Query 029025
Match_columns 200
No_of_seqs 113 out of 1196
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 06:17:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029025.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029025hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1324 Dihydrofolate reductas 100.0 1.2E-33 2.5E-38 235.2 11.1 123 78-200 1-123 (190)
2 PF00186 DHFR_1: Dihydrofolate 100.0 2.6E-30 5.7E-35 212.0 11.1 104 80-200 1-104 (161)
3 PRK10769 folA dihydrofolate re 100.0 8.5E-29 1.9E-33 202.7 10.5 100 81-200 2-101 (159)
4 COG0262 FolA Dihydrofolate red 100.0 6.2E-28 1.3E-32 198.4 11.0 107 80-200 1-108 (167)
5 PTZ00164 bifunctional dihydrof 99.9 3.3E-27 7.2E-32 223.3 12.7 119 78-200 7-131 (514)
6 PRK00478 scpA segregation and 99.9 2.3E-25 5E-30 210.4 10.6 103 81-200 2-104 (505)
7 cd00209 DHFR Dihydrofolate red 99.9 6E-25 1.3E-29 178.0 10.9 104 81-200 1-104 (158)
8 PF01872 RibD_C: RibD C-termin 99.2 3E-11 6.6E-16 99.9 8.0 111 79-199 1-147 (200)
9 TIGR00227 ribD_Cterm riboflavi 98.9 1E-08 2.3E-13 85.8 9.0 111 79-199 3-154 (216)
10 TIGR00326 eubact_ribD riboflav 98.8 3.3E-08 7.2E-13 89.3 8.8 111 79-199 141-285 (344)
11 PRK05625 5-amino-6-(5-phosphor 98.7 9.8E-08 2.1E-12 80.5 9.8 110 79-199 3-153 (217)
12 PRK14059 hypothetical protein; 97.3 0.0031 6.6E-08 55.2 10.8 51 78-134 30-81 (251)
13 TIGR01508 rib_reduct_arch 2,5- 97.1 0.0072 1.6E-07 51.1 10.7 107 81-199 3-149 (210)
14 PRK14719 bifunctional RNAse/5- 97.0 0.013 2.8E-07 54.1 12.3 51 78-134 139-190 (360)
15 PRK10786 ribD bifunctional dia 96.6 0.023 5E-07 52.3 10.7 111 79-199 147-305 (367)
16 COG1985 RibD Pyrimidine reduct 95.5 0.095 2.1E-06 45.2 8.8 109 80-199 5-155 (218)
17 PLN02807 diaminohydroxyphospho 90.9 2.4 5.2E-05 39.5 10.2 104 78-195 175-313 (380)
18 PF08353 DUF1727: Domain of un 64.4 18 0.00039 28.2 5.1 85 81-194 22-108 (113)
19 TIGR03609 S_layer_CsaB polysac 45.1 29 0.00063 30.0 3.9 48 144-199 27-76 (298)
20 PF01344 Kelch_1: Kelch motif; 33.9 22 0.00049 21.9 1.0 11 187-197 11-21 (47)
21 PF06459 RR_TM4-6: Ryanodine R 30.2 25 0.00055 31.6 1.1 21 17-37 160-180 (274)
22 PF13964 Kelch_6: Kelch motif 26.3 41 0.00089 21.3 1.3 11 187-197 11-21 (50)
23 PF02751 TFIIA_gamma_C: Transc 21.5 73 0.0016 21.8 1.8 39 45-85 11-49 (52)
24 PRK10017 colanic acid biosynth 21.1 1.3E+02 0.0028 28.4 4.1 34 124-157 2-45 (426)
No 1
>KOG1324 consensus Dihydrofolate reductase [Coenzyme transport and metabolism]
Probab=100.00 E-value=1.2e-33 Score=235.16 Aligned_cols=123 Identities=55% Similarity=0.938 Sum_probs=115.2
Q ss_pred CccEEEEEEEeCCCeeecCCCCCCcChhhHHHHHHHhhCCCCCCCccEEEEchhhhhhhcCCCCCCCCCeEEEEcCCCCC
Q 029025 78 RRPYQVVVAATHDMGIGKDGKLPWNLPSDLKFFKQLTMSTSDPGKRNAVVMGRKTWESISPLYRPLPGRLNVVLTHSGSF 157 (200)
Q Consensus 78 mrkI~livAvSlDG~IG~~G~LpW~l~eD~~fF~~~T~~~~~p~k~daVIMGRkTyEsi~~~~~pl~~r~~IVlSrt~~~ 157 (200)
|+.+.++||++.+++||++|+|||+++.|++||++.|+.+++|+|.++|||||||||++|.+.+||++|.|||+||+...
T Consensus 1 ~~~~~~Vva~~~~mGIGk~g~LPW~lpsemkyF~~vT~~tsd~~k~NaViMGRKtweSiP~k~RPL~gRiNiVLSR~~~~ 80 (190)
T KOG1324|consen 1 MRLLNLVVALSPNMGIGKNGDLPWPLPSEMKYFRRVTTSTSDPSKKNAVIMGRKTWESIPEKFRPLPGRINVVLSRSLKE 80 (190)
T ss_pred CceeEEEEEEccccCcccCCCCCCCCHHHHHHHHHHhhccCCcccceeEEecccccccCCcccCCCCCceEEEEecccCc
Confidence 57889999999999999999999999999999999999999999999999999999999999999999999999999886
Q ss_pred cccCCCCeEEeCCHHHHHHHhcCCCCCCCCCcEEEEeCccccC
Q 029025 158 NIASLENVEICRSIHLALELLAEPPYCSSIEKVFVIGGGQILR 200 (200)
Q Consensus 158 ~~~~~~~v~V~~sl~eaI~~Lk~~~~~~~~kdI~ViGGa~IY~ 200 (200)
+....++++++.+++.|++.|.++|.+.+.+.|||+||+++|+
T Consensus 81 ~~~~t~~~~~~~slesAl~lL~~pp~~~~ve~vfvIGG~~vy~ 123 (190)
T KOG1324|consen 81 DFAPTENVFLSSSLESALDLLEEPPSSNSVEMVFVIGGSEVYS 123 (190)
T ss_pred CcCCccCEEEeccHHHHHHhhcCCccccceeEEEEEcCHHHHH
Confidence 5444567999999999999999998888889999999999984
No 2
>PF00186 DHFR_1: Dihydrofolate reductase; InterPro: IPR001796 Dihydrofolate reductase (DHFR) (1.5.1.3 from EC) catalyses the NADPH-dependent reduction of dihydrofolate to tetrahydrofolate, an essential step in de novo synthesis both of glycine and of purines and deoxythymidine phosphate (the precursors of DNA synthesis) [], and important also in the conversion of deoxyuridine monophosphate to deoxythymidine monophosphate. Although DHFR is found ubiquitously in prokaryotes and eukaryotes, and is found in all dividing cells, maintaining levels of fully reduced folate coenzymes, the catabolic steps are still not well understood []. Bacterial species possesses distinct DHFR enzymes (based on their pattern of binding diaminoheterocyclic molecules), but mammalian DHFRs are highly similar []. The active site is situated in the N-terminal half of the sequence, which includes a conserved Pro-Trp dipeptide; the tryptophan has been shown [] to be involved in the binding of substrate by the enzyme. Its central role in DNA precursor synthesis, coupled with its inhibition by antagonists such as trimethoprim and methotrexate, which are used as anti-bacterial or anti-cancer agents, has made DHFR a target of anticancer chemotherapy. However, resistance has developed against some drugs, as a result of changes in DHFR itself [].; GO: 0004146 dihydrofolate reductase activity, 0006545 glycine biosynthetic process, 0009165 nucleotide biosynthetic process, 0055114 oxidation-reduction process; PDB: 1ZDR_B 3SA2_B 3JWK_B 3E0B_A 3S9U_B 3FL9_H 3FL8_F 2QK8_A 3JW3_A 3SA1_B ....
