Query 047182
Match_columns 207
No_of_seqs 123 out of 734
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 08:32:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047182.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047182hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13883 Pyrid_oxidase_2: Pyri 100.0 1E-44 2.2E-49 293.1 12.7 163 40-204 1-170 (170)
2 KOG3374 Cellular repressor of 100.0 4.2E-38 9.1E-43 249.5 14.9 183 22-205 22-208 (210)
3 PRK03467 hypothetical protein; 99.8 1.5E-17 3.3E-22 130.4 15.1 130 44-194 5-138 (144)
4 TIGR03668 Rv0121_F420 PPOX cla 99.7 1.8E-15 3.9E-20 118.9 14.3 124 47-186 3-138 (141)
5 TIGR03618 Rv1155_F420 PPOX cla 99.6 8E-14 1.7E-18 104.7 13.0 109 60-186 1-116 (117)
6 TIGR03666 Rv2061_F420 PPOX cla 99.6 9.9E-14 2.1E-18 107.8 13.2 113 51-183 7-127 (132)
7 TIGR03667 Rv3369 PPOX class pr 99.5 2.2E-13 4.9E-18 105.3 13.1 118 47-184 5-129 (130)
8 PF01243 Pyridox_oxidase: Pyri 99.5 1.3E-13 2.8E-18 98.3 10.7 85 46-147 2-87 (89)
9 PF12900 Pyridox_ox_2: Pyridox 99.5 2.4E-13 5.1E-18 106.4 12.3 128 46-186 2-140 (143)
10 COG0748 HugZ Putative heme iro 99.4 2.1E-14 4.6E-19 120.9 -2.4 148 43-203 3-151 (245)
11 COG3467 Predicted flavin-nucle 99.4 1.6E-11 3.5E-16 99.0 14.1 130 46-186 13-157 (166)
12 COG0748 HugZ Putative heme iro 99.3 1.9E-13 4E-18 115.2 -2.8 144 45-201 83-227 (245)
13 COG3871 Uncharacterized stress 99.1 9.4E-10 2E-14 85.9 11.4 126 42-192 3-133 (145)
14 PRK05679 pyridoxamine 5'-phosp 99.0 8.7E-09 1.9E-13 85.1 14.3 121 49-190 20-170 (195)
15 COG3787 Uncharacterized protei 99.0 1.2E-08 2.5E-13 78.2 11.9 132 47-199 3-139 (145)
16 PRK06733 hypothetical protein; 98.9 1.2E-07 2.6E-12 75.1 14.2 112 47-195 11-122 (151)
17 TIGR00558 pdxH pyridoxamine-ph 98.8 1.3E-07 2.7E-12 79.5 13.9 77 53-147 46-122 (217)
18 PLN03049 pyridoxine (pyridoxam 98.6 8.2E-07 1.8E-11 82.2 14.7 118 53-190 286-433 (462)
19 COG0259 PdxH Pyridoxamine-phos 98.3 1.9E-05 4E-10 65.2 13.2 120 52-190 42-189 (214)
20 COG5015 Uncharacterized conser 98.3 2.7E-05 5.9E-10 59.2 11.8 119 48-191 3-124 (132)
21 PLN02918 pyridoxine (pyridoxam 98.2 4.3E-05 9.4E-10 71.9 14.1 120 53-190 368-515 (544)
22 TIGR00026 hi_GC_TIGR00026 deaz 97.8 0.00011 2.4E-09 55.6 8.2 87 57-169 8-99 (113)
23 PF04075 DUF385: Domain of unk 97.6 0.00029 6.4E-09 54.7 7.7 84 57-166 26-114 (132)
24 PF04299 FMN_bind_2: Putative 97.6 0.0025 5.5E-08 51.6 13.3 132 46-185 12-169 (169)
25 KOG2586 Pyridoxamine-phosphate 97.6 0.00077 1.7E-08 55.7 10.2 76 54-147 54-130 (228)
26 PF12766 Pyridox_oxase_2: Pyri 97.3 0.002 4.4E-08 47.7 8.4 91 40-145 2-99 (100)
27 COG2808 PaiB Transcriptional r 95.4 0.18 3.8E-06 41.9 9.6 115 45-163 11-134 (209)
28 COG3576 Predicted flavin-nucle 94.0 0.34 7.3E-06 39.4 7.8 69 45-119 30-101 (173)
29 PF04289 DUF447: Protein of un 83.5 2.2 4.7E-05 34.6 4.7 53 59-119 3-55 (177)
30 TIGR01101 V_ATP_synt_F vacuola 61.5 17 0.00036 27.6 4.3 50 15-64 16-67 (115)
31 PF08922 DUF1905: Domain of un 42.1 75 0.0016 22.1 4.9 49 56-115 31-80 (80)
32 cd01782 AF6_RA_repeat1 Ubiquit 40.9 1.3E+02 0.0028 22.7 6.1 41 141-183 38-79 (112)
33 PRK14891 50S ribosomal protein 40.6 14 0.00031 28.6 1.0 37 74-115 17-54 (131)
34 PF01613 Flavin_Reduct: Flavin 38.2 36 0.00077 26.1 3.0 58 58-119 8-65 (154)
35 cd00472 Ribosomal_L24e_L24 Rib 38.0 18 0.00038 23.7 1.0 32 74-110 16-47 (54)
36 PRK00807 50S ribosomal protein 37.9 16 0.00034 23.7 0.8 25 86-110 21-45 (52)
37 KOG2500 Uncharacterized conser 33.0 53 0.0012 28.0 3.3 69 131-199 43-120 (253)
38 COG2075 RPL24A Ribosomal prote 31.5 29 0.00064 23.7 1.3 33 73-110 15-47 (66)
39 COG2457 Uncharacterized conser 30.9 83 0.0018 26.2 4.1 44 72-120 27-70 (199)
40 PF00313 CSD: 'Cold-shock' DNA 28.9 1.7E+02 0.0036 19.0 4.9 32 89-120 24-56 (66)
41 COG1853 Conserved protein/doma 28.5 1.7E+02 0.0036 23.2 5.6 60 55-119 17-77 (176)
42 PF01990 ATP-synt_F: ATP synth 24.8 1.1E+02 0.0024 21.7 3.5 43 14-65 8-50 (95)
43 TIGR03044 PS_II_psb27 photosys 24.4 1.5E+02 0.0032 23.2 4.3 18 38-55 57-74 (135)
44 PF12471 GTP_CH_N: GTP cyclohy 23.8 68 0.0015 26.4 2.4 50 155-204 137-189 (194)
45 PRK02228 V-type ATP synthase s 22.9 1.5E+02 0.0033 21.4 4.0 43 14-65 10-52 (100)
46 PF00644 PARP: Poly(ADP-ribose 22.6 2.2E+02 0.0048 23.0 5.3 27 139-165 2-28 (206)
47 PF02184 HAT: HAT (Half-A-TPR) 22.4 32 0.00069 20.1 0.2 20 153-172 7-26 (32)
48 PF11250 DUF3049: Protein of u 22.0 1.4E+02 0.0031 19.6 3.2 45 62-114 8-54 (56)
49 PRK14998 cold shock-like prote 21.1 1.9E+02 0.004 19.8 3.9 33 88-120 24-57 (73)
No 1
>PF13883 Pyrid_oxidase_2: Pyridoxamine 5'-phosphate oxidase; PDB: 1XHN_C.
Probab=100.00 E-value=1e-44 Score=293.08 Aligned_cols=163 Identities=40% Similarity=0.721 Sum_probs=126.9
Q ss_pred CCchHHHHHHHHHHhcCCeEEEEeecC--CCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEee
Q 047182 40 PHPNDAAAYARWLVSQNSWGVLSTISS--GLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISE 117 (207)
Q Consensus 40 ~~~~~~~~~ar~LL~~~~~~vLAT~s~--~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~ 117 (207)
|+.+++++.||+||+.+++|+|||++. +.+|+||+|+++|+||+..+.+|+|||++|.++.|++||++||||||+|.+
T Consensus 1 P~~~~aA~~AR~Ll~~~~~g~LsTls~~~~~~G~Pfgs~v~~ad~~~~~~~G~p~~lls~la~ht~nl~~~~r~SL~i~~ 80 (170)
T PF13883_consen 1 PTREEAAELARTLLHQSRWGTLSTLSTQKDIDGYPFGSVVSYADGPCCDSTGRPIFLLSPLAQHTRNLKADPRVSLTISE 80 (170)
T ss_dssp --TT-HHHHHHHHHHH-SEEEEEEE--SGGGTTSEEEEEEE-BSSSTT---S--EEEE-TTSHHHHHHHH--EEEEEEEG
T ss_pred CChHHHHHHHHHHHhhCCEEEEEeccCCCCCCCceEEEEEEEecccCcCCCCCEEEEEeCccHHHHHHhhCCCEEEEEec
Confidence 688999999999999999999999998 347999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCC--CCCCCCCccceEEEEEEEEEecCChHHHHHHHHHHHHhCCCCCCCCCC---CCeEEEEEEEeEEEEeccCC
Q 047182 118 YPLGTCG--KRDPEDPVCAKITLTGKLVLVDVNSKAAEFARNALFAKHPEMKGWPKD---HNFQTFKLEIDDIFLINWFG 192 (207)
Q Consensus 118 ~~~~~~~--~~dp~~~~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~rhP~~~~~~~~---~df~~~rl~~~~~~~V~GFG 192 (207)
.+...|. ..||++++++|+||+|++++|++ +|.+.++++|++|||+++.|+++ |||.||||+|++++||||||
T Consensus 81 ~~~~~~~~~~~dp~~~~~~RvtL~G~~~~v~~--~e~~~a~~~yl~~HP~a~~w~~~~~~hdf~~~rl~i~~v~~vgGFG 158 (170)
T PF13883_consen 81 PQGGDCDNSGVDPEDPACPRVTLTGRAEPVPP--DEAAAARAAYLSRHPDAKHWLPFNSPHDFFFYRLEIERVYLVGGFG 158 (170)
T ss_dssp GGSSHHHHHT--TTSTTS-EEEEEEEEEE--T--TTHHHHHHHHHHH-GGGGGS-GG---G--EEEEEEEEEEEEE-SSS
T ss_pred CCCCcccccCCCCCCCCCcEEEEEEEEEEcCc--hHHHHHHHHHHHHCcCccccccccccCccEEEEEEEEEEEEECccC
Confidence 9876553 36888889999999999999984 36678999999999999999999 99999999999999999999
Q ss_pred Cceeechhhhcc
Q 047182 193 GPKPLTVDQYLH 204 (207)
Q Consensus 193 ~a~~v~~~~~~~ 204 (207)
+++||+.+||++
T Consensus 159 ~~~~i~~~~Y~~ 170 (170)
T PF13883_consen 159 GAAWISAEEYYN 170 (170)
T ss_dssp S-EEE-HHHHHH
T ss_pred CceEeCHHHhcC
Confidence 999999999974
No 2
>KOG3374 consensus Cellular repressor of transcription [Transcription]
Probab=100.00 E-value=4.2e-38 Score=249.47 Aligned_cols=183 Identities=40% Similarity=0.722 Sum_probs=169.4
Q ss_pred hheecccccccccCCCCCCCchHHHHHHHHHHhcCCeEEEEeecCCC--CCCeeEEEeccccCCCCCCCCcEEEEEeCCC
Q 047182 22 VGTQDSVEGRLIPAISNKPHPNDAAAYARWLVSQNSWGVLSTISSGL--GGAPFGNVVSFSDGLPNEGSGVPYFYLTTLD 99 (207)
Q Consensus 22 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ar~LL~~~~~~vLAT~s~~~--~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s 99 (207)
.|++.+-+.+.+-++ .+|++.++++.||.|+|++.||+|+|+|.+. .|+||+.++++.||++..++|.||||+++++
T Consensus 22 ~g~~~r~~~~~ir~~-~~p~r~d~A~iAR~lvh~~~Wgal~TlSt~e~vkG~Pf~nViS~sDg~p~~gtG~pyFyLt~Ld 100 (210)
T KOG3374|consen 22 SGYSRRKDERIIREY-KRPQRLDHAKIARDLVHRANWGALGTLSTNERVKGYPFVNVISISDGDPNNGTGRPYFYLTDLD 100 (210)
T ss_pred ccccccchhhhhhcC-CCCchhhHHHHHHHHhhhcccceeeeeeecccccCCccceEEEccCCCCcCCCCceEEEeccCC
Confidence 455666665544443 4899999999999999999999999999864 7999999999999999999999999999999
Q ss_pred cchhhhccCCCeEEEEeeCCCCCCCC--CCCCCCccceEEEEEEEEEecCChHHHHHHHHHHHHhCCCCCCCCCCCCeEE
Q 047182 100 PTASNALKDKRSSLAISEYPLGTCGK--RDPEDPVCAKITLTGKLVLVDVNSKAAEFARNALFAKHPEMKGWPKDHNFQT 177 (207)
Q Consensus 100 ~h~~NL~~nprvSl~V~~~~~~~~~~--~dp~~~~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~rhP~~~~~~~~~df~~ 177 (207)
....|+++|++++|++++.++..|++ .||++|.|.|++|+|++.++++.+++.+.++++|+.|||+|+.|...|+|+|
T Consensus 101 ~t~~n~qkd~~atL~~s~~qt~~Ck~~g~DPm~PtC~~~mlsG~v~k~~~~~~~~~~~~~alf~rHPem~~w~~~hn~~~ 180 (210)
T KOG3374|consen 101 FTGPNWQKDNKATLLFSDEQTLRCKEGGKDPMEPTCARSMLSGQVKKMDPSDKSYQPSLDALFRRHPEMINWVKAHNFYL 180 (210)
T ss_pred CCCcccccCCceeEEeeccccchhhcCCCCCCCchhhhheecceEEEeCCcchhhhhhhhhHhhcCHhHcCCccccceEE
Confidence 99999999999999999999999964 6999999999999999999999888999999999999999999999999999
Q ss_pred EEEEEeEEEEeccCCCceeechhhhccc
Q 047182 178 FKLEIDDIFLINWFGGPKPLTVDQYLHA 205 (207)
Q Consensus 178 ~rl~~~~~~~V~GFG~a~~v~~~~~~~a 205 (207)
.+|+|..|+++|.||+...|+++||++-
T Consensus 181 ~~l~isni~vld~~ggp~~vs~~~yy~v 208 (210)
T KOG3374|consen 181 CELEISNIFVLDFYGGPHKVSASDYYAV 208 (210)
T ss_pred EEEeeeeEEEEEecCCCcccCHHHhccc
Confidence 9999999999999999999999999864
No 3
>PRK03467 hypothetical protein; Provisional
Probab=99.77 E-value=1.5e-17 Score=130.41 Aligned_cols=130 Identities=11% Similarity=0.157 Sum_probs=111.4
Q ss_pred HHHHHHHHHHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCCC-cEEEEEeCCCcchhhhccCCCeEEEEeeCCCCC
Q 047182 44 DAAAYARWLVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSG-VPYFYLTTLDPTASNALKDKRSSLAISEYPLGT 122 (207)
Q Consensus 44 ~~~~~ar~LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g-~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~~ 122 (207)
+..+.+.++|+++...+|||.+. +.||+..+.|+ .|+++ .+||+.++.++|.+|+.+||+|+.+|..+..
