (GTP cyclohydrolase II) all reside in the lux operon []. RibB is sometimes found as a bifunctional enzyme with GTP cyclohydrolase II that catalyses the first committed step in the biosynthesis of riboflavin (IPR000926 from INTERPRO). No sequences with significant homology to DHBP synthase are found in the metazoa.; GO: 0008686 3,4-dihydroxy-2-butanone-4-phosphate synthase activity, 0009231 riboflavin biosynthetic process; PDB: 1K4O_A 1K4L_A 1K4P_A 1K49_A 1K4I_A 1TKU_A 1TKS_B 2RIS_A 2RIU_A 3MIO_A ....
Probab=23.94 E-value=2.1e+02 Score=24.55 Aligned_cols=38 Identities=21% Similarity=0.196 Sum_probs=24.2
Q ss_pred HHHHHHHHHcCCeEEEecC------cEEEEeccCCChHHHHHHH
Q psy198 37 ALLAAQCLKKGCVVALPTD------TLYGLACDATNSKAINILY 74 (245)
Q Consensus 37 i~~a~~~L~~GgvVi~PTd------TvYgL~a~a~n~~Av~rI~ 74 (245)
+++|++.|++|+.|++=.| +..-+.|..-+++.+.-+.
T Consensus 1 ie~ai~al~~G~~Viv~D~~~rE~egdlv~aAe~~t~e~v~fm~ 44 (194)
T PF00926_consen 1 IEEAIEALKAGKPVIVVDDEDRENEGDLVFAAEFVTPEKVNFMI 44 (194)
T ss_dssp HHHHHHHHHTTS-EEEECSSTTT-EEEEEEEGGG--HHHHHHHH
T ss_pred CHHHHHHHHCCCeEEEEeCCCCCcceeEEeEHHhCCHHHHHHHH
Confidence 5789999999999998775 3455555555554444443
No 36
>KOG3999|consensus
Probab=22.26 E-value=98 Score=28.11 Aligned_cols=35 Identities=23% Similarity=0.420 Sum_probs=28.5
Q ss_pred CeEEEEecCcHHHHHHHHHcCC--CeeeccCCCCCCC
Q psy198 136 TKVAVRIPDHKFLRQLLKLMDS--PLALTSANESNEP 170 (245)
Q Consensus 136 ~tvgvRip~~~~~~~Li~~~g~--PL~sTSAN~SG~~ 170 (245)
..+.|-+|+-.+++.+++.+.. +.+--+||.||+-
T Consensus 156 ~dl~I~lP~l~~lk~~vdk~Knis~~l~~tan~~GeL 192 (284)
T KOG3999|consen 156 PDLSIQLPDLNQLKSFVDKMKNISDVLNVTANKSGEL 192 (284)
T ss_pred CCcceeCCCHHHHHHHHHHhhcccceEEEEEecCceE
Confidence 3477889999999999997632 6777789999994
No 37
>PF03279 Lip_A_acyltrans: Bacterial lipid A biosynthesis acyltransferase; InterPro: IPR004960 Bacterial lipopolysachharides (LPS) are glycolipids that make up the outer monolayer of the outer membranes of most Gram-negative bacteria. Though LPS moleculesare variable, they all show the same general features: an outer polysaccharide which is attached to the lipid component, termed lipid A []. The polysaccharide component consists of a variable repeat-structure polysaccharide known as the O-antigen, and a highly conserved short core oligosaccharide which connects the O-antigen to lipid A. Lipid A is a glucosamine-based phospholipid that makes up the membrane anchor region of LPS []. The structure of lipid A is relatively invariant between species, presumably reflecting its fundamental role in membrane integrity. Recognition of lipid A by the innate immune system can lead to a response even at picomolar levels. In some genera, such as Neisseria and Haemophilus, lipooligosaccharides (LOS) are the predominant glycolipids []. These are analogous to LPS except that they lack O-antigens, with the LOS oligosaccharide structures limited to 10 saccharide units. The bacterial lipid A biosynthesis protein, or lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase 2.3.1 from EC, transfers myristate or laurate, activated on ACP, to the lipid IVA moiety of (KDO)2-(lauroyl)-lipid IVA during lipopolysaccharide core biosynthesis.; GO: 0016746 transferase activity, transferring acyl groups, 0009244 lipopolysaccharide core region biosynthetic process, 0016021 integral to membrane