Probab=99.97 E-value=2.6e-30 Score=211.98 Aligned_cols=104 Identities=53% Similarity=0.917 Sum_probs=92.8
Q ss_pred cEEEEEEEeCCCeeecCCCCCCcChhhHHHHHHHhhCCCCCCCccEEEEchhhhhhhcCCCCCCCCCeEEEEcCCCCCcc
Q 029025 80 PYQVVVAATHDMGIGKDGKLPWNLPSDLKFFKQLTMSTSDPGKRNAVVMGRKTWESISPLYRPLPGRLNVVLTHSGSFNI 159 (200)
Q Consensus 80 kI~livAvSlDG~IG~~G~LpW~l~eD~~fF~~~T~~~~~p~k~daVIMGRkTyEsi~~~~~pl~~r~~IVlSrt~~~~~ 159 (200)
+|++|+|++.||+||++|+|||++|+|+++|+++|++ ++|||||||||++|. .|||+|.+|||||+...+
T Consensus 1 mi~lI~A~~~n~~IG~~~~lPW~~p~Dl~~Fk~~T~~-------~~vIMGrkT~eslp~--~pLp~R~niVlSr~~~~~- 70 (161)
T PF00186_consen 1 MISLIVAVDKNGGIGKDGKLPWHLPEDLKFFKKLTTG-------NPVIMGRKTFESLPF--RPLPGRINIVLSRNPDYE- 70 (161)
T ss_dssp -EEEEEEEETTSEEEBTTBSSSSSHHHHHHHHHHHTT-------CEEEEEHHHHHHSTG--SSBTTSEEEEESSSTTSC-
T ss_pred CEEEEEEECCCCcccCCCccccccHHHHHHHHHccCC-------ccEEEeeCchhcCCc--cCCCCCeEEEEEcCcccc-
Confidence 4889999999999999999999999999999999986 999999999999993 699999999999998754
Q ss_pred cCCCCeEEeCCHHHHHHHhcCCCCCCCCCcEEEEeCccccC
Q 029025 160 ASLENVEICRSIHLALELLAEPPYCSSIEKVFVIGGGQILR 200 (200)
Q Consensus 160 ~~~~~v~V~~sl~eaI~~Lk~~~~~~~~kdI~ViGGa~IY~ 200 (200)
.+++.++.|++++++.+++ ..++|||+||++||+
T Consensus 71 --~~~~~~~~s~~~al~~~~~-----~~~~i~ViGG~~iy~ 104 (161)
T PF00186_consen 71 --PEGVEVVSSLEEALELAKD-----KDEEIFVIGGAEIYE 104 (161)
T ss_dssp --TTTSEEESSHHHHHHHHTT-----SESEEEEEE-HHHHH
T ss_pred --cCCceeeCCHHHHHHHhhc-----cCCcEEEECCHHHHH
Confidence 3588899999999996665 268999999999985
No 3
>PRK10769 folA dihydrofolate reductase; Provisional
Probab=99.96 E-value=8.5e-29 Score=202.68 Aligned_cols=100 Identities=40% Similarity=0.776 Sum_probs=89.4
Q ss_pred EEEEEEEeCCCeeecCCCCCCcChhhHHHHHHHhhCCCCCCCccEEEEchhhhhhhcCCCCCCCCCeEEEEcCCCCCccc
Q 029025 81 YQVVVAATHDMGIGKDGKLPWNLPSDLKFFKQLTMSTSDPGKRNAVVMGRKTWESISPLYRPLPGRLNVVLTHSGSFNIA 160 (200)
Q Consensus 81 I~livAvSlDG~IG~~G~LpW~l~eD~~fF~~~T~~~~~p~k~daVIMGRkTyEsi~~~~~pl~~r~~IVlSrt~~~~~~ 160 (200)
+.+|+|++.||+||++|+|||++|+|++||+++|.+ +++||||||||+++ +|||+|++||+||++..
T Consensus 2 i~~I~A~~~~~~IG~~~~lPW~~~~D~~~Fk~~T~~-------~~vIMGRkTyes~~---~plp~r~~iVlSr~~~~--- 68 (159)
T PRK10769 2 ISLIAALAVDRVIGMENAMPWNLPADLAWFKRNTLN-------KPVIMGRHTWESIG---RPLPGRKNIVISSQPGT--- 68 (159)
T ss_pred EEEEEEECCCCcEecCCCcCcCCHHHHHHHHHHhCC-------CeEEEeHHHHHhhh---hhcCCCcEEEECCCCCC---
Confidence 789999999999999999999999999999999986 99999999999997 69999999999997531
Q ss_pred CCCCeEEeCCHHHHHHHhcCCCCCCCCCcEEEEeCccccC
Q 029025 161 SLENVEICRSIHLALELLAEPPYCSSIEKVFVIGGGQILR 200 (200)
Q Consensus 161 ~~~~v~V~~sl~eaI~~Lk~~~~~~~~kdI~ViGGa~IY~ 200 (200)
.+++.++.+++++++.+++ .++|||+||+++|+
T Consensus 69 -~~~v~~~~~l~~~l~~~~~------~~~I~viGG~~iy~ 101 (159)
T PRK10769 69 -DDRVTWVKSVDEALAAAGD------VPEIMVIGGGRVYE 101 (159)
T ss_pred -CCCEEEECCHHHHHHHhcC------CCCEEEECcHHHHH
Confidence 4678888899999987653 46899999999984
No 4
>COG0262 FolA Dihydrofolate reductase [Coenzyme metabolism]
Probab=99.95 E-value=6.2e-28 Score=198.36 Aligned_cols=107 Identities=46% Similarity=0.780 Sum_probs=96.0
Q ss_pred cEEEEEEEeCCCeeecCCCCCCcChhhHHHHHHHhhCCCCCCCccEEEEchhhhhhhcCCCCCCCCCeEEEEcCCCCCcc
Q 029025 80 PYQVVVAATHDMGIGKDGKLPWNLPSDLKFFKQLTMSTSDPGKRNAVVMGRKTWESISPLYRPLPGRLNVVLTHSGSFNI 159 (200)
Q Consensus 80 kI~livAvSlDG~IG~~G~LpW~l~eD~~fF~~~T~~~~~p~k~daVIMGRkTyEsi~~~~~pl~~r~~IVlSrt~~~~~ 159 (200)
+|++++|+|+||+||.+|+|||++++|+++|++.|.+ +.|||||||||+++.+..||++|.++|+||+....