T Consensus 5 ~~~~~I~~fl~~~hvltLa~~~~---~~~w~A~cFY~----fd~~~~~l~~~S~~~TrH~~~~~~np~VAgTI~~~~~-- 75 (144)
T PRK03467 5 DTLTAISRWLAKQHVVTLCVGQE---GELWCANCFYV----FDAQKVAFYLLTEEKTRHGQMMGPNAQVAGTVNGQPK-- 75 (144)
T ss_pred hHHHHHHHHHHhCcEEEEEEEcC---CCcceEEEEEE----EcCCCeEEEEEcCCCCHHHHHHhhCCCEEEEEcCCCc--
Confidence 44568999999999999999984 78998888998 56654 7899999999999999999999999998864
Q ss_pred CCCCCCCCCccceEEEEEEEEEecCChHHHHHHHHHHHHhCCCCCCCCCCCCeEEEEEEEeEEEEec---cCCCc
Q 047182 123 CGKRDPEDPVCAKITLTGKLVLVDVNSKAAEFARNALFAKHPEMKGWPKDHNFQTFKLEIDDIFLIN---WFGGP 194 (207)
Q Consensus 123 ~~~~dp~~~~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~rhP~~~~~~~~~df~~~rl~~~~~~~V~---GFG~a 194 (207)
+. ...+.|++.|++..+++ +|.+.++++|.+|||.++.. ...+|+|+++++.++| |||+.
T Consensus 76 ----~v--~~I~GvQ~~G~~~~l~~--~e~~~Ar~~Y~~rFP~A~~~----~~~iw~l~l~~iK~tdN~LGFgkK 138 (144)
T PRK03467 76 ----TV--ALIRGVQFKGEIRRLEG--EESDAARKRYNRRFPVARAL----SAPVWELRLDEIKMTDNTLGFGKK 138 (144)
T ss_pred ----ch--hhceEEEEEEEEEecCh--hHHHHHHHHHHHhCcchhcc----CCceEEEEEEEEEEeccccccccc
Confidence 12 27789999999999975 36668899999999998764 3458999999999999 99984
No 4
>TIGR03668 Rv0121_F420 PPOX class probable F420-dependent enzyme, Rv0121 family. A Genome Properties metabolic reconstruction for F420 biosynthesis shows that slightly over 10 percent of all prokaryotes with fully sequenced genomes, including about two thirds of the Actinomycetales, make F420. A variant of the Partial Phylogenetic Profiling algorithm, SIMBAL, shows that this protein likely binds F420 in a cleft similar to that in which the homologous enzyme pyridoxamine phosphate oxidase (PPOX) binds FMN.
Probab=99.67 E-value=1.8e-15 Score=118.92 Aligned_cols=124 Identities=19% Similarity=0.122 Sum_probs=96.6
Q ss_pred HHHHHHHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCC------CCCcEEEEE------eCCCcchhhhccCCCeEEE
Q 047182 47 AYARWLVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNE------GSGVPYFYL------TTLDPTASNALKDKRSSLA 114 (207)
Q Consensus 47 ~~ar~LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~------~~g~~y~~~------s~~s~h~~NL~~nprvSl~ 114 (207)
.+++++|.++.+|+|||+++ +|.|+.++|.|+ .+ +++.+||++ ++.++|.+||++||||||+
T Consensus 3 ~e~~~~L~~~~~~~LaTv~~--dG~P~vvPv~f~----~d~~~~~~~~~~i~~~~~~~~~t~~~~~K~~ni~~nPrVs~~ 76 (141)
T TIGR03668 3 FEARTRFAQARVARLATVSP--DGEPHLVPVVFA----VGAGAVAAGDAVIYTAVDAKPKTTPRLRRLRNIEENPRVSLL 76 (141)
T ss_pred HHHHHHHccCCEEEEEEECC--CCCeEEEeEEEE----EccccccCCCCEEEEEecCCCCcccccHHHHHHhhCCCEEEE
Confidence 47899999999999999998 699999999999 55 367888885 4567899999999999999
Q ss_pred EeeCCCCCCCCCCCCCCccceEEEEEEEEEecCChHHHHHHHHHHHHhCCCCCCCCCCCCeEEEEEEEeEEE
Q 047182 115 ISEYPLGTCGKRDPEDPVCAKITLTGKLVLVDVNSKAAEFARNALFAKHPEMKGWPKDHNFQTFKLEIDDIF 186 (207)
Q Consensus 115 V~~~~~~~~~~~dp~~~~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~rhP~~~~~~~~~df~~~rl~~~~~~ 186 (207)
|..... ++ .....+++.|+++.+.++++|.+.+.+.+.+||+.... .+ .+..+++|+|+++.
T Consensus 77 v~~~~~-------~~-~~~~~v~v~G~a~~~~d~~~e~~~~~~~l~~kY~~~~~-~~-~~~~vi~i~~~r~~ 138 (141)
T TIGR03668 77 VDRYDD-------DW-TRLWWVRADGRAEILRPGEEEHAAAVRLLRAKYHQYQA-VP-LEGPVIAIRVERWA 138 (141)
T ss_pred EecCCC-------Cc-cceEEEEEEEEEEEecCCchhhHHHHHHHHHHhHhhhh-cC-CCCcEEEEEEEEEe
Confidence 865432 11 13356999999999988755777888888888854111 12 23788999998653
No 5
>TIGR03618 Rv1155_F420 PPOX class probable F420-dependent enzyme. A Genome Properties metabolic reconstruction for F420 biosynthesis shows that slightly over 10 percent of all prokaryotes with fully sequenced genomes, including about two thirds of the Actinomyces, make F420. The Partial Phylogenetic Profiling algorithm identifies this members of this protein family as high-scoring proteins to the F420 biosynthesis profile. A member of this family, Rv1155, was crytallized after expression in Escherichia coli, which does not synthesize F420; the crystal structure shown to resemble FMN-binding proteins, but with a recognizable empty cleft corresponding to, yet differing profounding from, the FMN site of pyridoxine 5'-phosphate oxidase. We propose that this protein family consists of F420-binding enzymes.
Probab=99.57 E-value=8e-14 Score=104.74 Aligned_cols=109 Identities=19% Similarity=0.227 Sum_probs=87.0
Q ss_pred EEEeecCCCCCCeeEEEeccccCCCCC-CCCcEEEEEeCCCcchhhhccCCCeEEEEeeCCCCCCCCCCCCCCccceEEE
Q 047182 60 VLSTISSGLGGAPFGNVVSFSDGLPNE-GSGVPYFYLTTLDPTASNALKDKRSSLAISEYPLGTCGKRDPEDPVCAKITL 138 (207)
Q Consensus 60 vLAT~s~~~~G~P~~S~v~y~dg~~~~-~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~~~~~~dp~~~~~~Rvtl 138 (207)
+|||++. +|.|++++|.|+ .+ .++.+||+.+..++|++||++||+|||++.+.+. ...++++
T Consensus 1 ~LaTv~~--~G~P~~~pv~~~----~~~~~~~l~f~t~~~s~k~~~l~~np~v~l~~~~~~~-----------~~~~v~i 63 (117)
T TIGR03618 1 VLATIRA--DGRPQLSPVWFG----VDPDGDILVVSTTAGRAKARNLRRDPRVSLSVLDPDF-----------PYRYVEV 63 (117)
T ss_pred CEEEECC--CCCEEEEEEEEE----EcCCCCEEEEEecCCcHhhHhhhhCCeEEEEEECCCC-----------CccEEEE
Confidence 5899987 599999999998 43 4567999999999999999999999999999864 1158999
Q ss_pred EEEEEEecCChHHHHHHHHHHHHhCCCCCC---CCC---CCCeEEEEEEEeEEE
Q 047182 139 TGKLVLVDVNSKAAEFARNALFAKHPEMKG---WPK---DHNFQTFKLEIDDIF 186 (207)
Q Consensus 139 ~G~~~~v~~~~~e~~~a~~~~~~rhP~~~~---~~~---~~df~~~rl~~~~~~ 186 (207)
.|+++.++++ ++.+.+.+.|.++|..... |.+ .++-.+++|+|++++
T Consensus 64 ~G~a~~v~d~-~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~l~i~p~~~~ 116 (117)
T TIGR03618 64 EGTAELVEDP-DPVRDLVDRLAERYRGAAGEDEYRRPMVDPRRVVVRVTPTRVY 116 (117)
T ss_pred EEEEEEecCC-cccHHHHHHHHHHHcccccchhcccccCCCCEEEEEEEEEEec
Confidence 9999999764 4667788888888843321 222 367899999999864
No 6
>TIGR03666 Rv2061_F420 PPOX class probable F420-dependent enzyme, Rv2061 family. A Genome Properties metabolic reconstruction for F420 biosynthesis shows that slightly over 10 percent of all prokaryotes with fully sequenced genomes, including about two thirds of the Actinomycetales, make F420. A variant of the Partial Phylogenetic Profiling algorithm, SIMBAL, shows that this protein likely binds F420 in a cleft similar to that in which the homologous enzyme pyridoxamine phosphate oxidase (PPOX) binds FMN.
Probab=99.56 E-value=9.9e-14 Score=107.83 Aligned_cols=113 Identities=13% Similarity=0.087 Sum_probs=90.4
Q ss_pred HHHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCCCCCCCCCCCCC
Q 047182 51 WLVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYPLGTCGKRDPED 130 (207)
Q Consensus 51 ~LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~~~~~~dp~~ 130 (207)
..|+++++++|+|+.+ +|.|++++|.|+ ..+|.+||+++..++|.+||++||+|||++.+...