Probab=21.82 E-value=73 Score=28.31 Aligned_cols=22 Identities=27% Similarity=0.323 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHcCCeEEEecCc
Q psy198 35 KAALLAAQCLKKGCVVALPTDT 56 (245)
Q Consensus 35 ~~i~~a~~~L~~GgvVi~PTdT 56 (245)
+.+.++.+.|++|++|++-.|-
T Consensus 179 ~~~~~~~~~Lk~g~~v~~l~Dq 200 (295)
T PF03279_consen 179 EGIRELIRALKEGGIVGLLGDQ 200 (295)
T ss_pred hhHHHHHHHhccCCEEEEEECC
Confidence 3477888888888888777773
No 38
>COG1623 Predicted nucleic-acid-binding protein (contains the HHH domain) [General function prediction only]
Probab=21.49 E-value=3.6e+02 Score=25.03 Aligned_cols=89 Identities=11% Similarity=0.193 Sum_probs=52.1
Q ss_pred hHHHHHHHHHhCCCCCCCcEEEeCCcCccccccc------cCchHHHHHHh-hCCCCEEE------EecCCCc-cccccC
Q psy198 67 SKAINILYEIKKRDVNKPLAICVSEITDIPKWAD------THTVSFELLAE-LLPGPVTI------VFNRSEH-LNLELN 132 (245)
Q Consensus 67 ~~Av~rI~~iK~R~~~Kpl~ll~~s~~~l~~~~~------~~~~~~~l~~~-~wPGplTl------Il~~~~~-lp~~l~ 132 (245)
.+++++|.+.| .-.++++..| +.+++.++ .+=.+.++.+- .+.|.+.+ |+.++-. .|+.--
T Consensus 25 R~Gld~Ilra~----tGaLIvlG~d-e~v~~i~DGGF~ld~~fsa~~lyEL~KMDGAIILs~D~~kI~yANvqL~PD~si 99 (349)
T COG1623 25 RDGLDNILRAN----TGALIVLGDD-ENVEKICDGGFSLDVDFSATRLYELAKMDGAIILSDDGSKILYANVQLVPDPSI 99 (349)
T ss_pred HHHHHHHHhcc----CCeEEEEecc-hhhHhhhcCcEEEeccCCHHHHHHHHhcCCcEEEcCccceeeeeeeeecCCCCC
Confidence 46777777554 5568888876 77777653 11112233222 26776543 3333322 233221
Q ss_pred CCCCeEEEEecCcHHHHHHHHHcCCCeeeccC
Q psy198 133 PNVTKVAVRIPDHKFLRQLLKLMDSPLALTSA 164 (245)
Q Consensus 133 ~~~~tvgvRip~~~~~~~Li~~~g~PL~sTSA 164 (245)
..+.-|.| |..+.+...+.|.|+++-|-
T Consensus 100 -pT~EtGtR---HRTAER~AkqTG~~VIaiS~ 127 (349)
T COG1623 100 -PTDETGTR---HRTAERVAKQTGNPVIAISE 127 (349)
T ss_pred -CCCCCccc---cchHHHHHHHhCCeEEEEec
Confidence 22334667 88999999999999998875
No 39
>COG4506 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.43 E-value=83 Score=25.73 Aligned_cols=23 Identities=13% Similarity=0.203 Sum_probs=19.0
Q ss_pred CCCCeEEEEEeCCceEEEecCCCh
Q psy198 199 RFGSTIVDLSEENVYSIVRKGVCY 222 (245)
Q Consensus 199 ~~~STIVd~~~~~~~~ilR~G~~~ 222 (245)
+.--|++++. ++++.++|.|++.
T Consensus 52 g~v~TtlKi~-d~e~~liR~G~v~ 74 (143)
T COG4506 52 GTVVTTLKID-DDELLLIRSGDVN 74 (143)
T ss_pred ceeEEEEEEc-CCEEEEEEcccch
Confidence 3444999998 8999999999873
No 40
>PRK10148 hypothetical protein; Provisional
Probab=20.77 E-value=1.6e+02 Score=23.75 Aligned_cols=28 Identities=7% Similarity=0.031 Sum_probs=21.9
Q ss_pred cccCCCHHHHHHHHHHHHcCCeEEEecC
Q psy198 28 IVKVTDPKAALLAAQCLKKGCVVALPTD 55 (245)
Q Consensus 28 ~~~~~~~~~i~~a~~~L~~GgvVi~PTd 55 (245)
.++..+.+.++++.+.|.+||-|+.|=+
T Consensus 90 ~l~~~d~ee~~~~~~aLa~gg~v~mpl~ 117 (147)
T PRK10148 90 VLDTQDVEEGKRWFDNLAANGKIEMAWQ 117 (147)
T ss_pred EEECCCHHHHHHHHHHhhCCCEEEecch
Confidence 4466677888899999999998876643
No 41
>TIGR00091 tRNA (guanine-N(7)-)-methyltransferase. In E. coli, this protein flanks the DNA repair protein MutY, also called micA.
Probab=20.73 E-value=1.1e+02 Score=25.61 Aligned_cols=24 Identities=38% Similarity=0.386 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHcCCeEEEecCcE
Q psy198 34 PKAALLAAQCLKKGCVVALPTDTL 57 (245)
Q Consensus 34 ~~~i~~a~~~L~~GgvVi~PTdTv 57 (245)
.+.++++.++|+.||.+.+-||..
T Consensus 112 ~~~l~~~~r~LkpgG~l~~~td~~ 135 (194)
T TIGR00091 112 PHFLKEYANVLKKGGVIHFKTDNE 135 (194)
T ss_pred HHHHHHHHHHhCCCCEEEEEeCCH
Confidence 467899999999999999988654
Done!