T Consensus 1 ~i~~i~A~s~dG~Ig~~~~lpW~~~~~~~~Fk~~t~~-------~~viMGRkT~esl~~~~~pl~~r~~iV~sr~~~~~- 72 (167)
T COG0262 1 MIILIVAVSLDGVIGRDNSLPWHLPEDLAHFKATTLG-------KPVIMGRKTYESLPGEWRPLPGRKNIVLSRNPDLK- 72 (167)
T ss_pred CEEEEEEEcCCCeeecCCCCCCCChhHHHHHHHhhCC-------CCEEEccchhhhccccCCCCCCCeEEEEecCcccc-
Confidence 4789999999999999999999999999999999986 66999999999999765699999999999995443
Q ss_pred cCCCC-eEEeCCHHHHHHHhcCCCCCCCCCcEEEEeCccccC
Q 029025 160 ASLEN-VEICRSIHLALELLAEPPYCSSIEKVFVIGGGQILR 200 (200)
Q Consensus 160 ~~~~~-v~V~~sl~eaI~~Lk~~~~~~~~kdI~ViGGa~IY~ 200 (200)
.++ +++.+|+++++..+++. .+++|||+||+++|+
T Consensus 73 --~e~~~~v~~s~~~al~~~~~~----~~~~i~IiGG~~l~~ 108 (167)
T COG0262 73 --TEGGVEVVDSIEEALLLLLKE----EGEDIFIIGGGELYR 108 (167)
T ss_pred --cCCCEEEeCCHHHHHHHHhhc----CCCeEEEEcCHHHHH
Confidence 455 89999999999999875 489999999999984
No 5
>PTZ00164 bifunctional dihydrofolate reductase-thymidylate synthase; Provisional
Probab=99.94 E-value=3.3e-27 Score=223.29 Aligned_cols=119 Identities=46% Similarity=0.770 Sum_probs=104.1
Q ss_pred CccEEEEEEEeCCCeeecCCCCCCcChhhHHHHHHHhhCC------CCCCCccEEEEchhhhhhhcCCCCCCCCCeEEEE
Q 029025 78 RRPYQVVVAATHDMGIGKDGKLPWNLPSDLKFFKQLTMST------SDPGKRNAVVMGRKTWESISPLYRPLPGRLNVVL 151 (200)
Q Consensus 78 mrkI~livAvSlDG~IG~~G~LpW~l~eD~~fF~~~T~~~------~~p~k~daVIMGRkTyEsi~~~~~pl~~r~~IVl 151 (200)
.+++++|+|++.+|+||++|+|||++|+|++||+++|+++ ++|++.++|||||||||+++...+||++|.+||+
T Consensus 7 ~~~i~lIvA~~~n~~IG~~g~LPW~lpeDlk~Fk~~T~~~~~~~~~~~~~~~~~VIMGRkTyESip~~~rPLp~R~nIVL 86 (514)
T PTZ00164 7 LKDFSIVVAVTLKRGIGIGNSLPWHIPEDMKFFSKITTYVREEKYEKSPKKQNAVIMGRKTWESIPKKFRPLKNRINVVL 86 (514)
T ss_pred CCCEEEEEEECCCCCeeCCCCCCcCCHHHHHHHHHHhccccccccccccCCCcEEEEcHHHHHhhhhhccccCCCeEEEE
Confidence 7899999999999999999999999999999999999843 5788899999999999999855579999999999
Q ss_pred cCCCCCcccCCCCeEEeCCHHHHHHHhcCCCCCCCCCcEEEEeCccccC
Q 029025 152 THSGSFNIASLENVEICRSIHLALELLAEPPYCSSIEKVFVIGGGQILR 200 (200)
Q Consensus 152 Srt~~~~~~~~~~v~V~~sl~eaI~~Lk~~~~~~~~kdI~ViGGa~IY~ 200 (200)
||++.... ..+++.++++++++++.+++.+ +.++|||+||+++|+
T Consensus 87 Sr~~~~~~-~~~~v~v~~sl~eal~~lk~~~---~~~dI~VIGG~~Iy~ 131 (514)
T PTZ00164 87 SRTLTEEE-ADPGVLVFGSLEDALRLLAEDL---SIEKIFIIGGASVYR 131 (514)
T ss_pred cCCCCccc-CCCCEEEeCCHHHHHHHHhccC---CCCcEEEEchHHHHH
Confidence 99875421 2356889999999999998742 468999999999984
No 6
>PRK00478 scpA segregation and condensation protein A/unknown domain fusion protein; Provisional
Probab=99.92 E-value=2.3e-25 Score=210.44 Aligned_cols=103 Identities=21% Similarity=0.489 Sum_probs=89.1
Q ss_pred EEEEEEEeCCCeeecCCCCCCcChhhHHHHHHHhhCCCCCCCccEEEEchhhhhhhcCCCCCCCCCeEEEEcCCCCCccc
Q 029025 81 YQVVVAATHDMGIGKDGKLPWNLPSDLKFFKQLTMSTSDPGKRNAVVMGRKTWESISPLYRPLPGRLNVVLTHSGSFNIA 160 (200)
Q Consensus 81 I~livAvSlDG~IG~~G~LpW~l~eD~~fF~~~T~~~~~p~k~daVIMGRkTyEsi~~~~~pl~~r~~IVlSrt~~~~~~ 160 (200)
|++|+|++.+|+||++|.|||++|+|++||+++|.+ ++|||||||||+++ .|+|+|++||+||+......
T Consensus 2 i~lI~A~~~n~~IG~~~~LPW~~peDl~~Fk~~T~~-------~tVVMGRkTyEsi~---~~Lp~R~niVlSr~~~~~~~ 71 (505)
T PRK00478 2 IKLIWCEDLNFGIAKNNQIPWKIDEELNHFHQTTTN-------HTIVMGYNTFQAMN---KILANQANIVISKKHQRELK 71 (505)
T ss_pred EEEEEEECCCCcccCCCCCCCCCHHHHHHHHHHhCC-------CeEEEehHHHHhhh---hcCCCCeEEEECCCCccccC
Confidence 789999999999999999999999999999999986 99999999999998 48999999999998654211
Q ss_pred CCCCeEEeCCHHHHHHHhcCCCCCCCCCcEEEEeCccccC
Q 029025 161 SLENVEICRSIHLALELLAEPPYCSSIEKVFVIGGGQILR 200 (200)
Q Consensus 161 ~~~~v~V~~sl~eaI~~Lk~~~~~~~~kdI~ViGGa~IY~ 200 (200)
..+++.+++|++++++.. .+++|||+||+++|+
T Consensus 72 ~~~~v~v~~sl~~~L~~~-------~~~dI~IIGG~~Ly~ 104 (505)
T PRK00478 72 NNNELFVFNDLKKLLIDF-------SNVDLFIIGGKKTIE 104 (505)
T ss_pred CCCCeEEECCHHHHHHhC-------CCCCEEEEChHHHHH
Confidence 235788889999997643 246899999999984
No 7
>cd00209 DHFR Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-methylenetetrahydrofolate which is then utilized by thymidylate synthase. Inhibition of DHFR interrupts thymidilate synthesis and DNA replication, inhibitors of DHFR (such as Methotrexate) are used in cancer chemotherapy. 5,6,7,8-tetrahydrofolate also is involved in glycine, serine, and threonine metabolism and aminoacyl-tRNA biosynthesis.
Probab=99.92 E-value=6e-25 Score=178.03 Aligned_cols=104 Identities=50% Similarity=0.853 Sum_probs=91.1
Q ss_pred EEEEEEEeCCCeeecCCCCCCcChhhHHHHHHHhhCCCCCCCccEEEEchhhhhhhcCCCCCCCCCeEEEEcCCCCCccc
Q 029025 81 YQVVVAATHDMGIGKDGKLPWNLPSDLKFFKQLTMSTSDPGKRNAVVMGRKTWESISPLYRPLPGRLNVVLTHSGSFNIA 160 (200)
Q Consensus 81 I~livAvSlDG~IG~~G~LpW~l~eD~~fF~~~T~~~~~p~k~daVIMGRkTyEsi~~~~~pl~~r~~IVlSrt~~~~~~ 160 (200)
|++++|+|+||+||.++++||++++|+++|++.+++ +++||||||||+++. +|+|+++++|+||++...
T Consensus 1 i~~~~a~sldG~i~~~~~~~W~~~~d~~~f~~~~~~-------~~ivmGR~Tye~~~~--~~~~~~~~~V~S~~~~~~-- 69 (158)
T cd00209 1 ISLIVAVDENGVIGKDNKLPWHLPEDLKHFKKTTTG-------NPVIMGRKTFESIPR--RPLPGRTNIVLSRQLDYQ-- 69 (158)
T ss_pred CEEEEEECCCCceeCCCCcCcCCHHHHHHHHHHHCC-------CeEEEChhhHhhCCC--cCCCCCCEEEEccCCCcC--
Confidence 579999999999998777999999999999988864 999999999999974 589999999999987643
Q ss_pred CCCCeEEeCCHHHHHHHhcCCCCCCCCCcEEEEeCccccC
Q 029025 161 SLENVEICRSIHLALELLAEPPYCSSIEKVFVIGGGQILR 200 (200)
Q Consensus 161 ~~~~v~V~~sl~eaI~~Lk~~~~~~~~kdI~ViGGa~IY~ 200 (200)
+++++.+..++++++++++ . ++++|||+||+++|+
T Consensus 70 ~~~~~~~~~~~~~~v~~lk-~----~~~~I~v~GG~~l~~ 104 (158)
T cd00209 70 DAEGVEVVHSLEEALELAE-N----TVEEIFVIGGAEIYK 104 (158)
T ss_pred CCCCeEEECCHHHHHHHHh-c----CCCeEEEECcHHHHH
Confidence 3577877789999999999 3 478999999999874
No 8
>PF01872 RibD_C: RibD C-terminal domain; InterPro: IPR002734 This domain is found in the C terminus of the bifunctional deaminase-reductase of Escherichia coli, Bacillus subtilis and other bacteria in combination with IPR002125 from INTERPRO that catalyses the second and third steps in the biosynthesis of riboflavin, i.e., the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate (deaminase) and the subsequent reduction of the ribosyl side chain (reductase) []. The domain is also present in some HTP reductases from archaea and fungi.; GO: 0008703 5-amino-6-(5-phosphoribosylamino)uracil reductase activity, 0009231 riboflavin biosynthetic process, 0055114 oxidation-reduction process; PDB: 3KY8_B 3KGY_B 2GD9_B 3JTW_B 2XW7_B 2D5N_B 2B3Z_A 3EX8_B 2AZN_A 2P4G_A ....