T Consensus 7 ~~L~~~~~~~LaT~~~--dG~P~~~Pv~~~-----~d~g~l~f~t~~~~~K~~nl~~np~Vsl~v~~~~~---------- 69 (132)
T TIGR03666 7 ADLARARYALLTTFRK--DGTPVPTPVWAA-----VDGDKLLVRTKEDSWKVKRIRNNPRVTLAPCDRRG---------- 69 (132)
T ss_pred HHhccCcEEEEEEECC--CCcEEEEEEEEE-----EECCEEEEEECCcCHHHHHHHhCCCEEEEEECCCC----------
Confidence 6788999999999887 699999999998 45689999999999999999999999999876542
Q ss_pred CccceEEEEEEEEEecCChHHHHHHHHHHHHhCCCC-CCCC-------CCCCeEEEEEEEe
Q 047182 131 PVCAKITLTGKLVLVDVNSKAAEFARNALFAKHPEM-KGWP-------KDHNFQTFKLEID 183 (207)
Q Consensus 131 ~~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~rhP~~-~~~~-------~~~df~~~rl~~~ 183 (207)
....+++.|+++.++ .+|...+.+.+.+|++.. +.|- ..+....++|.|+
T Consensus 70 -~~~~v~v~G~A~~v~--~~e~~~~~~~l~~kY~~~~~~~~~~~~~~~~~~~~~~~~~~p~ 127 (132)
T TIGR03666 70 -RPTGPVVPGRARILD--GAETARARDLLARRYGLQGRLFPLFSKLRRGRDRNVGLELTPA 127 (132)
T ss_pred -CEeEEEEEEEEEEEc--chhHHHHHHHHHHHcCChhhhhhhHHHhhccCCCceEEEEEec
Confidence 124699999999994 457778889999999663 2221 1245566777764
No 7
>TIGR03667 Rv3369 PPOX class probable F420-dependent enzyme, Rv3369 family. A Genome Properties metabolic reconstruction for F420 biosynthesis shows that slightly over 10 percent of all prokaryotes with fully sequenced genomes, including about two thirds of the Actinomycetales, make F420. A variant of the Partial Phylogenetic Profiling algorithm, SIMBAL, shows that this protein likely binds F420 in a cleft similar to that in which the homologous enzyme pyridoxamine phosphate oxidase (PPOX) binds FMN.
Probab=99.53 E-value=2.2e-13 Score=105.34 Aligned_cols=118 Identities=18% Similarity=0.080 Sum_probs=91.7
Q ss_pred HHHHHHHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCCCCCCCCC
Q 047182 47 AYARWLVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYPLGTCGKR 126 (207)
Q Consensus 47 ~~ar~LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~~~~~~ 126 (207)
+..+++|.+.+++.|||+++ +|.|++.+|.|. . .+|.++|+....+.|.+||++||+|+|++..+..
T Consensus 5 ~~~~~~L~~~~~~~LaT~~~--dG~P~~~P~~~~----~-~d~~l~~~t~~~s~K~~~l~~np~Vsl~~~~~~~------ 71 (130)
T TIGR03667 5 AKVARRLREESIVWLTTVRR--SGQPQPVPVWFL----W-DGTEFLIYSRPQAAKLRNIRRNPRVSLHLNSDGR------ 71 (130)
T ss_pred HHHHHHhcCCCeEEEEEECC--CCceEEEEEEEE----E-ECCEEEEEeCCcCHHHHHHhhCCcEEEEEEcCCC------
Confidence 57889999999999999988 599999999998 4 4788999999999999999999999999977543
Q ss_pred CCCCCccceEEEEEEEEEecCChHHHHHHHHHHHHhCCC-CCCC-C-----CCCCeEEEEEEEeE
Q 047182 127 DPEDPVCAKITLTGKLVLVDVNSKAAEFARNALFAKHPE-MKGW-P-----KDHNFQTFKLEIDD 184 (207)
Q Consensus 127 dp~~~~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~rhP~-~~~~-~-----~~~df~~~rl~~~~ 184 (207)
...-+.+.|+++.+++. +.. +..+.|.+++++ .+.+ . ..+.-.++||+|++
T Consensus 72 -----~~~~v~v~G~a~i~~d~-~~~-~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 129 (130)
T TIGR03667 72 -----GGDVVVFTGTAEVVADA-PPA-REIPAYLAKYREDAARIGMTPERFAADYSVPLRVTPER 129 (130)
T ss_pred -----CceEEEEEEEEEEeCCc-hhH-HHHHHHHHHhhHHHhcCCCChhHhhhccceeEEEeccc
Confidence 12468999999988764 233 345667777754 2222 2 12334599999875
No 8
>PF01243 Pyridox_oxidase: Pyridoxamine 5'-phosphate oxidase; InterPro: IPR011576 Pyridoxamine 5'-phosphate oxidase (PNPOx; 1.4.3.5 from EC) is a FMN flavoprotein that catalyses the oxidation of pyridoxamine-5-P (PMP) and pyridoxine-5-P (PNP) to pyridoxal-5-P (PLP). This reaction serves as the terminal step in the de novo biosynthesis of PLP in Escherichia coli and as a part of the salvage pathway of this coenzyme in both E. coli and mammalian cells [, ]. The binding sites for FMN and for substrate have been highly conserved throughout evolution. This entry represents the FMN-binding domain present in pyridoxamine 5'-phosphate oxidases, as well as in a number of proteins that have not been demonstrated to have enzymatic activity. The FMN-binding domain has a structure consisting of a beta-barrel with Greek key topology, and is related to the ferredoxin reductase-like FAD-binding domain. PNPOx has a different dimerisation mode than that found in flavin reductases, which also carry an FMN-binding domain with a similar topology. ; GO: 0004733 pyridoxamine-phosphate oxidase activity, 0010181 FMN binding, 0055114 oxidation-reduction process; PDB: 2IG6_A 1CI0_A 2HQ7_B 2HTD_B 3EC6_A 1WV4_B 1DNL_A 1G76_A 1G79_A 1G77_A ....
Probab=99.53 E-value=1.3e-13 Score=98.33 Aligned_cols=85 Identities=18% Similarity=0.253 Sum_probs=74.9
Q ss_pred HHHHHHHHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCC-CcEEEEEeCCCcchhhhccCCCeEEEEeeCCCCCCC
Q 047182 46 AAYARWLVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGS-GVPYFYLTTLDPTASNALKDKRSSLAISEYPLGTCG 124 (207)
Q Consensus 46 ~~~ar~LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~-g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~~~~ 124 (207)
-++++++|+++++++|||+++ +|.|+++++.|. ...+ ..+||.....+.|++||++||+|+|++.+.+.
T Consensus 2 ~~~~~~~l~~~~~~~laTv~~--dG~P~~~~v~~~----~~~~~~~i~~~t~~~~~k~~nl~~np~v~l~~~~~~~---- 71 (89)
T PF01243_consen 2 TEEIREFLEESKYCVLATVDE--DGRPHASPVWFV----YDDDDNTIYFATNPGSRKVRNLRRNPRVSLLFCDPEG---- 71 (89)
T ss_dssp HHHHHHHHHSTSEEEEEEEET--TSEEEEEEEEEE----EECTTTEEEEEEETTSHHHHHHHHSTEEEEEEEETTT----
T ss_pred cHHHHHHhcCCCEEEEEEECC--CCCEEEEEEeee----cCCceeEEEEeecCCCCchhhCccCCeEEEEEEEcCc----
Confidence 367899999999999999997 699999999998 3333 36999999999999999999999999999972
Q ss_pred CCCCCCCccceEEEEEEEEEecC
Q 047182 125 KRDPEDPVCAKITLTGKLVLVDV 147 (207)
Q Consensus 125 ~~dp~~~~~~Rvtl~G~~~~v~~ 147 (207)
....+++.|+++.+++
T Consensus 72 -------~~~~v~~~G~a~~~~d 87 (89)
T PF01243_consen 72 -------TRRGVRVSGTAEILTD 87 (89)
T ss_dssp -------TTEEEEEEEEEEEESH
T ss_pred -------CceEEEEEEEEEEEcC
Confidence 3379999999999974
No 9
>PF12900 Pyridox_ox_2: Pyridoxamine 5'-phosphate oxidase; InterPro: IPR024747 Pyridoxamine 5'-phosphate oxidase is a FMN flavoprotein that catalyses the oxidation of pyridoxamine-5-P (PMP) and pyridoxine-5-P (PNP) to pyridoxal-5-P (PLP). This entry contains several uncharacterised proteins, some annotated as pyridoxamine 5'-phosphate oxidase-related.; PDB: 3U5W_A 3U0I_A 2X1K_A 1W3Q_A 1W3P_A 1W3O_A 2VPA_A 2X1J_A 1W3R_A 3FKH_A ....
Probab=99.52 E-value=2.4e-13 Score=106.41 Aligned_cols=128 Identities=15% Similarity=0.186 Sum_probs=100.2
Q ss_pred HHHHHHHHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCCCCCCCC
Q 047182 46 AAYARWLVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYPLGTCGK 125 (207)
Q Consensus 46 ~~~ar~LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~~~~~ 125 (207)
.+++.+||+++.+|+||+++ +|.||+.+++|+ .+ +|.+||+++..+++.++|.+|| ||+.+...+.-.. .
T Consensus 2 ~~e~~~iL~~~~~g~la~~~---~~~Py~vP~~f~----~~-~~~ly~h~~~~g~k~~~l~~~p-v~~~~~~~~~~~~-~ 71 (143)
T PF12900_consen 2 REEIWEILDRAPVGRLAFVD---DGYPYIVPVNFV----YD-GGSLYFHGARGGKKIELLRNNP-VCFTVDEVDELVP-A 71 (143)
T ss_dssp HHHHHHHHHH-SEEEEEEEE---TTEEEEEEEEEE----EE-TTEEEEEECSHSHHHHHHHHEE-EEEEEEEEEEEEE-T
T ss_pred HHHHHHHHhhCCEEEEEEEe---CCEEEEEEEEEE----EE-CCEEEEEECCcchHHHHhccCC-eEEEEEecCcEee-c
Confidence 46899999999999999998 489999999999 44 7889999999999999999999 9999988432000 0
Q ss_pred CCCC--CCccceEEEEEEEEEecCChHHHHHHHHHHHHhC-CCCCCCCC--------CCCeEEEEEEEeEEE
Q 047182 126 RDPE--DPVCAKITLTGKLVLVDVNSKAAEFARNALFAKH-PEMKGWPK--------DHNFQTFKLEIDDIF 186 (207)
Q Consensus 126 ~dp~--~~~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~rh-P~~~~~~~--------~~df~~~rl~~~~~~ 186 (207)
..+. .....+|+++|+++.|++ .+|+.++.+.+.+++ |.- |-+ ...+.+|||+|+++.
T Consensus 72 ~~~~~~~~~y~SVi~~G~~~~v~d-~~ek~~al~~l~~~~~p~~--~~~~~~~~~~~~~~~~v~ri~i~~~s 140 (143)
T PF12900_consen 72 ESACSFSMNYRSVIVFGRAEEVED-EEEKAEALRALLEKYAPGR--WDEIRPFADKELKRTAVYRIDIEELS 140 (143)
T ss_dssp SCGGGEEEEEEEEEEEEEEEEEHS-HHHHHHHHHHHHHHHSTTT--CCCSC---HHHHHTEEEEEEEEEEEE
T ss_pred ccCCcCcceEEEEEEEEEEEEeCC-HHHHHHHHHHHHHhccCCC--cccccccchhhhcCeEEEEEEeEEEE
Confidence 0111 013679999999999976 568888999999988 643 322 136899999999875
No 10
>COG0748 HugZ Putative heme iron utilization protein [Inorganic ion transport and metabolism]
Probab=99.38 E-value=2.1e-14 Score=120.90 Aligned_cols=148 Identities=20% Similarity=0.198 Sum_probs=129.3
Q ss_pred hHHHHHHHHHHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCCCCC
Q 047182 43 NDAAAYARWLVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYPLGT 122 (207)
Q Consensus 43 ~~~~~~ar~LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~~ 122 (207)
.++...+|.++++.+.|.|+|+.+. +|+||+|.+++. .+-+|++.++++..+.|++ +.+|+|+|+++-+.+.
T Consensus 3 ~ea~~na~~~l~~~~~~~l~~~~~~-~g~p~~sv~~~g----id~~g~p~~~~~~~~~h~~-~~~d~r~sil~~~~g~-- 74 (245)
T COG0748 3 IEAHMNARHLLRSARLAALAGLEPV-TGVPFVSVVPVG----IDIDGNPLILLSRLFPHTA-DEADPRCSILLGEPGK-- 74 (245)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCC-CCCceeeeccce----eccCCCcceeEeeeccccc-cccChhhhheecCcCc--
Confidence 4677889999999999999999988 999999999999 8999999999999999999 9999999999999874
Q ss_pred CCCCCCCCCccceEEEEEEEEEecCChHHHHHHHHHHHHhCCCCCCCCCCCCeEEEEEEEeEEEEeccCCC-ceeechhh
Q 047182 123 CGKRDPEDPVCAKITLTGKLVLVDVNSKAAEFARNALFAKHPEMKGWPKDHNFQTFKLEIDDIFLINWFGG-PKPLTVDQ 201 (207)
Q Consensus 123 ~~~~dp~~~~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~rhP~~~~~~~~~df~~~rl~~~~~~~V~GFG~-a~~v~~~~ 201 (207)
+|+. +.+|+|+.++..+++.++-....+.+.+.-++|.+.-+...+||.+|+.++.+-..-.||+. +..+-.+|
T Consensus 75 ---~d~~--~~~Rl~~e~~afr~~~~sv~lat~~~~g~~~~syAp~~~~~~d~~iyis~~arh~~N~~~~p~vs~m~ied 149 (245)
T COG0748 75 ---GDEL--ALPRLTLEIEAFRLEFDSVALATLRERGLPRASYAPLYVDDGDYYIYISEIARHARNLGFNPKVSVMFIED 149 (245)
T ss_pred ---CChh--hccchhHHHHHHHhccchHHHhhhhhcCCcCCCcCceEecCCceEEEEehHHHHhhccCcCCchhhheecC
Confidence 5665 88999999999999987666666677788889999999999999999999999888888887 33344444
Q ss_pred hc
Q 047182 202 YL 203 (207)
Q Consensus 202 ~~ 203 (207)
..
T Consensus 150 ea 151 (245)
T COG0748 150 EA 151 (245)
T ss_pred ch
Confidence 43
No 11
>COG3467 Predicted flavin-nucleotide-binding protein [General function prediction only]
Probab=99.38 E-value=1.6e-11 Score=98.97 Aligned_cols=130 Identities=14% Similarity=0.143 Sum_probs=97.8
Q ss_pred HHHHHHHHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCCCCCCCC
Q 047182 46 AAYARWLVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYPLGTCGK 125 (207)
Q Consensus 46 ~~~ar~LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~~~~~ 125 (207)
.+.+..+|..+.+|+||+.+. |.||+.+++|+ ..++.+|++.+..++|..+|.+||.|||.+.+....- .
T Consensus 13 ~~~i~~~l~~~~~~~La~~~~---~~PyivP~~y~-----~~~~~lY~h~~~~grk~~~l~~~p~V~~ev~~~~~~~-~- 82 (166)
T COG3467 13 DEEIDAILAAGRVGRLAFAGD---GQPYVVPLNYG-----YEGGHLYFHGSPEGRKIELLRKNPLVCLEVDEIHGLV-L- 82 (166)
T ss_pred HHHHHHHHhhCCEEEEEEcCC---CCcEEEEeEeE-----EeCCeEEEEeCCcchhhHHhhcCCcEEEEEEccccce-e-
Confidence 467999999999999999884 78999999999 6678899999999999999999999999999987311 0
Q ss_pred CCCC--CCccceEEEEEEEEEecCChHHHHHHHHHHHHh----CCCC-----CCCC----CCCCeEEEEEEEeEEE
Q 047182 126 RDPE--DPVCAKITLTGKLVLVDVNSKAAEFARNALFAK----HPEM-----KGWP----KDHNFQTFKLEIDDIF 186 (207)
Q Consensus 126 ~dp~--~~~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~r----hP~~-----~~~~----~~~df~~~rl~~~~~~ 186 (207)
..|+ +.....|.++|++++|+++ +++..+++.+.++ ++.. .... ......+|++.++.+.
T Consensus 83 ~~~~~~s~~y~SVvv~G~~~~l~~~-~~k~~~l~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~i~~~~~t 157 (166)
T COG3467 83 KSPFNSSRNYRSVVVFGRAEELSDL-EEKAAALDHAWSLLMKGRPNWWEPGGRKEVPETVDSSPHSFFRIKIDEIT 157 (166)
T ss_pred cccccCCcceEEEEEEeEEEEcCCh-HHHHHHHHHHHHHhcccCcCcCCCCCccccccccccccceEEEEEcceec
Confidence 1121 2378999999999999874 5777777443332 3221 1111 2234678888887764
No 12
>COG0748 HugZ Putative heme iron utilization protein [Inorganic ion transport and metabolism]
Probab=99.28 E-value=1.9e-13 Score=115.25 Aligned_cols=144 Identities=14% Similarity=0.104 Sum_probs=125.5
Q ss_pred HHHHHHHHHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCCCCCCC
Q 047182 45 AAAYARWLVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYPLGTCG 124 (207)
Q Consensus 45 ~~~~ar~LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~~~~ 124 (207)
.-.+++.+...++...|||+.. +|.|-+|+.+++ ..++.+|+|.|..++|+.|+..||+||+|+.+++..
T Consensus 83 l~~e~~afr~~~~sv~lat~~~--~g~~~~syAp~~-----~~~~d~~iyis~~arh~~N~~~~p~vs~m~iedea~--- 152 (245)
T COG0748 83 LTLEIEAFRLEFDSVALATLRE--RGLPRASYAPLY-----VDDGDYYIYISEIARHARNLGFNPKVSVMFIEDEAK--- 152 (245)
T ss_pred hhHHHHHHHhccchHHHhhhhh--cCCcCCCcCceE-----ecCCceEEEEehHHHHhhccCcCCchhhheecCchh---
Confidence 3457899999999999999998 599999999998 556779999999999999999999999999999862
Q ss_pred CCCCCCCccceEEEEEEEEEecCChHHHHHHHHHHHHhCCC-CCCCCCCCCeEEEEEEEeEEEEeccCCCceeechhh
Q 047182 125 KRDPEDPVCAKITLTGKLVLVDVNSKAAEFARNALFAKHPE-MKGWPKDHNFQTFKLEIDDIFLINWFGGPKPLTVDQ 201 (207)
Q Consensus 125 ~~dp~~~~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~rhP~-~~~~~~~~df~~~rl~~~~~~~V~GFG~a~~v~~~~ 201 (207)
.... ....|++....+..++. .+++......+.+++.. ++..-...||.++++++.+..++-|||+++.++.+.
T Consensus 153 a~s~--~~r~rl~~hmnAd~~ea-i~~yaqv~~~~~e~~~~~I~~Id~~gdfll~~l~~~~gl~v~gFgqa~~~~~d~ 227 (245)
T COG0748 153 AKSA--FARKRLREHMNADHAEA-IAEYAQVLAQLAEATGGRIKGIDAMGDFLLFQLTPGQGLFVKGFGQAYAISGDG 227 (245)
T ss_pred hhhH--HHHHHHHHHhhhHHHHH-HHHHHHHHHHHhhhhcchhhcccccccceeeeccCCCceEEeccchhhccccch
Confidence 1122 37788999999989988 67888888999998876 777777899999999999999999999999988754
No 13
>COG3871 Uncharacterized stress protein (general stress protein 26) [General function prediction only]
Probab=99.13 E-value=9.4e-10 Score=85.89 Aligned_cols=126 Identities=17% Similarity=0.270 Sum_probs=98.3
Q ss_pred chHHHHHHHHHHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCC-CcEEEEEeCCCcchhhhccCCCeEEEEeeCCC
Q 047182 42 PNDAAAYARWLVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGS-GVPYFYLTTLDPTASNALKDKRSSLAISEYPL 120 (207)
Q Consensus 42 ~~~~~~~ar~LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~-g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~ 120 (207)
..+..+....+++..++|+|+|+.. +|.|+.-+|.|- .+.. |++||..++.++++..|++||+|++++..+..
T Consensus 3 ~~~~~~~~~~~~e~~kv~~l~tv~~--~g~phsRpM~f~----hdg~~~tiwf~T~kds~~v~eik~n~~v~v~~~~~~~ 76 (145)
T COG3871 3 ESKALQALAELLEGSKVGMLATVQE--NGHPHSRPMTFN----HDGPKGTIWFFTNKDSRKVEEIKKNPKVCVLFGYDDH 76 (145)
T ss_pred HHHHHHHHHHHHhhCceEEEEEecC--CCCccccceecc----CCCCcccEEeeccCchHHHHHHhhCCcEEEEEecCCC
Confidence 3566778899999999999999987 589999999976 2332 89999999999999999999999999998863
Q ss_pred CCCCCCCCCCCccceEEEEEEEEEecCChHHHHHHHHHHHHhCCCCCCCC----CCCCeEEEEEEEeEEEEeccCC
Q 047182 121 GTCGKRDPEDPVCAKITLTGKLVLVDVNSKAAEFARNALFAKHPEMKGWP----KDHNFQTFKLEIDDIFLINWFG 192 (207)
Q Consensus 121 ~~~~~~dp~~~~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~rhP~~~~~~----~~~df~~~rl~~~~~~~V~GFG 192 (207)
..-|.+.|+++.+++. +-.+.. + -+..+.|. +.+++.+.+|+|+++.|-.-=+
T Consensus 77 ------------~~fv~v~Gtael~~dr-a~~d~~---W---~~~~~~wFe~GkedP~l~~Lkv~~e~i~yw~~~~ 133 (145)
T COG3871 77 ------------DAFVEVSGTAELVEDR-AKIDEL---W---TSVLEAWFEQGKEDPDLTMLKVTAEDIDYWNSGD 133 (145)
T ss_pred ------------cceEEEEEEEEeeccH-HHHHHh---h---hhhHHHHHhcCCCCCCeEEEEEchhHhHHHhccC
Confidence 1579999999998752 222221 1 03333443 3489999999999998876433
No 14
>PRK05679 pyridoxamine 5'-phosphate oxidase; Provisional
Probab=99.04 E-value=8.7e-09 Score=85.06 Aligned_cols=121 Identities=13% Similarity=0.183 Sum_probs=86.7
Q ss_pred HHHHHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCCCCCCCCCCC
Q 047182 49 ARWLVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYPLGTCGKRDP 128 (207)
Q Consensus 49 ar~LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~~~~~~dp 128 (207)
.+.-++....++|||++. +|.|.+.+|-+.+ .+.+| ++|++...++|+++|.+||+|+|++...+.
T Consensus 20 ~~~~~~~~~~~~lATv~~--dG~P~~R~V~lr~---~~~~~-l~f~T~~~S~K~~~l~~np~val~~~~~~~-------- 85 (195)
T PRK05679 20 VKAELNDPNAMTLATVDE--DGRPSQRIVLLKG---FDERG-FVFYTNYESRKGRQLAANPKAALLFPWKSL-------- 85 (195)
T ss_pred HhcCCCCCceEEEEeeCC--CCCEEEEEEEEEE---ECCCe-EEEEeCCCCHHHHHHhhCCcEEEEEecCCC--------
Confidence 344567788999999998 5999999998741 24555 999999999999999999999999987743
Q ss_pred CCCccceEEEEEEEEEecCChHHHHHHHH------------------------------HHHHhCCCCCCCCCCCCeEEE
Q 047182 129 EDPVCAKITLTGKLVLVDVNSKAAEFARN------------------------------ALFAKHPEMKGWPKDHNFQTF 178 (207)
Q Consensus 129 ~~~~~~Rvtl~G~~~~v~~~~~e~~~a~~------------------------------~~~~rhP~~~~~~~~~df~~~ 178 (207)
...|.+.|+++.++++ +.++.-+ .+..++++ .....-+.|..|
T Consensus 86 ----~~qvrv~G~a~~~~~~--~~~~~w~~~p~~~r~~~~~~~qg~~i~~~~~~~~~~~~~~~~~~~-~~~~~p~~f~~~ 158 (195)
T PRK05679 86 ----ERQVRVEGRVEKVSAE--ESDAYFASRPRGSQIGAWASKQSRPISSRAALEAKFAEVKAKFAQ-GEVPRPPHWGGY 158 (195)
T ss_pred ----CEEEEEEEEEEEeCHH--HHHHHHHhCCHhhhceeeeCCCCCccCCHHHHHHHHHHHHhhccC-CCCCCCCccEEE
Confidence 2588999999988642 2111111 11111111 111223679999
Q ss_pred EEEEeEEEEecc
Q 047182 179 KLEIDDIFLINW 190 (207)
Q Consensus 179 rl~~~~~~~V~G 190 (207)
+|.|+++-|..+
T Consensus 159 ~l~p~~veflql 170 (195)
T PRK05679 159 RVVPESIEFWQG 170 (195)
T ss_pred EEECCEEEEcCC
Confidence 999999988775
No 15
>COG3787 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=98.98 E-value=1.2e-08 Score=78.17 Aligned_cols=132 Identities=12% Similarity=0.091 Sum_probs=106.3
Q ss_pred HHHHHHHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCCCc-EEEEEeCCCcchhhhccCCCeEEEEeeCCCCCCCC
Q 047182 47 AYARWLVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGV-PYFYLTTLDPTASNALKDKRSSLAISEYPLGTCGK 125 (207)
Q Consensus 47 ~~ar~LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~-~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~~~~~ 125 (207)
+.+-++|+++...+++... +|.||+.-..|+ .|.... +|++.-+..+|.+=+..|++|..+|.....