Probab=99.23 E-value=3e-11 Score=99.88 Aligned_cols=111 Identities=25% Similarity=0.315 Sum_probs=78.9
Q ss_pred ccEEEEEEEeCCCee-ecCCCCCCcCh-hhHHHHHHHhhCCCCCCCccEEEEchhhhhhhcC----CCCCC---------
Q 029025 79 RPYQVVVAATHDMGI-GKDGKLPWNLP-SDLKFFKQLTMSTSDPGKRNAVVMGRKTWESISP----LYRPL--------- 143 (200)
Q Consensus 79 rkI~livAvSlDG~I-G~~G~LpW~l~-eD~~fF~~~T~~~~~p~k~daVIMGRkTyEsi~~----~~~pl--------- 143 (200)
+++++.+|+|+||+| +++++..|... ++.+++.++... .+++||||+|++.... ...+.
T Consensus 1 P~v~~~~a~SlDG~ia~~~~~~~~~~~~~~~~~~~~l~~~------~dail~G~~T~~~~~~~~~~~~~~~~~~~~~~~~ 74 (200)
T PF01872_consen 1 PKVILKMAMSLDGKIAGPDGDSGWLSGDEDREFLHELRSE------ADAILVGRNTVRADNPSLTVRWPGDPPPRERGRA 74 (200)
T ss_dssp -EEEEEEEEETTSEESSTTSCGCTSSSHHHHHHHHHHHHH------CSEEEEEHHHHHHHTHHTSSHSSTSSCHHCTTCH
T ss_pred CEEEEEEeeccCcCEECCCCCccCCCCHHHHHHHHHHHhh------CCEEEeccchhhhcCccccccCccccchhhhhhc
Confidence 579999999999999 57889999754 455666665542 5999999999986422 01111
Q ss_pred CCCeEEEEcCCCCCccc-C----CCCe-EEeCC---------------HHHHHHHhcCCCCCCCCCcEEEEeCcccc
Q 029025 144 PGRLNVVLTHSGSFNIA-S----LENV-EICRS---------------IHLALELLAEPPYCSSIEKVFVIGGGQIL 199 (200)
Q Consensus 144 ~~r~~IVlSrt~~~~~~-~----~~~v-~V~~s---------------l~eaI~~Lk~~~~~~~~kdI~ViGGa~IY 199 (200)
++.+.+|+|++...+.. . ...+ .++.. +.++++.|++. +.++|+|.||+++.
T Consensus 75 ~~p~~vV~s~~~~~~~~~~~~~~~~~~~v~~s~~~~~~~~~~l~v~~dl~~~l~~L~~~----g~~~i~v~GG~~l~ 147 (200)
T PF01872_consen 75 KQPPKVVVSRSLKLPPDARLFNDDKPVLVITSEKAPDEYLERLRVRVDLEEALRRLKER----GGKDILVEGGGSLN 147 (200)
T ss_dssp SSSEEEEEESTCCTTTTCCCCSSSSSEEEEEESTSSHHHHHHHHESEHHHHHHHHHHHT----TTSEEEEEEHHHHH
T ss_pred cCCeEEEEecccccccccccccCCCceEEEeecccccccccceEEecCHHHHHHHHHhc----CCCEEEEechHHHH
Confidence 67789999998763210 0 1122 33333 99999999996 78999999998764
No 9
>TIGR00227 ribD_Cterm riboflavin-specific deaminase C-terminal domain. Eubacterial riboflavin-specific deaminases have a zinc-binding domain recognized by the dCMP_cyt_deam model toward the N-terminus and this domain toward the C-terminus. Yeast HTP reductase, a riboflavin-biosynthetic enzyme, and several archaeal proteins believed related to riboflavin biosynthesis consist only of this domain and lack the dCMP_cyt_deam domain.
Probab=98.87 E-value=1e-08 Score=85.81 Aligned_cols=111 Identities=23% Similarity=0.251 Sum_probs=70.6
Q ss_pred ccEEEEEEEeCCCeee-cCCCCCCcC-hhhHHHHHHHhhCCCCCCCccEEEEchhhhhh----hcCC-------CCC---
Q 029025 79 RPYQVVVAATHDMGIG-KDGKLPWNL-PSDLKFFKQLTMSTSDPGKRNAVVMGRKTWES----ISPL-------YRP--- 142 (200)
Q Consensus 79 rkI~livAvSlDG~IG-~~G~LpW~l-~eD~~fF~~~T~~~~~p~k~daVIMGRkTyEs----i~~~-------~~p--- 142 (200)
..+.+.+|+|+||+|+ ++|+..|.- +++..++.+.... .|++||||+||+. +... ..|
T Consensus 3 P~v~~~~a~SlDG~ia~~~g~~~wi~~~~~~~~~~~lr~~------~DailvG~~T~~~d~p~l~~r~~~~~~~~~P~~v 76 (216)
T TIGR00227 3 PYVILKYAMSLDGKIATASGESSWITSEEARRDVHQLRAQ------SDAILVGSGTVLADDPRLTVRWVELDELRNPVRV 76 (216)
T ss_pred CEEEEEEEEcCCCCeeCCCCcccCcCCHHHHHHHHHHHhH------cCEEEECcCeEeccCCcceeeccCcccCCCCeEE
Confidence 3578999999999996 578888974 4444555544433 6999999999995 2110 000
Q ss_pred --------------CC-CCeEEEEcCCCCCccc----CCCCeEE----eC--CHHHHHHHhcCCCCCCCCCcEEEEeCcc
Q 029025 143 --------------LP-GRLNVVLTHSGSFNIA----SLENVEI----CR--SIHLALELLAEPPYCSSIEKVFVIGGGQ 197 (200)
Q Consensus 143 --------------l~-~r~~IVlSrt~~~~~~----~~~~v~V----~~--sl~eaI~~Lk~~~~~~~~kdI~ViGGa~ 197 (200)
+. ..+.+|+|+....+.. ...++.+ .+ ++.++++.|++. +.++|+|.||++
T Consensus 77 v~~~~~~~~~~~~~~~~~~~~~v~t~~~~~~~~~~~~~~~g~~~i~~~~~~~dl~~~l~~L~~~----g~~~llveGG~~ 152 (216)
T TIGR00227 77 VLDSQLRVPPTARLLNDDAPTWVATTEPADEEKVKELEDFGVEVLVLETKRVDLKKLMEILYEE----GINSVMVEGGGT 152 (216)
T ss_pred EECCCCCCCcccccccCCCCEEEEEcCCCCHHHHHHHHHCCcEEEECCCCCcCHHHHHHHHHHc----CCCEEEEeeCHH
Confidence 11 1345666654311100 0112322 23 799999999875 688999999998
Q ss_pred cc
Q 029025 198 IL 199 (200)
Q Consensus 198 IY 199 (200)
+.
T Consensus 153 L~ 154 (216)
T TIGR00227 153 LN 154 (216)
T ss_pred HH
Confidence 64
No 10
>TIGR00326 eubact_ribD riboflavin biosynthesis protein RibD. This model describes the ribD protein as found in Escherichia coli. The N-terminal domain includes the conserved zinc-binding site region captured in the model dCMP_cyt_deam and shared by proteins such as cytosine deaminase, mammalian apolipoprotein B mRNA editing protein, blasticidin-S deaminase, and Bacillus subtilis competence protein comEB. The C-terminal domain is homologous to the full length of yeast HTP reductase, a protein required for riboflavin biosynthesis. A number of archaeal proteins believed related to riboflavin biosynthesis contain only this C-terminal domain and are not found as full-length matches to this model.
Probab=98.75 E-value=3.3e-08 Score=89.28 Aligned_cols=111 Identities=22% Similarity=0.212 Sum_probs=70.1
Q ss_pred ccEEEEEEEeCCCeee-cCCCCCCcChh-hHHHHHHHhhCCCCCCCccEEEEchhhhhhhcCC---CCCC----------
Q 029025 79 RPYQVVVAATHDMGIG-KDGKLPWNLPS-DLKFFKQLTMSTSDPGKRNAVVMGRKTWESISPL---YRPL---------- 143 (200)
Q Consensus 79 rkI~livAvSlDG~IG-~~G~LpW~l~e-D~~fF~~~T~~~~~p~k~daVIMGRkTyEsi~~~---~~pl---------- 143 (200)
.-+++.+|+|+||+|+ ++|+..|.-.+ +..++.++... .|++||||+||+..... .+|.