T Consensus 3 ~rI~~flkkq~v~Tw~~~~---e~~~w~asafYv----FDek~~ali~~T~e~TrHa~l~~~ns~VAgtv~~qsK----- 70 (145)
T COG3787 3 TRISRFLKKQHVLTWCVQQ---EGELWCASAFYV----FDEKNVALIILTEEKTRHAQLSGPNSAVAGTVAGQSK----- 70 (145)
T ss_pred hHHHHHHHhhheeeeeeec---CCceeeeeeEEE----EcccceEEEEEeccchhHHHhhCCCCceeeEeccCce-----
Confidence 3567889999999999987 489999999999 676655 444445556899999999999999987753
Q ss_pred CCCCCCccceEEEEEEEEEecCChHHHHHHHHHHHHhCCCCCCCCCCCCeEEEEEEEeEEEEec---cCCC-ceeech
Q 047182 126 RDPEDPVCAKITLTGKLVLVDVNSKAAEFARNALFAKHPEMKGWPKDHNFQTFKLEIDDIFLIN---WFGG-PKPLTV 199 (207)
Q Consensus 126 ~dp~~~~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~rhP~~~~~~~~~df~~~rl~~~~~~~V~---GFG~-a~~v~~ 199 (207)
.- +..+.|++.|++..+..+ +.+.|+++|.+|||.++.- .--+|+|+.+.+.+.| |||+ ..|...
T Consensus 71 tv---a~ikGVQfkge~~~l~~~--q~~~Ark~Y~~rfp~akvd----~a~vwqleL~~ikftdNaLG~~kklew~r~ 139 (145)
T COG3787 71 TV---ALIKGVQFKGEISRLSGE--QSDAARKAYNRRFPVAKVD----SAPVWQLELDEIKFTDNALGFGKKLEWLRG 139 (145)
T ss_pred ee---eeeeeeeeeeeehhhhcc--hHHHHHHHHhccCchhhcc----cCceEEeeeeeEEeecccccccceEEEecc
Confidence 11 367899999999999854 6678999999999987643 2468999999999999 9998 455543
No 16
>PRK06733 hypothetical protein; Provisional
Probab=98.86 E-value=1.2e-07 Score=75.12 Aligned_cols=112 Identities=11% Similarity=0.112 Sum_probs=91.7
Q ss_pred HHHHHHHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCCCCCCCCC
Q 047182 47 AYARWLVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYPLGTCGKR 126 (207)
Q Consensus 47 ~~ar~LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~~~~~~ 126 (207)
++..++|+..+.++|+|++.+ +|+|+.++++++. .-++.++.|....+++..+||++||+++|.+..++.
T Consensus 11 ~el~~~L~~~~~~~laTv~ke-dG~Pnv~~Iswv~---a~d~~tIr~A~~~~skT~~NLk~Np~v~I~~~~~~~------ 80 (151)
T PRK06733 11 EDLVQLLRKERIVTLATTDFE-KQVPNVSAISWVY---AVSKTSIRFAVDQRSRIVENIRHNPGVVLTIIANES------ 80 (151)
T ss_pred HHHHHHHcCCceEEEEEEccC-CCceeEEEEEEEE---EcCCCEEEEEEccCcHhHHHHhhCCcEEEEEEeCCc------
Confidence 567889999999999999953 6999999999772 234578999999999999999999999999999863
Q ss_pred CCCCCccceEEEEEEEEEecCChHHHHHHHHHHHHhCCCCCCCCCCCCeEEEEEEEeEEEEeccCCCce
Q 047182 127 DPEDPVCAKITLTGKLVLVDVNSKAAEFARNALFAKHPEMKGWPKDHNFQTFKLEIDDIFLINWFGGPK 195 (207)
Q Consensus 127 dp~~~~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~rhP~~~~~~~~~df~~~rl~~~~~~~V~GFG~a~ 195 (207)
..++.|+++.+.+. +. ..| -..+++.+++++++=+-.+|...
T Consensus 81 --------~yqIkG~a~i~~e~------ie-----~vp--------lk~s~vei~I~eVrdv~FyGa~i 122 (151)
T PRK06733 81 --------VYSISGAAEILTDR------ME-----GVP--------LKLALIEVNVEEVRDVMFYGAKI 122 (151)
T ss_pred --------EEEEEEEEEEEeee------cc-----ccc--------ceEEEEEEEEEEEEEeeecccee
Confidence 38999999888632 10 112 13899999999999999998743
No 17
>TIGR00558 pdxH pyridoxamine-phosphate oxidase. This model is similar to Pyridox_oxidase from PFAM but is designed to find only true pyridoxamine-phosphate oxidase and to ignore the related protein PhzG involved in phenazine biosynthesis. This protein from E. coli was characterized as a homodimer with two FMN per dimer.
Probab=98.82 E-value=1.3e-07 Score=79.47 Aligned_cols=77 Identities=16% Similarity=0.144 Sum_probs=63.8
Q ss_pred HhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCCCCCCCCCCCCCCc
Q 047182 53 VSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYPLGTCGKRDPEDPV 132 (207)
Q Consensus 53 L~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~~~~~~dp~~~~ 132 (207)
+..-+.++|||++. +|.|.+-+|-+. ...++.++|++...+.|+++|.+||+|+|++.....
T Consensus 46 ~~~~~~~~LaTvd~--~G~P~~R~v~lr----~~~~~~l~F~T~~~S~K~~eL~~np~v~l~f~~~~~------------ 107 (217)
T TIGR00558 46 LTEPNAMTLSTVDE--SGRPSSRMVLLK----ELDERGFVFYTNYGSRKGHQIETNPNAALVFFWPDL------------ 107 (217)
T ss_pred CCCCceEEEEEECC--CCCEEEEEEEEE----EECCCcEEEEECCCChHHHHHHhCCcEEEEEEeCCC------------
Confidence 34577899999987 599999988885 223345999999999999999999999999988753
Q ss_pred cceEEEEEEEEEecC
Q 047182 133 CAKITLTGKLVLVDV 147 (207)
Q Consensus 133 ~~Rvtl~G~~~~v~~ 147 (207)
..-|.|.|+++.+++
T Consensus 108 ~~qvrv~G~a~~~~~ 122 (217)
T TIGR00558 108 ERQVRVEGKVEKLPR 122 (217)
T ss_pred CEEEEEEEEEEECCH
Confidence 368999999998764
No 18
>PLN03049 pyridoxine (pyridoxamine) 5'-phosphate oxidase; Provisional
Probab=98.65 E-value=8.2e-07 Score=82.21 Aligned_cols=118 Identities=17% Similarity=0.188 Sum_probs=85.9
Q ss_pred HhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCCCCCCCCCCCCCCc
Q 047182 53 VSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYPLGTCGKRDPEDPV 132 (207)
Q Consensus 53 L~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~~~~~~dp~~~~ 132 (207)
+...+.++|||++. +|.|.+-+|-+-+ .+.+| +.||+...|+|.++|.+||+|||++...+.
T Consensus 286 ~~ep~am~LATvd~--~G~P~~R~VlLk~---~d~~g-~~F~Tn~~S~K~~eL~~Np~aal~F~w~~~------------ 347 (462)
T PLN03049 286 LREPNAMTLATAGE--DGRPSARIVLLKG---VDKRG-FVWYTNYDSRKAHELSANPKASLVFYWDGL------------ 347 (462)
T ss_pred CCCCCeeEEEEECC--CCCeeEEEEEEeE---EcCCc-EEEEECCCCHHHHHHhhCCcEEEEeecCCC------------
Confidence 56889999999998 5999999986541 24445 699999999999999999999999997753
Q ss_pred cceEEEEEEEEEecCChHHHHHH------------------------------HHHHHHhCCCCCCCCCCCCeEEEEEEE
Q 047182 133 CAKITLTGKLVLVDVNSKAAEFA------------------------------RNALFAKHPEMKGWPKDHNFQTFKLEI 182 (207)
Q Consensus 133 ~~Rvtl~G~~~~v~~~~~e~~~a------------------------------~~~~~~rhP~~~~~~~~~df~~~rl~~ 182 (207)
...|.+.|+++++++ +|.++. .+.+..+|++.+....-+.|..|++.|
T Consensus 348 ~rQvRv~G~a~~~~~--~~s~~yf~~rp~~sq~~a~as~qs~~i~~~~~l~~~~~~~~~~~~~~~~~p~p~~w~g~~v~p 425 (462)
T PLN03049 348 HRQVRVEGSVEKVSE--EESDQYFHSRPRGSQIGALVSKQSTVIPGRHILDQSYKELEAKYADSSAIPKPKHWGGYRLKP 425 (462)
T ss_pred CEEEEEEEEEEECCH--HHHHHHHHhCChhhhhhheeCCCCCcCCCHHHHHHHHHHHHHhhccCCCCCCCCceEEEEEEe
Confidence 368999999999873 222111 122222332222233346899999999
Q ss_pred eEEEEecc
Q 047182 183 DDIFLINW 190 (207)
Q Consensus 183 ~~~~~V~G 190 (207)
+++-|..|
T Consensus 426 ~~iEfwq~ 433 (462)
T PLN03049 426 ELIEFWQG 433 (462)
T ss_pred eEEEEccC
Confidence 99966655
No 19
>COG0259 PdxH Pyridoxamine-phosphate oxidase [Coenzyme metabolism]
Probab=98.33 E-value=1.9e-05 Score=65.18 Aligned_cols=120 Identities=17% Similarity=0.199 Sum_probs=88.1
Q ss_pred HHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCCCCCCCCCCCCCC
Q 047182 52 LVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYPLGTCGKRDPEDP 131 (207)
Q Consensus 52 LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~~~~~~dp~~~ 131 (207)
=+..-+-++|||++. +|.|.+-+|=.-+ .|+.| ++||+.-.|+|.+.|.+||++|+++...+.
T Consensus 42 ~~~ePnAm~lATvd~--~G~P~~R~VLLK~---~DerG-fvFyTN~~S~Kg~eLa~np~Aal~F~W~~L----------- 104 (214)
T COG0259 42 EVNEPNAMTLATVDE--QGRPSSRIVLLKE---LDERG-FVFYTNYGSRKGRELAANPYAALLFPWKEL----------- 104 (214)
T ss_pred ccCCCceeEEEeecC--CCCceeeEEEecc---cCCCc-EEEEeccCCcchhhHhhCcceeEEecchhc-----------
Confidence 367778999999998 6999998887661 35566 999999999999999999999999998874
Q ss_pred ccceEEEEEEEEEecCChHH----------------------------HHHHHHHHHHhCCCCCCCCCCCCeEEEEEEEe
Q 047182 132 VCAKITLTGKLVLVDVNSKA----------------------------AEFARNALFAKHPEMKGWPKDHNFQTFKLEID 183 (207)
Q Consensus 132 ~~~Rvtl~G~~~~v~~~~~e----------------------------~~~a~~~~~~rhP~~~~~~~~~df~~~rl~~~ 183 (207)
...|.+.|++++|.++..+ .+.....+.+||+... .+.-+-+.-|||.|+
T Consensus 105 -~RQVrv~G~ve~vs~eesd~Yf~sRPr~S~iGAWAS~QS~~i~~r~~Le~~~ae~~~kf~~~~-iP~P~~WgG~ri~p~ 182 (214)
T COG0259 105 -ERQVRVEGRVERVSDEESDAYFASRPRGSQIGAWASKQSRPIASRAALEAKVAELTAKFADGE-IPRPPHWGGFRIVPE 182 (214)
T ss_pred -cceEEEeeeeeeCCHHHHHHHHhcCCCcCccchhhccCccccCCHHHHHHHHHHHHHhcCCCC-CCCCCCccceEeeee
Confidence 2579999999999753111 1111233344555544 222345677999999
Q ss_pred EEEEecc
Q 047182 184 DIFLINW 190 (207)
Q Consensus 184 ~~~~V~G 190 (207)
.|-+=.|
T Consensus 183 ~iEFWqg 189 (214)
T COG0259 183 SIEFWQG 189 (214)
T ss_pred EEEEecC
Confidence 9986544
No 20
>COG5015 Uncharacterized conserved protein [Function unknown]
Probab=98.26 E-value=2.7e-05 Score=59.17 Aligned_cols=119 Identities=14% Similarity=0.111 Sum_probs=89.7
Q ss_pred HHHHHHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCCCCCCCCCC
Q 047182 48 YARWLVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYPLGTCGKRD 127 (207)
Q Consensus 48 ~ar~LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~~~~~~d 127 (207)
.+.++|+.+..+.|||+. +|.|=.-+..+. ....+.+||.....-.-++.|.+||.|+++=..-..
T Consensus 3 d~leFLken~~~~laTve---~gkPrvRpfq~~----f~~g~KlYfcTantK~~yKqik~np~vefcg~~kdg------- 68 (132)
T COG5015 3 DPLEFLKENKSVALATVE---DGKPRVRPFQVM----FVEGEKLYFCTANTKPYYKQIKKNPEVEFCGMDKDG------- 68 (132)
T ss_pred cHHHHHHhCCcEEEEEcc---CCCcceeeccce----eeeCCEEEEEeCCChHHHHHHhhCCCeEEEEecCCc-------
Confidence 456899999999999998 488877666655 445577888877777889999999999998655532
Q ss_pred CCCCccceEEEEEEEEEecCChHHHHHHHHHHHHhCCCCCCCCCC---CCeEEEEEEEeEEEEeccC
Q 047182 128 PEDPVCAKITLTGKLVLVDVNSKAAEFARNALFAKHPEMKGWPKD---HNFQTFKLEIDDIFLINWF 191 (207)
Q Consensus 128 p~~~~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~rhP~~~~~~~~---~df~~~rl~~~~~~~V~GF 191 (207)
.=|.++|+++-+++- .+++..++.+|.++..-+. +-|.++-++...+..-+--
T Consensus 69 ------~~vrlrg~a~f~~ni-----elkk~ale~yP~Lkeiy~tddnpifevfyld~~e~~m~df~ 124 (132)
T COG5015 69 ------VMVRLRGRAEFVENI-----ELKKLALEIYPVLKEIYPTDDNPIFEVFYLDSGEGEMYDFS 124 (132)
T ss_pred ------eEEEEeeeEEeccch-----HHHHHHhhhchhhHhhccCCCCCEEEEEEEeeccEEEEEec
Confidence 345599999998752 4677888999998877653 5677777776666554433
No 21
>PLN02918 pyridoxine (pyridoxamine) 5'-phosphate oxidase
Probab=98.18 E-value=4.3e-05 Score=71.90 Aligned_cols=120 Identities=16% Similarity=0.147 Sum_probs=87.2
Q ss_pred HhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCCCCCCCCCCCCCCc
Q 047182 53 VSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYPLGTCGKRDPEDPV 132 (207)
Q Consensus 53 L~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~~~~~~dp~~~~ 132 (207)
+..-+-++|||++. +|.|.+-+|-+-+ .+.+| ++||+...|+|.+.|.+||+|++++...+.
T Consensus 368 ~~eP~Am~LATv~~--~G~P~~RtVlLk~---~d~~g-~~F~Tn~~S~K~~el~~Np~aal~F~w~~l------------ 429 (544)
T PLN02918 368 LREPNAMALSTANK--DGKPSSRMVLLKG---VDKNG-FVWYTNYESQKGSDLSENPSAALLFYWEEL------------ 429 (544)
T ss_pred CCCCccceEEeeCC--CCCeeeEEEEEeE---EcCCc-eEEEECCCChhHHHHHhCCcEEEEeeeccc------------
Confidence 35677899999998 5999998888762 24444 779999999999999999999999998864
Q ss_pred cceEEEEEEEEEecCChH----------------------------HHHHHHHHHHHhCCCCCCCCCCCCeEEEEEEEeE
Q 047182 133 CAKITLTGKLVLVDVNSK----------------------------AAEFARNALFAKHPEMKGWPKDHNFQTFKLEIDD 184 (207)
Q Consensus 133 ~~Rvtl~G~~~~v~~~~~----------------------------e~~~a~~~~~~rhP~~~~~~~~~df~~~rl~~~~ 184 (207)
...|.+.|+++++.++.. +.+...+.+.+++++.+....-+.|.-|+|.|++
T Consensus 430 ~rQVRi~G~v~~~~~~es~~yf~sRp~~Sqi~A~aS~QS~~i~~r~~L~~~~~~~~~~~~~~~~vp~P~~WgGy~v~P~~ 509 (544)
T PLN02918 430 NRQVRVEGSVQKVPESESENYFHSRPRGSQIGAIVSKQSSVVPGRHVLYQEYKELEKKYSDGSVIPKPKNWGGYRLKPNL 509 (544)
T ss_pred cEEEEEEEEEEECCHHHHHHHHHhCCccccceEEecCCCCcCCCHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEecCE
Confidence 268999999999864311 1111223334444442223334678999999999
Q ss_pred EEEecc
Q 047182 185 IFLINW 190 (207)
Q Consensus 185 ~~~V~G 190 (207)
+-|-.|
T Consensus 510 iEFWQg 515 (544)
T PLN02918 510 FEFWQG 515 (544)
T ss_pred EEECCC
Confidence 987665
No 22
>TIGR00026 hi_GC_TIGR00026 deazaflavin-dependent nitroreductase family protein. This model represents a family of proteins found in paralogous families in the genera Mycobacterium and Streptomyces. Seven members are in Mycobacterium tuberculosis. Member protein Rv3547 has been characterized as a deazaflavin-dependent nitroreductase.
Probab=97.84 E-value=0.00011 Score=55.62 Aligned_cols=87 Identities=14% Similarity=0.076 Sum_probs=68.0
Q ss_pred CeEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCC-----CcchhhhccCCCeEEEEeeCCCCCCCCCCCCCC
Q 047182 57 SWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTL-----DPTASNALKDKRSSLAISEYPLGTCGKRDPEDP 131 (207)
Q Consensus 57 ~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~-----s~h~~NL~~nprvSl~V~~~~~~~~~~~dp~~~ 131 (207)
..+.|-|.+.+ +|.|+.+++.|+ ..+|.+|+..|.- +..++||++||+|.+.+ ..
T Consensus 8 p~~lL~t~GRk-SG~~r~tpl~~~-----~~~~~~~vvas~~G~~~~p~W~~Nl~A~p~v~v~~--~g------------ 67 (113)
T TIGR00026 8 PVLLLTTTGRK-SGKPRTTPVTYV-----RHDPGVLIVASNGGAPRHPDWYKNLKANPRVRVRV--GG------------ 67 (113)
T ss_pred CEEEEEECCCC-CCcEEEEEEEEE-----EECCEEEEEEecCCCCCCCHHHHHhhhCCcEEEEE--CC------------
Confidence 47888888876 899999999998 4456678776654 45699999999999887 11
Q ss_pred ccceEEEEEEEEEecCChHHHHHHHHHHHHhCCCCCCC
Q 047182 132 VCAKITLTGKLVLVDVNSKAAEFARNALFAKHPEMKGW 169 (207)
Q Consensus 132 ~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~rhP~~~~~ 169 (207)
+ +..++++.+++ +|.+++...+.+++|....|
T Consensus 68 ---~-~~~~~ar~v~~--~e~~~~~~~~~~~~p~~~~y 99 (113)
T TIGR00026 68 ---K-TFVATARLVSG--DERDQLWAGVVRLYPRYGRY 99 (113)
T ss_pred ---E-EEEEEEEECCc--hhHHHHHHHHHHHCcCHHHH
Confidence 1 36788999975 47788899999999975544
No 23
>PF04075 DUF385: Domain of unknown function (DUF385) ; InterPro: IPR004378 This entry represents a family of proteins found in paralogous families in the genera Mycobacterium and Streptomyces. Seven members are in Mycobacterium tuberculosis. Member protein Rv3547 has been characterised as a deazaflavin-dependent nitroreductase [, ]. ; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3R5Y_D 3R5W_A 3R5R_E 3R5L_A 3R5P_A 3R5Z_B 3H96_A.
Probab=97.62 E-value=0.00029 Score=54.73 Aligned_cols=84 Identities=12% Similarity=0.045 Sum_probs=62.8
Q ss_pred CeEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeC-----CCcchhhhccCCCeEEEEeeCCCCCCCCCCCCCC
Q 047182 57 SWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTT-----LDPTASNALKDKRSSLAISEYPLGTCGKRDPEDP 131 (207)
Q Consensus 57 ~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~-----~s~h~~NL~~nprvSl~V~~~~~~~~~~~dp~~~ 131 (207)
.++.|-|.+.. .|.|+..++.|. ..+|.+|+..+. ....++||++||.|.+.+..
T Consensus 26 ~~~lLtt~GRk-SG~~r~tpl~~~-----~~g~~~~vva~~gG~~~~p~W~~Nl~A~p~v~v~~~g-------------- 85 (132)
T PF04075_consen 26 PVLLLTTTGRK-SGRPRRTPLVYV-----RDGGRLVVVASNGGAPRHPDWYRNLRANPEVTVEVGG-------------- 85 (132)
T ss_dssp EEEEEEEE-TT-T-SEEEEEEEEE-----EETTEEEEE-SGGGCSSS-HHHHHHHHHSEEEEEETT--------------
T ss_pred cEEEEEECCCC-CCCeEEEEEEEE-----EeCCEEEEEEccCCCCCCChhHHhhhhCCcEEEEECC--------------
Confidence 37889999987 899999999998 566778888883 46779999999998887522
Q ss_pred ccceEEEEEEEEEecCChHHHHHHHHHHHHhCCCC
Q 047182 132 VCAKITLTGKLVLVDVNSKAAEFARNALFAKHPEM 166 (207)
Q Consensus 132 ~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~rhP~~ 166 (207)
-+..++++.++ ++|..++.+.+.+.+|..
T Consensus 86 ----~~~~~~a~~~~--~~er~~~~~~~~~~~p~~ 114 (132)
T PF04075_consen 86 ----RRRRVRAREVT--DDERARLWARLVAAYPGY 114 (132)
T ss_dssp ----EEEEEEEEEE---HHHHHHHHHHHHHHSTHH
T ss_pred ----EEEEEEEEEcC--chHHHHHHHHHHHHCcCh
Confidence 24566778887 458888888999988873
No 24
>PF04299 FMN_bind_2: Putative FMN-binding domain; InterPro: IPR007396 In Bacillus subtilis, family member P21341 from SWISSPROT, PAI 2, is involved in the negative regulation of protease synthesis and sporulation [].; PDB: 2OL5_A.
Probab=97.61 E-value=0.0025 Score=51.56 Aligned_cols=132 Identities=16% Similarity=0.184 Sum_probs=88.2
Q ss_pred HHHHHHHHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCC----CCCcEEEEEeCCCcchhhhccCCCeEEEEeeCCC-
Q 047182 46 AAYARWLVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNE----GSGVPYFYLTTLDPTASNALKDKRSSLAISEYPL- 120 (207)
Q Consensus 46 ~~~ar~LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~----~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~- 120 (207)
.+..++|+++..+|+|-|.+. |.|.+|.+||. .+ +.+.++.|+++...+++.+..+..|-+.+..++.