T Consensus 141 P~v~~~~a~SLDG~Ia~~~g~~~wi~~~~~~~~~~~lra~------~DailvG~~T~~~d~p~l~~r~~~~~~~P~~vV~ 214 (344)
T TIGR00326 141 PYVQLKLAASLDGKIATASGESKWITSEAARTDAQQLRAQ------SDAILVGGGTVKADNPALTARLDEATEQPLRVVL 214 (344)
T ss_pred CEEEEEEeeCCCCCccccCCCccccCCHHHHHHHHHHHHH------CCEEEEChhhHhHhCCcccccCCCCCCCCeEEEE
Confidence 3578899999999995 67888997543 44554444332 59999999999942110 1110
Q ss_pred --------------CCCeEEEEcCCCCCcc-cCCCCeEEe----CCHHHHHHHhcCCCCCCCCCcEEEEeCcccc
Q 029025 144 --------------PGRLNVVLTHSGSFNI-ASLENVEIC----RSIHLALELLAEPPYCSSIEKVFVIGGGQIL 199 (200)
Q Consensus 144 --------------~~r~~IVlSrt~~~~~-~~~~~v~V~----~sl~eaI~~Lk~~~~~~~~kdI~ViGGa~IY 199 (200)
...+++|+|++..... ....++.+. .|+.++++.|++. +.++|+|.||+.+.
T Consensus 215 d~~~~~~~~~~~~~~~~~~~V~s~~~~~~~~~~~~~v~v~~~~~~dl~~~l~~L~~~----g~~~ilveGG~~L~ 285 (344)
T TIGR00326 215 DTQLRIPEFAKLIPQIAPTWIFTTARDKKKRLEAFEVNIFPLEKVTIREVMTQLGKR----GINSVLVEGGPNLL 285 (344)
T ss_pred cCCCCCCCcchhhcCCCCEEEEECChhhhhHHhhCCeEEecCCCCCHHHHHHHHHhC----CCCEEEEeeHHHHH
Confidence 0234556665421100 001123222 3799999999875 78999999998764
No 11
>PRK05625 5-amino-6-(5-phosphoribosylamino)uracil reductase; Validated
Probab=98.71 E-value=9.8e-08 Score=80.47 Aligned_cols=110 Identities=23% Similarity=0.209 Sum_probs=69.4
Q ss_pred ccEEEEEEEeCCCeee-cCCCCCCcC-hhhHHHHHHHhhCCCCCCCccEEEEchhhhhhhcCC-----------------
Q 029025 79 RPYQVVVAATHDMGIG-KDGKLPWNL-PSDLKFFKQLTMSTSDPGKRNAVVMGRKTWESISPL----------------- 139 (200)
Q Consensus 79 rkI~livAvSlDG~IG-~~G~LpW~l-~eD~~fF~~~T~~~~~p~k~daVIMGRkTyEsi~~~----------------- 139 (200)
..+.+.+|+|+||.|+ .+|+- |.- +++..++.++-.. .|++|||++|++.-...
T Consensus 3 P~v~~k~a~SlDG~Ia~~~g~~-~it~~~~~~~~~~lR~~------~DaiLvG~~T~~~d~p~l~~~R~~~~~~~~P~~v 75 (217)
T PRK05625 3 PYVIVNAAMSADGKLATKTRYS-RISGPEDFDRVHELRAE------VDAVMVGIGTVLADDPSLTVHRYAAGKPENPIRV 75 (217)
T ss_pred CEEEEeeEecCCCceeCCCCCC-CcCCHHHHHHHHHHHHH------CCEEEEccceEEccCCcceeeeccCCCCCCCEEE
Confidence 4678999999999995 57777 974 4556655555432 59999999999852000
Q ss_pred -----------CCCCC-CCeEEEEcCCCCCccc----CCCCeEEe------CCHHHHHHHhcCCCCCCCCCcEEEEeCcc
Q 029025 140 -----------YRPLP-GRLNVVLTHSGSFNIA----SLENVEIC------RSIHLALELLAEPPYCSSIEKVFVIGGGQ 197 (200)
Q Consensus 140 -----------~~pl~-~r~~IVlSrt~~~~~~----~~~~v~V~------~sl~eaI~~Lk~~~~~~~~kdI~ViGGa~ 197 (200)
.+.+. ..+.+|+|+....... ...++.+. .++.++++.|++. +.++|||.||++
T Consensus 76 Vld~~~~l~~~~~~~~~~~~~~v~t~~~~~~~~~~~l~~~~~~v~~~~~~~~dl~~~l~~L~~~----g~~~vlveGG~~ 151 (217)
T PRK05625 76 VVDSSARTPPDARILDGPAKTIVAVSEAAPSEKVEELEKKGAEVIVAGGERVDLPDLLEDLYER----GIKRLMVEGGGT 151 (217)
T ss_pred EECCCCCCCCcccccCCCCCEEEEEcCCCCHHHHHHHHHCCCEEEEeCCCCcCHHHHHHHHHHC----CCCEEEEecCHH
Confidence 01111 1355666543211000 01223222 3789999999875 688999999987
Q ss_pred cc
Q 029025 198 IL 199 (200)
Q Consensus 198 IY 199 (200)
+.
T Consensus 152 l~ 153 (217)
T PRK05625 152 LI 153 (217)
T ss_pred HH
Confidence 64
No 12
>PRK14059 hypothetical protein; Provisional
Probab=97.29 E-value=0.0031 Score=55.20 Aligned_cols=51 Identities=24% Similarity=0.199 Sum_probs=38.7
Q ss_pred CccEEEEEEEeCCCeeecCCCCCCc-ChhhHHHHHHHhhCCCCCCCccEEEEchhhhh
Q 029025 78 RRPYQVVVAATHDMGIGKDGKLPWN-LPSDLKFFKQLTMSTSDPGKRNAVVMGRKTWE 134 (200)
Q Consensus 78 mrkI~livAvSlDG~IG~~G~LpW~-l~eD~~fF~~~T~~~~~p~k~daVIMGRkTyE 134 (200)
..-+.+-+|+|+||.|+.+|+--|. -+++.++.-++-.. .|+|+.|.+|-.
T Consensus 30 rP~V~lk~A~SlDGkia~~g~s~~It~~~~r~~~h~lRa~------~DAIlVG~~Tv~ 81 (251)
T PRK14059 30 RPWLRANFVTSLDGAATVDGRSGGLGGPADRRVFGLLRAL------ADVVVVGAGTVR 81 (251)
T ss_pred CCeEEEEEEEcCcccccCCCCCcCcCCHHHHHHHHHHHHH------CCEEEEchhhhh
Confidence 4567888999999999977777787 45566655544432 699999999986
No 13
>TIGR01508 rib_reduct_arch 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine 1'-reductase, archaeal. in riboflavin biosynthesis is reduced first, and then deaminated, in both Archaea and Fungi, opposite the order in Bacteria. The subsequent deaminase is not presently known and is not closely homologous to the deaminase domain (3.5.4.26) fused to the reductase domain (1.1.1.193) similar to this protein but found in most bacteria.