T Consensus 12 ~~~l~~~i~~~pfa~Lvt~~~---~~~~athlP~~----l~~~~~~~~~L~gHlAr~NP~~~~l~~~~~vl~iF~Gp~aY 84 (169)
T PF04299_consen 12 PEELRAFIRAHPFATLVTNGD---GGPVATHLPFL----LDEDDGGRGTLIGHLARANPQWKALDDGQEVLVIFQGPHAY 84 (169)
T ss_dssp HCHHHHHHHHS-EEEEEEEET---TEEEEEEEE-E----E-T---TSSEEEEEEETTSGGGGGTT-TS-EEEEEEEEEEE
T ss_pred HHHHHHHHHhCCcEEEEEcCC---CCcceeeecEE----EEeeeCCCCEEEEEeCCCCHhHhhcCCCCcEEEEEECCCee
Confidence 446899999999999999774 66999999998 44 4678999999999999999988888888776642
Q ss_pred ---CCC--CCCC-CC--CCccceEEEEEEEEEecCChHHHHHHHHHHHHhC-CCC-CCCC--C---------CCCeEEEE
Q 047182 121 ---GTC--GKRD-PE--DPVCAKITLTGKLVLVDVNSKAAEFARNALFAKH-PEM-KGWP--K---------DHNFQTFK 179 (207)
Q Consensus 121 ---~~~--~~~d-p~--~~~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~rh-P~~-~~~~--~---------~~df~~~r 179 (207)
.+- ++.. .. ......|-+.|+++.+++ +++..+..+.+.++| +.. ..|. + .....=|+
T Consensus 85 ISPsWYp~k~~~~~~VPTWNY~aVh~~G~~~~~~d-~~~~~~~l~~l~~~~E~~~~~pW~~~~~~~~~~~~ll~~IvGfe 163 (169)
T PF04299_consen 85 ISPSWYPTKAEHGKVVPTWNYAAVHAYGTVRIIDD-PDWLRAHLDRLTAHFEPDRPPPWSVDDAPEDYIERLLRGIVGFE 163 (169)
T ss_dssp E-CCCS----STTS---EEEEEEEEEEEEEEE----HHHHHHHHHHHHHHHS-T-T----S-------HCHHHCTEEEEE
T ss_pred ECchhhcccCcCCCCCCCcCEEEEEEEEEEEEEeC-HHHHHHHHHHHHHHhCCCCCCCcccccCCHHHHHHHhCCeEEEE
Confidence 110 0001 11 127788999999999965 567778888888887 432 2342 1 14557788
Q ss_pred EEEeEE
Q 047182 180 LEIDDI 185 (207)
Q Consensus 180 l~~~~~ 185 (207)
|+|+++
T Consensus 164 i~I~~i 169 (169)
T PF04299_consen 164 IEITRI 169 (169)
T ss_dssp EEEEEE
T ss_pred EEEEeC
Confidence 888775
No 25
>KOG2586 consensus Pyridoxamine-phosphate oxidase [Coenzyme transport and metabolism]
Probab=97.60 E-value=0.00077 Score=55.67 Aligned_cols=76 Identities=16% Similarity=0.165 Sum_probs=60.0
Q ss_pred hcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeC-CCcchhhhccCCCeEEEEeeCCCCCCCCCCCCCCc
Q 047182 54 SQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTT-LDPTASNALKDKRSSLAISEYPLGTCGKRDPEDPV 132 (207)
Q Consensus 54 ~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~-~s~h~~NL~~nprvSl~V~~~~~~~~~~~dp~~~~ 132 (207)
..-.-++|||++. +|.|-+-+|=|- | .+.+| +.||+.. .+++.+||..||++|+++....-.
T Consensus 54 ~~~~am~LsT~~~--d~rvssRmvLlK-g--l~~~g-f~fytn~~~srk~kdL~~NP~Aal~Fyw~~l~----------- 116 (228)
T KOG2586|consen 54 GEINAMTLSTADK--DGRVSSRMVLLK-G--LDHDG-FVFYTNYGTSRKGKDLQENPNAALLFYWEDLN----------- 116 (228)
T ss_pred Cchhheeehhccc--cCCcceeeeeee-c--ccCCC-eEEEeeccccccccccccCCcceEEEeehhcc-----------
Confidence 3446689999987 699998888876 2 45666 7788887 899999999999999999888641
Q ss_pred cceEEEEEEEEEecC
Q 047182 133 CAKITLTGKLVLVDV 147 (207)
Q Consensus 133 ~~Rvtl~G~~~~v~~ 147 (207)
..|.+.|.++++++
T Consensus 117 -rQVRveG~ve~l~~ 130 (228)
T KOG2586|consen 117 -RQVRVEGIVEKLPR 130 (228)
T ss_pred -ceeEEEeccccCCH
Confidence 36777888887764
No 26
>PF12766 Pyridox_oxase_2: Pyridoxamine 5'-phosphate oxidase; InterPro: IPR024624 Pyridoxamine 5'-phosphate oxidase catalyses the oxidation of pyridoxamine-5-P (PMP) and pyridoxine-5-P (PNP) to pyridoxal-5-P (PLP), the terminal step in the de novo biosynthesis of PLP in Escherichia coli and part of the salvage pathway of this coenzyme in both E. coli and mammalian cells. This entry represents the FMN-binding domain of pyridoxamine 5'-phosphate oxidases that belong to the Alr4036 family.; GO: 0010181 FMN binding; PDB: 2I51_B 2OU5_B.
Probab=97.30 E-value=0.002 Score=47.72 Aligned_cols=91 Identities=13% Similarity=0.102 Sum_probs=65.7
Q ss_pred CCchHHHHH-HHH-HHhcCCeEEEEeec-CCCCCCeeEEEeccccCCCCC---CCCcEEEEEeCCCcchhhhc-cCCCeE
Q 047182 40 PHPNDAAAY-ARW-LVSQNSWGVLSTIS-SGLGGAPFGNVVSFSDGLPNE---GSGVPYFYLTTLDPTASNAL-KDKRSS 112 (207)
Q Consensus 40 ~~~~~~~~~-ar~-LL~~~~~~vLAT~s-~~~~G~P~~S~v~y~dg~~~~---~~g~~y~~~s~~s~h~~NL~-~nprvS 112 (207)
|+|....+. +.+ --+..++.+|||++ . +|.|-+-.|-|-+=. .+ +...+.|++-..+.|+..|. .||+++
T Consensus 2 ~~Wr~~L~~~~~~~~~~~~~~~~LATv~~~--~~~P~~RTvVlRgf~-~~~~~~~~~L~f~TD~RS~Kv~~l~~~~p~~e 78 (100)
T PF12766_consen 2 PPWRQLLERALKKNRSHPFRYFQLATVDPP--DGSPRVRTVVLRGFD-PDLKPESDLLTFHTDARSPKVAQLASANPRVE 78 (100)
T ss_dssp -TCHHHHHHHHHHTTTCGGGCEEEEEEE-T--TTEEEEEEEEEEEEE-TT----TTEEEEEEETTSHHHHHHH-H--EEE
T ss_pred CccHHHHHHHHhhcCCCCCceeEEEEecCC--CCCCceeEEEEcCcc-cccccccCeEEEEecCCchhHHHHhccCCCEE
Confidence 566663333 333 46789999999999 4 699998887765100 11 13468899989999999999 999999
Q ss_pred EEEeeCCCCCCCCCCCCCCccceEEEEEEEEEe
Q 047182 113 LAISEYPLGTCGKRDPEDPVCAKITLTGKLVLV 145 (207)
Q Consensus 113 l~V~~~~~~~~~~~dp~~~~~~Rvtl~G~~~~v 145 (207)
++....+. ...+-+.|++..+
T Consensus 79 ~~~~~~~~------------~~Q~Ri~G~a~ii 99 (100)
T PF12766_consen 79 LVFWFPET------------REQFRIRGRASII 99 (100)
T ss_dssp EEEEECCC------------TEEEEEEEEEEEE
T ss_pred EEEEeCCc------------cEEEEEEEEEEEE
Confidence 99999874 3678888998776
No 27
>COG2808 PaiB Transcriptional regulator [Transcription]
Probab=95.43 E-value=0.18 Score=41.85 Aligned_cols=115 Identities=15% Similarity=0.168 Sum_probs=77.9
Q ss_pred HHHHHHHHHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCCCC---
Q 047182 45 AAAYARWLVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYPLG--- 121 (207)
Q Consensus 45 ~~~~ar~LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~~--- 121 (207)
-.+....|++.+.+|+|.|... |.|+++.+||.-..-..+.|.++.++++...|++-+.....|=+++...+.-
T Consensus 11 d~~~L~a~ir~~pfgtlvt~~~---~~p~AthlP~ll~e~~~~~~~L~~HlAraNp~w~~~~~~~~vLvvFqgpdAYISP 87 (209)
T COG2808 11 DPEVLHALIRAHPFGTLVTSGG---GGPFATHLPFLLNEEEGGEGVLIAHLARANPQWRGLEDGQPVLVVFQGPDAYISP 87 (209)
T ss_pred CHHHHHHHHHhCCceEEEeccC---CccccccCceEEeccCCCceEEEeeecccCCcccccCCCCeEEEEEeCCCcccCc
Confidence 3567899999999999999874 8999999999811101134578889999999999999766666665554421
Q ss_pred --C-CCCCCCC---CCccceEEEEEEEEEecCChHHHHHHHHHHHHhC
Q 047182 122 --T-CGKRDPE---DPVCAKITLTGKLVLVDVNSKAAEFARNALFAKH 163 (207)
Q Consensus 122 --~-~~~~dp~---~~~~~Rvtl~G~~~~v~~~~~e~~~a~~~~~~rh 163 (207)
| .+...|. ......|-..|++..++|+ +-.......+-+.|
T Consensus 88 ~WY~sK~e~~~~VPTWNY~aVHayG~~~~~~D~-~~~~~~~~~Lt~~~ 134 (209)
T COG2808 88 AWYPSKRETPKVVPTWNYVAVHAYGTVRIIEDD-EWLRELLARLTDEH 134 (209)
T ss_pred ccccccccCCCcCCCcceEEEEEecceeeeccH-HHHHHHHHHHHHHh
Confidence 0 0111111 1277889999999999863 23334445555455
No 28
>COG3576 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase [General function prediction only]
Probab=93.98 E-value=0.34 Score=39.39 Aligned_cols=69 Identities=14% Similarity=0.144 Sum_probs=52.4
Q ss_pred HHHHHHHHHhcCCeEEEEeecCCCCCCeeEEEeccccCCCCCCC-CcEEEEEeCCC--cchhhhccCCCeEEEEeeCC
Q 047182 45 AAAYARWLVSQNSWGVLSTISSGLGGAPFGNVVSFSDGLPNEGS-GVPYFYLTTLD--PTASNALKDKRSSLAISEYP 119 (207)
Q Consensus 45 ~~~~ar~LL~~~~~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~-g~~y~~~s~~s--~h~~NL~~nprvSl~V~~~~ 119 (207)
+....|++++.+.++.|+|.+. +|.|-..+.+|+ ...| +.+.+.+.+.. ..-+||.+||++++....+.
T Consensus 30 ~~~~~~e~~~~~~~~~laT~d~--dG~p~~~~~p~~----qr~d~~~~~~v~d~~~~~~~~~~lgnn~~~tl~n~~~~ 101 (173)
T COG3576 30 LENHYREFIQTSQLAALATVDK--DGPPNVDPIPFA----QRGDPAGFTIVIDDNTAGKTDRNLGNNPKITLRNILRN 101 (173)
T ss_pred HHHhhhhhhccccEEEEEEecc--CCCCCcCccchh----hccCCCCceEEeCcccccccccccccCccceeEEeccC
Confidence 4455888899999999999998 599999999997 3333 33444454443 44677999999999988873
No 29
>PF04289 DUF447: Protein of unknown function (DUF447); InterPro: IPR007386 This entry contains archaeal and bacterial proteins of unknown function.; PDB: 2IML_A 3B5M_C 2PTF_A 2NR4_A.
Probab=83.49 E-value=2.2 Score=34.59 Aligned_cols=53 Identities=13% Similarity=0.080 Sum_probs=40.4
Q ss_pred EEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCC
Q 047182 59 GVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYP 119 (207)
Q Consensus 59 ~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~ 119 (207)
+++.|.+. + .|.++++... . .++.+++.+=+.|++++||++++.+++-|..|.
T Consensus 3 ~IvtT~~~--~-~~N~APiGi~----~-~~~~~~~~lf~gS~T~~Nl~~~~~~vvnit~Dp 55 (177)
T PF04289_consen 3 VIVTTKNE--D-EPNAAPIGII----R-DGDELIIRLFKGSHTYENLKETGYFVVNITDDP 55 (177)
T ss_dssp EEEEEEST--T--EEEEEEEEE----E-SSSEEEEEEETTSHHHHHHHHHSEEEEEE---H
T ss_pred EEEEECCC--C-CCcCCcEEEE----E-ECCEEEEEEcCCCchHHHHhhCCEEEEEECCCH
Confidence 34566664 4 7999999998 4 456688888899999999999999999998864
No 30
>TIGR01101 V_ATP_synt_F vacuolar ATP synthase F subunit. This model describes the vacuolar ATP synthase F subunit (14 kDa subunit) in eukaryotes. In some archaeal species this protein subunit is referred as G subunit
Probab=61.49 E-value=17 Score=27.60 Aligned_cols=50 Identities=8% Similarity=0.152 Sum_probs=37.9
Q ss_pred HHHHHhhhheeccccccc--ccCCCCCCCchHHHHHHHHHHhcCCeEEEEee
Q 047182 15 LVLLFVVVGTQDSVEGRL--IPAISNKPHPNDAAAYARWLVSQNSWGVLSTI 64 (207)
Q Consensus 15 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~ar~LL~~~~~~vLAT~ 64 (207)
.|+|+.|+|+....+... .+.+.+..+.+++.+..++++....+|++--.