Probab=97.09 E-value=0.0072 Score=51.12 Aligned_cols=107 Identities=17% Similarity=0.216 Sum_probs=64.5
Q ss_pred EEEEEEEeCCCeeec-CCCCCCc-ChhhHHHHHHHhhCCCCCCCccEEEEchhhhhh----hcCCCCC--CCCCeEEEEc
Q 029025 81 YQVVVAATHDMGIGK-DGKLPWN-LPSDLKFFKQLTMSTSDPGKRNAVVMGRKTWES----ISPLYRP--LPGRLNVVLT 152 (200)
Q Consensus 81 I~livAvSlDG~IG~-~G~LpW~-l~eD~~fF~~~T~~~~~p~k~daVIMGRkTyEs----i~~~~~p--l~~r~~IVlS 152 (200)
+.+-+|+|+||.|+. +|+ .|. -+++.+++.++-.. .|+|+.|.+|-.. +.-. .+ -.+...+|++
T Consensus 3 V~lk~A~SlDGkia~~~g~-~~it~~~~r~~~h~lRa~------~DaIlvG~~Tv~~D~P~L~~r-~~~~~~~P~rvVld 74 (210)
T TIGR01508 3 VIVNVAMSLDGKLATINRD-SRISCEEDLIRVHEIRAE------VDAIMVGIGTVLADDPRLTVK-KIKSDRNPVRVVVD 74 (210)
T ss_pred EEEEEeecCcccccCCCCC-cCcCCHHHHHHHHHHHHH------CCEEEECcCeEEecCCccccc-CcccCCCCEEEEEC
Confidence 678899999999974 566 563 34555655555432 5999999999862 1100 01 1122345555
Q ss_pred CCCCCccc--------------------------CCCCe--EEeC----CHHHHHHHhcCCCCCCCCCcEEEEeCcccc
Q 029025 153 HSGSFNIA--------------------------SLENV--EICR----SIHLALELLAEPPYCSSIEKVFVIGGGQIL 199 (200)
Q Consensus 153 rt~~~~~~--------------------------~~~~v--~V~~----sl~eaI~~Lk~~~~~~~~kdI~ViGGa~IY 199 (200)
++...+.. ...++ .+++ ++.++++.|++. +.++|||-||+++.
T Consensus 75 ~~~~~~~~~~~~~~~~~~~v~t~~~~~~~~~~~l~~~gv~vi~~~~~~~dl~~~l~~L~~~----g~~~vlveGG~~l~ 149 (210)
T TIGR01508 75 SKLRVPLNARILNKDAKTIIATSEDEPEEKVEELEDKGVEVVKFGEGRVDLKKLLDILYDK----GVRRLMVEGGGTLI 149 (210)
T ss_pred CCCCCCCcchhhcCCCCEEEEEcCCCCHHHHHHHHHCCCEEEEeCCCCcCHHHHHHHHHHC----CCCEEEEeeCHHHH
Confidence 54322100 00112 1111 678888998875 78999999998764
No 14
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=97.00 E-value=0.013 Score=54.14 Aligned_cols=51 Identities=18% Similarity=0.084 Sum_probs=35.6
Q ss_pred CccEEEEEEEeCCCeeec-CCCCCCcChhhHHHHHHHhhCCCCCCCccEEEEchhhhh
Q 029025 78 RRPYQVVVAATHDMGIGK-DGKLPWNLPSDLKFFKQLTMSTSDPGKRNAVVMGRKTWE 134 (200)
Q Consensus 78 mrkI~livAvSlDG~IG~-~G~LpW~l~eD~~fF~~~T~~~~~p~k~daVIMGRkTyE 134 (200)
..-+.+-+|+|+||.|+. +|+-.+.-+++.++.-++-.. .|+|++|.+|-.
T Consensus 139 rP~V~lK~A~SLDGkIA~~~G~s~IT~~~ar~~vh~lRa~------~DAILVG~~Tv~ 190 (360)
T PRK14719 139 LPYVISNVGMTLDGKLATIENDSRISGENDLKRVHEIRKD------VDAIMVGIGTVL 190 (360)
T ss_pred CCeEEEEEEEcCcCcccCCCCCCCcCCHHHHHHHHHHHHH------CCEEEECcchHh
Confidence 445778899999999985 455333344555555444432 599999999994
No 15
>PRK10786 ribD bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=96.59 E-value=0.023 Score=52.27 Aligned_cols=111 Identities=16% Similarity=0.213 Sum_probs=69.0
Q ss_pred ccEEEEEEEeCCCeee-cCCCCCCc-ChhhHHHHHHHhhCCCCCCCccEEEEchhhhhhhcCC---CCC-C---------
Q 029025 79 RPYQVVVAATHDMGIG-KDGKLPWN-LPSDLKFFKQLTMSTSDPGKRNAVVMGRKTWESISPL---YRP-L--------- 143 (200)
Q Consensus 79 rkI~livAvSlDG~IG-~~G~LpW~-l~eD~~fF~~~T~~~~~p~k~daVIMGRkTyEsi~~~---~~p-l--------- 143 (200)
.-+.+-+|+|+||.|+ .+|+--|. -+++.+++..+-.. .|+|+.|..|-..=.+. ..+ +
T Consensus 147 P~V~~k~A~SlDGkia~~~g~s~~is~~~~~~~~h~lRa~------~DaIlVGa~Tv~~D~P~Lt~R~~~~~~~~~~~~~ 220 (367)
T PRK10786 147 PYIQLKLGASLDGRTAMASGESQWITSPQARRDVQRLRAQ------SHAILTSSATVLADDPALTVRWSELDAQTQALYP 220 (367)
T ss_pred ceEEEEEeecCCCCccCCCCcccccCCHHHHHHHHHHHhH------CCEEEECcChHhhcCCCccccccccccccccccc
Confidence 3477889999999997 46777786 45666665554432 59999999998631100 000 0
Q ss_pred ----CCCeEEEEcCCCCCccc-----CC----------------CCe---EEe-----CCHHHHHHHhcCCCCCCCCCcE
Q 029025 144 ----PGRLNVVLTHSGSFNIA-----SL----------------ENV---EIC-----RSIHLALELLAEPPYCSSIEKV 190 (200)
Q Consensus 144 ----~~r~~IVlSrt~~~~~~-----~~----------------~~v---~V~-----~sl~eaI~~Lk~~~~~~~~kdI 190 (200)
+....+|++++.+.+.. .. .++ .+. -|+.++++.|.+. +.+.|
T Consensus 221 ~~~~~~P~rvV~d~~g~l~~~~~~f~~~~~~~i~~~~~~~~~~~~~~~~~~v~~~~~~vdl~~~L~~L~~~----Gi~~l 296 (367)
T PRK10786 221 QENLRQPVRIVIDSQNRVTPEHRIVQQPGETWLARTQEDSREWPETVRTLLLPEHNGHLDLVVLMMQLGKQ----QINSI 296 (367)
T ss_pred cccCCCCcEEEEcCCCCCCchhhhhcCCCCEEEEEcCchhhhhhcCceEEEEeCCCCCcCHHHHHHHHHhC----CCCEE
Confidence 12335788876532110 00 011 011 1577888888764 78999
Q ss_pred EEEeCcccc
Q 029025 191 FVIGGGQIL 199 (200)
Q Consensus 191 ~ViGGa~IY 199 (200)
||-||+.+.
T Consensus 297 ~veGG~~l~ 305 (367)
T PRK10786 297 WVEAGPTLA 305 (367)
T ss_pred EEeeCHHHH
Confidence 999998763
No 16
>COG1985 RibD Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]
Probab=95.52 E-value=0.095 Score=45.22 Aligned_cols=109 Identities=20% Similarity=0.206 Sum_probs=66.4
Q ss_pred cEEEEEEEeCCCeeec-CCCCCCc-ChhhHHHHHHHhhCCCCCCCccEEEEchhhhhh--------hcCCCCCCCCCeEE
Q 029025 80 PYQVVVAATHDMGIGK-DGKLPWN-LPSDLKFFKQLTMSTSDPGKRNAVVMGRKTWES--------ISPLYRPLPGRLNV 149 (200)
Q Consensus 80 kI~livAvSlDG~IG~-~G~LpW~-l~eD~~fF~~~T~~~~~p~k~daVIMGRkTyEs--------i~~~~~pl~~r~~I 149 (200)
.+.+-.|+|+||-|+. +|+--|. -+++.+..-++-.. .|+|+.|-.|-.. +++. ....+...+
T Consensus 5 ~v~lk~a~SlDGkia~~~g~s~~it~~~ar~~vh~lRa~------~daIlvG~~TV~~DnP~Ltvr~~~~-~~~~~P~rV 77 (218)
T COG1985 5 FVTLKLAMSLDGKIATASGSSKWITGEEARADVHELRAE------SDAILVGSGTVLADNPSLTVRLPEG-GEERNPVRV 77 (218)
T ss_pred EEEEEEEEcccCccccCCCCceeEeCHHHHHHHHHHHHH------cCEEEECccEEEeeCCccccccCCC-CccCCCEEE
Confidence 6788899999999985 5666697 45555544444332 5999999999863 1110 011344456
Q ss_pred EEcCCCCCccc----C-C---------------------CCe--EEeC----CHHHHHHHhcCCCCCCCCCcEEEEeCcc
Q 029025 150 VLTHSGSFNIA----S-L---------------------ENV--EICR----SIHLALELLAEPPYCSSIEKVFVIGGGQ 197 (200)
Q Consensus 150 VlSrt~~~~~~----~-~---------------------~~v--~V~~----sl~eaI~~Lk~~~~~~~~kdI~ViGGa~ 197 (200)
|++++...+.. . . .++ .+++ |+..+++.|.+. +.+.|+|=||++
T Consensus 78 IlD~~~rlp~~~~v~~~~~~~p~~v~~~~~~~~~~~~~~~g~~~i~~~~~~vdl~~~l~~L~~~----~i~~vlvEGG~~ 153 (218)
T COG1985 78 ILDSRLRLPLDSRVFRTGEGAPTIVVTTEPEEKLRELKEAGVEVILLPDGRVDLAALLEELAER----GINSVLVEGGAT 153 (218)
T ss_pred EECCCCcCCchhhhhccCCCCcEEEEecCchhhhhHHHhCCCEEEEcCCCccCHHHHHHHHHhC----CCcEEEEccCHH
Confidence 66655322100 0 0 011 1222 567788888775 678999999987
Q ss_pred cc
Q 029025 198 IL 199 (200)
Q Consensus 198 IY 199 (200)
+.
T Consensus 154 L~ 155 (218)
T COG1985 154 LN 155 (218)
T ss_pred HH
Confidence 63
No 17
>PLN02807 diaminohydroxyphosphoribosylaminopyrimidine deaminase
Probab=90.92 E-value=2.4 Score=39.51 Aligned_cols=104 Identities=13% Similarity=0.072 Sum_probs=58.0
Q ss_pred CccEEEEEEEeCCCeeec-CCCCCCcChhhHHHHHHHhhCCCCCCCccEEEEchhhhhhh-cCC--CCC-CCCCeEEEEc
Q 029025 78 RRPYQVVVAATHDMGIGK-DGKLPWNLPSDLKFFKQLTMSTSDPGKRNAVVMGRKTWESI-SPL--YRP-LPGRLNVVLT 152 (200)
Q Consensus 78 mrkI~livAvSlDG~IG~-~G~LpW~l~eD~~fF~~~T~~~~~p~k~daVIMGRkTyEsi-~~~--~~p-l~~r~~IVlS 152 (200)
..-+.+-+|+|+||.|+. .|+--|.-..+....+.. .|+|+.| +|--.= |.- ..| .++...||++
T Consensus 175 rP~V~lK~A~SlDGkia~~~g~s~~~s~~~vh~lRa~---------~DAIlVG-~Tv~~DnP~Lt~R~~~~~~PiRVVld 244 (380)
T PLN02807 175 KPFVTLRYSMSMNGCLLNQIGEGADDAGGYYSQLLQE---------YDAVILS-SALADADPLPLSQEAGAKQPLRIIIA 244 (380)
T ss_pred cccEEEEEEEcCCCCeeCCCCCChhhhhHHHHHHHhh---------CCEEEEc-CEeeccCCCCccCCCCCCCCEEEEEc
Confidence 446788899999999974 454444433333333322 5999999 986420 100 011 1233456776
Q ss_pred CCCCCccc-------CC-------------------CCeEE-e-C--CHHHHHHHhcCCCCCCCCCcEEEEeC
Q 029025 153 HSGSFNIA-------SL-------------------ENVEI-C-R--SIHLALELLAEPPYCSSIEKVFVIGG 195 (200)
Q Consensus 153 rt~~~~~~-------~~-------------------~~v~V-~-~--sl~eaI~~Lk~~~~~~~~kdI~ViGG 195 (200)
++.+.+.. .. .++.+ . . ++.++++.|.+. +...|+|=||
T Consensus 245 ~~l~~p~~~~i~~~~~~~~~iv~t~~~~~~~~~l~~~gv~vv~~~~~dl~~iL~~L~~~----Gi~svLVEGG 313 (380)
T PLN02807 245 RSESSPLQIPSLREESAAKVLVLADKESSAEPVLRRKGVEVVVLNQINLDSILDLCYQR----GLCSVLLDLR 313 (380)
T ss_pred CCCCCCCcceecccCCCCCEEEEECCchhhHHHHHhCCeEEEECCCCCHHHHHHHHHHC----CCCEEEEecC
Confidence 65432100 00 01111 1 1 577788888764 7899999994
No 18
>PF08353 DUF1727: Domain of unknown function (DUF1727); InterPro: IPR013564 This domain of unknown function is found at the C terminus of bacterial proteins which include UDP-N-acetylmuramyl tripeptide synthase and the related Mur ligase.
Probab=64.42 E-value=18 Score=28.16 Aligned_cols=85 Identities=15% Similarity=0.305 Sum_probs=53.4
Q ss_pred EEEEEEEeCCCeeecCCCCCCcChhhHHHHHHHhhCCCCCCCccEEEEchhhhhhhcCCCCCCCCCeEEEEcCCCCCccc
Q 029025 81 YQVVVAATHDMGIGKDGKLPWNLPSDLKFFKQLTMSTSDPGKRNAVVMGRKTWESISPLYRPLPGRLNVVLTHSGSFNIA 160 (200)
Q Consensus 81 I~livAvSlDG~IG~~G~LpW~l~eD~~fF~~~T~~~~~p~k~daVIMGRkTyEsi~~~~~pl~~r~~IVlSrt~~~~~~ 160 (200)
..+++++. |+ .+.+-++.|.-.-||+.+.+.-. ..+++.|.|.+|.--. ..|.+-
T Consensus 22 ~~~~~~lN-d~-~aDG~DvSWiWDvdFE~L~~~~i-------~~viv~G~Ra~DmalR--LkyAGv-------------- 76 (113)
T PF08353_consen 22 KSVLIALN-DN-YADGRDVSWIWDVDFEKLADPNI-------KQVIVSGTRAEDMALR--LKYAGV-------------- 76 (113)
T ss_pred ceEEEEec-CC-CCCCccceEEeecCHHHHhcCCC-------CEEEEEeeeHHHHHhH--eeecCc--------------
Confidence 34444443 33 34445788988888877754422 3889999999984321 122221
Q ss_pred CCCCeEEeCCHHHHHHH--hcCCCCCCCCCcEEEEe
Q 029025 161 SLENVEICRSIHLALEL--LAEPPYCSSIEKVFVIG 194 (200)
Q Consensus 161 ~~~~v~V~~sl~eaI~~--Lk~~~~~~~~kdI~ViG 194 (200)
+.+.+.+.++++++++. +... +.+.++|+.
T Consensus 77 ~~~~i~v~~d~~~a~~~~~~~~~----~~~~~yil~ 108 (113)
T PF08353_consen 77 DEEKIIVEEDLEEALDAFLIKSD----PTDKVYILA 108 (113)
T ss_pred chHHeEecCCHHHHHHHHHHhcC----CCCcEEEEE
Confidence 12456778899999999 5544 567798874
No 19
>TIGR03609 S_layer_CsaB polysaccharide pyruvyl transferase CsaB. The CsaB protein (cell surface anchoring B) of Bacillus anthracis adds a pyruvoyl group to peptidoglycan-associated polysaccharide. This addition is required for proteins with an S-layer homology domain (pfam00395) to bind. Within the larger group of proteins described by Pfam model pfam04230, this model represents a distinct clade that nearly exactly follows the phylogenetic distribution of the S-layer homology domain (pfam00395).
Probab=45.11 E-value=29 Score=30.04 Aligned_cols=48 Identities=33% Similarity=0.461 Sum_probs=30.0
Q ss_pred CCCeEEEEcCCCCCcccCCCCeEE--eCCHHHHHHHhcCCCCCCCCCcEEEEeCcccc
Q 029025 144 PGRLNVVLTHSGSFNIASLENVEI--CRSIHLALELLAEPPYCSSIEKVFVIGGGQIL 199 (200)
Q Consensus 144 ~~r~~IVlSrt~~~~~~~~~~v~V--~~sl~eaI~~Lk~~~~~~~~kdI~ViGGa~IY 199 (200)
++....|+|+++.... ..-++.- ..++.+.++.+++. |+.|+||++++
T Consensus 27 ~~~~~~v~s~~p~~~~-~~~~v~~~~r~~~~~~~~~l~~~-------D~vI~gGG~l~ 76 (298)
T TIGR03609 27 PGVEPTVLSNDPAETA-KLYGVEAVNRRSLLAVLRALRRA-------DVVIWGGGSLL 76 (298)
T ss_pred CCCeEEEecCChHHHH-hhcCceEEccCCHHHHHHHHHHC-------CEEEECCcccc
Confidence 4556778887764321 1224422 23677888888764 68888998876
No 20
>PF01344 Kelch_1: Kelch motif; InterPro: IPR006652 Kelch is a 50-residue motif, named after the Drosophila mutant in which it was first identified []. This sequence motif represents one beta-sheet blade, and several of these repeats can associate to form a beta-propeller. For instance, the motif appears 6 times in Drosophila egg-chamber regulatory protein, creating a 6-bladed beta-propeller. The motif is also found in mouse protein MIPP [] and in a number of poxviruses. In addition, kelch repeats have been recognised in alpha- and beta-scruin [, ], and in galactose oxidase from the fungus Dactylium dendroides [, ]. The structure of galactose oxidase reveals that the repeated sequence corresponds to a 4-stranded anti-parallel beta-sheet motif that forms the repeat unit in a super-barrel structural fold []. The known functions of kelch-containing proteins are diverse: scruin is an actin cross-linking protein; galactose oxidase catalyses the oxidation of the hydroxyl group at the C6 position in D-galactose; neuraminidase hydrolyses sialic acid residues from glycoproteins; and kelch may have a cytoskeletal function, as it is localised to the actin-rich ring canals that connect the 15 nurse cells to the developing oocyte in Drosophila []. Nevertheless, based on the location of the kelch pattern in the catalytic unit in galactose oxidase, functionally important residues have been predicted in glyoxal oxidase []. This entry represents a type of kelch sequence motif that comprises one beta-sheet blade.; GO: 0005515 protein binding; PDB: 2XN4_A 2WOZ_A 3II7_A 4ASC_A 1U6D_X 1ZGK_A 2FLU_X 2VPJ_A 2DYH_A 1X2R_A ....
Probab=33.91 E-value=22 Score=21.93 Aligned_cols=11 Identities=45% Similarity=0.767 Sum_probs=9.0
Q ss_pred CCcEEEEeCcc
Q 029025 187 IEKVFVIGGGQ 197 (200)
Q Consensus 187 ~kdI~ViGGa~ 197 (200)
++.|||+||..
T Consensus 11 ~~~iyv~GG~~ 21 (47)
T PF01344_consen 11 GNKIYVIGGYD 21 (47)
T ss_dssp TTEEEEEEEBE
T ss_pred CCEEEEEeeec
Confidence 56899999964
No 21
>PF06459 RR_TM4-6: Ryanodine Receptor TM 4-6; InterPro: IPR009460 The release of Ca2+ ions from intracellular stores is a key step in a wide variety of cellular functions. In striated muscle, the release of Ca2+ from the sarcoplasmic reticulum (SR) leads to muscle contraction. Ca2+ release occurs through large, high-conductance Ca2+ release channels, also known as ryanodine receptors (RyRs) because they bind the plant alkaloid ryanodine with high affinity and specificity []. This region covers TM regions 4-6 of the ryanodine receptor 1 family.; GO: 0005219 ryanodine-sensitive calcium-release channel activity, 0006874 cellular calcium ion homeostasis, 0016021 integral to membrane
Probab=30.23 E-value=25 Score=31.58 Aligned_cols=21 Identities=29% Similarity=0.697 Sum_probs=17.4
Q ss_pred hHHHHhhhhcccchhhhhhcc
Q 029025 17 KVLLSSFRRSFYNIDYVSAML 37 (200)
Q Consensus 17 ~~~~~~~~~~~~~~~~~~~~~ 37 (200)
+-+|+-|-|.|||+.|||-.+
T Consensus 160 ~k~lnylARNFYNlr~lALfl 180 (274)
T PF06459_consen 160 TKFLNYLARNFYNLRFLALFL 180 (274)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 447889999999999998543
No 22
>PF13964 Kelch_6: Kelch motif
Probab=26.26 E-value=41 Score=21.27 Aligned_cols=11 Identities=36% Similarity=0.625 Sum_probs=9.1
Q ss_pred CCcEEEEeCcc
Q 029025 187 IEKVFVIGGGQ 197 (200)
Q Consensus 187 ~kdI~ViGGa~ 197 (200)
++.|||+||..
T Consensus 11 ~~~iyv~GG~~ 21 (50)
T PF13964_consen 11 GGKIYVFGGYD 21 (50)
T ss_pred CCEEEEECCCC
Confidence 56899999964
No 23
>PF02751 TFIIA_gamma_C: Transcription initiation factor IIA, gamma subunit; InterPro: IPR015871 Transcription factor IIA (TFIIA) is one of several factors that form part of a transcription pre-initiation complex along with RNA polymerase II, the TATA-box-binding protein (TBP) and TBP-associated factors, on the TATA-box sequence upstream of the initiation start site. After initiation, some components of the pre-initiation complex (including TFIIA) remain attached and re-initiate a subsequent round of transcription. TFIIA binds to TBP to stabilise TBP binding to the TATA element. TFIIA also inhibits the cytokine HMGB1 (high mobility group 1 protein) binding to TBP [], and can dissociate HMGB1 already bound to TBP/TATA-box. Human and Drosophila TFIIA have three subunits: two large subunits, LN/alpha and LC/beta, derived from the same gene, and a small subunit, S/gamma. Yeast TFIIA has two subunits: a large TOA1 subunit that shows sequence similarity to the N-terminal of LN/alpha and the C-terminal of LC/beta, and a small subunit, TOA2 that is highly homologous with S/gamma. The conserved regions of the large and small subunits of TFIIA combine to form two domains: a four-helix bundle (helical domain) composed of two helices from each of the N-terminal regions of TOA1 and TOA2 in yeast; and a beta-barrel (beta-barrel domain) composed of beta-sheets from the C-terminal regions of TOA1 and TOA2 []. This entry represents the beta-barrel domain found at the C-terminal of the gamma subunit of transcription factor TFIIA. ; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005672 transcription factor TFIIA complex; PDB: 1NVP_D 1RM1_B 1YTF_D 1NH2_D.
Probab=21.50 E-value=73 Score=21.81 Aligned_cols=39 Identities=21% Similarity=0.304 Sum_probs=25.6
Q ss_pred eeeeeeeeeeeEEEEecCcccccCCCcccccCCCccEEEEE
Q 029025 45 VTVKYRFCTRFYVGVNNNMSTLSNDNASMHLRARRPYQVVV 85 (200)
Q Consensus 45 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~mrkI~liv 85 (200)
--..||||---++=++.|..-..++++.. ...-++++++
T Consensus 11 ~L~tYrfcDnVWTFi~kn~~fk~~~~~~~--~~~dkvKIVA 49 (52)
T PF02751_consen 11 HLDTYRFCDNVWTFILKNVEFKMEDNNET--VKVDKVKIVA 49 (52)
T ss_dssp EEEEEEEETTEEEEEEEEEEEEEE-SSEE--EEEEEEEEEE
T ss_pred eeeEEEeeCcEEEEEEcCEEEEEecCCcE--EEcCeEEEEE
Confidence 34579999999999999988876444332 2234555544
No 24
>PRK10017 colanic acid biosynthesis protein; Provisional
Probab=21.11 E-value=1.3e+02 Score=28.41 Aligned_cols=34 Identities=12% Similarity=0.014 Sum_probs=20.3
Q ss_pred cEEEEchhhhhhhcCC----------CCCCCCCeEEEEcCCCCC
Q 029025 124 NAVVMGRKTWESISPL----------YRPLPGRLNVVLTHSGSF 157 (200)
Q Consensus 124 daVIMGRkTyEsi~~~----------~~pl~~r~~IVlSrt~~~ 157 (200)
+++|.|-.++.-.++. ..-.|+....|+|+.+..
T Consensus 2 ~i~i~G~~g~~N~GdeAil~~ii~~l~~~~p~~~i~v~S~~P~~ 45 (426)
T PRK10017 2 KLLILGNHTCGNRGDSAILRGLLDAINILNPHAEVDVMSRYPVS 45 (426)
T ss_pred eEEEEccccCCCccHHHHHHHHHHHHHhhCCCCeEEEEecCccc
Confidence 4667777776532221 123566778888887754
Done!