T Consensus 16 tv~GF~LaGi~~~~~~~~~nf~~v~~~t~~eei~~~~~~~l~~~digIIlIt 67 (115)
T TIGR01101 16 TVVGFLLGGIGEINKNRHPNFLVVDKNTTVSEIEDCFNRFLKRDDIAIILIN 67 (115)
T ss_pred HHHHHHHhCCCccccccccceeeecCCCCHHHHHHHHHHHhhcCCeEEEEEc
Confidence 589999999988766543 33444556678888888998888888888664
No 31
>PF08922 DUF1905: Domain of unknown function (DUF1905); InterPro: IPR015018 This family consist of hypothetical bacterial proteins. ; PDB: 2D9R_A.
Probab=42.09 E-value=75 Score=22.13 Aligned_cols=49 Identities=16% Similarity=0.193 Sum_probs=32.4
Q ss_pred CCeEEEEeecCCCCCCeeE-EEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEE
Q 047182 56 NSWGVLSTISSGLGGAPFG-NVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAI 115 (207)
Q Consensus 56 ~~~~vLAT~s~~~~G~P~~-S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V 115 (207)
-+.-|-+|++ |.||- |+++ . .+|..++.++..=++--++.....|++.+
T Consensus 31 g~v~V~~tI~----g~~~~~sl~p-~------g~G~~~Lpv~~~vRk~~g~~~Gd~V~v~l 80 (80)
T PF08922_consen 31 GRVPVRGTID----GHPWRTSLFP-M------GNGGYILPVKAAVRKAIGKEAGDTVEVTL 80 (80)
T ss_dssp S-EEEEEEET----TEEEEEEEEE-S------STT-EEEEE-HHHHHHHT--TTSEEEEEE
T ss_pred CceEEEEEEC----CEEEEEEEEE-C------CCCCEEEEEcHHHHHHcCCCCCCEEEEEC
Confidence 5777888885 79995 5555 3 45788888888778888887777777654
No 32
>cd01782 AF6_RA_repeat1 Ubiquitin domain of AT-6, first repeat. The AF-6 protein (also known as afadin and canoe) is a multidomain cell junction protein that contains two N-terminal Ras-associating (RA) domains in addition to FHA (forkhead-associated), DIL (class V myosin homology region), and PDZ domains and a proline-rich region. AF6 acts downstream of the Egfr (Epidermal Growth Factor-receptor)/Ras signalling pathway and provides a link from Egfr to cytoskeletal elements.
Probab=40.87 E-value=1.3e+02 Score=22.73 Aligned_cols=41 Identities=15% Similarity=0.284 Sum_probs=27.6
Q ss_pred EEEEecCChHHHHHHHHHHHHhC-CCCCCCCCCCCeEEEEEEEe
Q 047182 141 KLVLVDVNSKAAEFARNALFAKH-PEMKGWPKDHNFQTFKLEID 183 (207)
Q Consensus 141 ~~~~v~~~~~e~~~a~~~~~~rh-P~~~~~~~~~df~~~rl~~~ 183 (207)
++..|.-.. -...+.+++++|| |+++..-+ ++|++|.+...
T Consensus 38 K~VrVsS~~-tt~eVI~~LLeKFk~d~~~~s~-p~FALYevh~n 79 (112)
T cd01782 38 KCIRVSSTA-TTRDVIDTLSEKFRPDMRMLSN-PTYSLYEVHEN 79 (112)
T ss_pred EEEEEecCC-CHHHHHHHHHHHhcccccccCC-cceEEEEEecC
Confidence 444454321 3346788899988 88775544 59999999764
No 33
>PRK14891 50S ribosomal protein L24e/unknown domain fusion protein; Provisional
Probab=40.57 E-value=14 Score=28.57 Aligned_cols=37 Identities=11% Similarity=0.137 Sum_probs=27.2
Q ss_pred EEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCC-eEEEE
Q 047182 74 GNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKR-SSLAI 115 (207)
Q Consensus 74 ~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~npr-vSl~V 115 (207)
|.-.-|+ ..||++++++|....+.-.+..||| +.-++
T Consensus 17 G~G~~fV-----R~DGkvf~FcssKC~k~f~~kRnPRKlkWT~ 54 (131)
T PRK14891 17 GTGTMFV-----RKDGTVLHFVDSKCEKNYDLGREARDLEWTE 54 (131)
T ss_pred CCCcEEE-----ecCCCEEEEecHHHHHHHHccCCCccchhHH
Confidence 4445566 7789999999888887777899995 34443
No 34
>PF01613 Flavin_Reduct: Flavin reductase like domain; InterPro: IPR002563 The FMN-binding domain is found in NAD(P)H-flavin oxidoreductases (flavin reductases), a class of enzymes capable of producing reduced flavin for bacterial bioluminescence and other biological processes, and various other oxidoreductase and monooxygenase enzymes [, , ]. This domain consists of a beta-barrel with Greek key topology, and is related to the ferredoxin reductase-like FAD-binding domain. The flavin reductases have a different dimerisation mode than that found in the PNP oxidase-like family, which also carries an FMN-binding domain with a similar topology.; GO: 0010181 FMN binding, 0016491 oxidoreductase activity, 0042602 flavin reductase activity, 0055114 oxidation-reduction process; PDB: 2ECU_A 2ED4_B 2ECR_A 1YOA_A 2QCK_A 3HMZ_A 2D36_A 2D38_A 2D37_A 3NFW_D ....
Probab=38.23 E-value=36 Score=26.11 Aligned_cols=58 Identities=17% Similarity=0.122 Sum_probs=38.8
Q ss_pred eEEEEeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCC
Q 047182 58 WGVLSTISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYP 119 (207)
Q Consensus 58 ~~vLAT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~ 119 (207)
..+++| +. +|.|.+.+++++-. ...+.-.+.|-+.+.+...+||++.+..++.+-..+
T Consensus 8 v~vvtt-~~--~g~~~~~~~s~~~~-~s~~Pp~v~~~l~~~~~t~~~i~~~~~f~vn~l~~~ 65 (154)
T PF01613_consen 8 VAVVTT-DE--DGEPNGMTVSSVTS-VSLDPPLVLVSLNKSSHTYDNIEESGEFTVNVLSED 65 (154)
T ss_dssp -EEEEE-EE--TTEEEEEEESSEEE-EETTTTEEEEEEETTSHHHHHHHHHSEEEEEEEBGG
T ss_pred cEEEEE-CC--CCeEEEEEeeeeEE-EECCCCEEEEEECCCCchhHHHhhCCcEEEEeCHHH
Confidence 466777 55 58888777775510 012223456667777788999999999999986663
No 35
>cd00472 Ribosomal_L24e_L24 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor binding site. L24e/L24 appears to play a role in the kinetics of peptide synthesis, and may be involved in interactions between the large and small subunits, either directly or through other factors. In mouse, a deletion mutation in L24 has been identified as the cause for the belly spot and tail (Bst) mutation that results in disrupted pigmentation, somitogenesis and retinal cell fate determination. L24 may be an important protein in eukaryotic reproduction: in shrimp, L24 expression is elevated in the ovary, suggesting a role in oogenesis, and in Arabidopsis, L24 has been proposed to have a specific function in gynoecium development. No protein with sequence or structural homology to L24e/L24 has been identifi
Probab=37.96 E-value=18 Score=23.75 Aligned_cols=32 Identities=9% Similarity=0.136 Sum_probs=25.2
Q ss_pred EEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCC
Q 047182 74 GNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKR 110 (207)
Q Consensus 74 ~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~npr 110 (207)
|.-.-|+ ..||..++++|...++.-.+..|||
T Consensus 16 G~G~~~V-----r~Dgkv~~F~s~Kc~~~~~~krnPR 47 (54)
T cd00472 16 GHGKMYV-----RNDGKVFRFCSSKCEKNFLRKRNPR 47 (54)
T ss_pred CCccEEE-----ecCCCEEEEECHHHHHHHHCcCCCC
Confidence 4445566 6789999999999888777888886
No 36
>PRK00807 50S ribosomal protein L24e; Validated
Probab=37.89 E-value=16 Score=23.67 Aligned_cols=25 Identities=8% Similarity=0.102 Sum_probs=21.1
Q ss_pred CCCCcEEEEEeCCCcchhhhccCCC
Q 047182 86 EGSGVPYFYLTTLDPTASNALKDKR 110 (207)
Q Consensus 86 ~~~g~~y~~~s~~s~h~~NL~~npr 110 (207)
..||..|+++|....+.-.+..|||
T Consensus 21 r~Dgkv~~Fcs~KC~~~f~~~~npr 45 (52)
T PRK00807 21 KKDGTILYFCSSKCEKNYKLGRVPR 45 (52)
T ss_pred EeCCcEEEEeCHHHHHHHHccCCCC
Confidence 6789999999988877667888886
No 37
>KOG2500 consensus Uncharacterized conserved protein [Function unknown]
Probab=32.96 E-value=53 Score=27.97 Aligned_cols=69 Identities=12% Similarity=0.195 Sum_probs=41.4
Q ss_pred CccceEEEEEEEEEecCC-hHHHHHHHHHHHHhCCC--CCCCCCCCCeEEEEEEEeEEE--Eec-cCCC---ceeech
Q 047182 131 PVCAKITLTGKLVLVDVN-SKAAEFARNALFAKHPE--MKGWPKDHNFQTFKLEIDDIF--LIN-WFGG---PKPLTV 199 (207)
Q Consensus 131 ~~~~Rvtl~G~~~~v~~~-~~e~~~a~~~~~~rhP~--~~~~~~~~df~~~rl~~~~~~--~V~-GFG~---a~~v~~ 199 (207)
..+-||+-.|+...|--+ ..--+-..+|+...||. .+...+....++.||+-.+++ ||+ |||. +++++.
T Consensus 43 tGrlrvvakg~~~~ikLeD~tsg~LfA~c~id~~~~~avEav~DSSRYFViRv~dgngr~AFiGlGF~eR~dafDfnv 120 (253)
T KOG2500|consen 43 TGRLRVVAKGERCEIKLEDKTSGELFAQCPIDEGPGNAVEAVSDSSRYFVIRVEDGNGRHAFIGLGFGERGDAFDFNV 120 (253)
T ss_pred cceeEEEEcCcEEEEEeccCCchhhhhhCcccCCCCccceeecccceEEEEEEeCCCccEEEEeecccccccccchhh
Confidence 477788888887666322 12333456788888876 334445556555555544444 566 8987 555543
No 38
>COG2075 RPL24A Ribosomal protein L24E [Translation, ribosomal structure and biogenesis]
Probab=31.52 E-value=29 Score=23.69 Aligned_cols=33 Identities=9% Similarity=0.084 Sum_probs=26.1
Q ss_pred eEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCC
Q 047182 73 FGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKR 110 (207)
Q Consensus 73 ~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~npr 110 (207)
-|+-.-|| ..||.+++++|...++.--+..|||
T Consensus 15 PGtG~m~V-----r~Dg~v~~FcssKc~k~~~~~rnPR 47 (66)
T COG2075 15 PGTGIMYV-----RNDGKVLRFCSSKCEKLFKLGRNPR 47 (66)
T ss_pred CCceEEEE-----ecCCeEEEEechhHHHHHHccCCCc
Confidence 35666676 7889999999999988666777886
No 39
>COG2457 Uncharacterized conserved protein [Function unknown]
Probab=30.91 E-value=83 Score=26.17 Aligned_cols=44 Identities=18% Similarity=0.080 Sum_probs=35.7
Q ss_pred eeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCCC
Q 047182 72 PFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYPL 120 (207)
Q Consensus 72 P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~~ 120 (207)
|.+.++... + .++.+.+.+=+.++++.|+.++..+|..|..|..
T Consensus 27 ~N~aPIGIi----~-~gd~~~~kLy~GsrT~eNl~~~~~~~vnVv~D~~ 70 (199)
T COG2457 27 PNAAPIGII----V-KGDKLKVKLYKGSRTYENLEKSNYLSVNVVDDPL 70 (199)
T ss_pred CCcCceEEE----E-eCCEEEEEEecCcchHHHHhhcCeEEEEecCCHH
Confidence 355666655 3 5677889999999999999999999999998864
No 40
>PF00313 CSD: 'Cold-shock' DNA-binding domain; InterPro: IPR002059 When Escherichia coli is exposed to a temperature drop from 37 to 10 degrees centigrade, a 4-5 hour lag phase occurs, after which growth is resumed at a reduced rate []. During the lag phase, the expression of around 13 proteins, which contain specific DNA-binding regions [], is increased 2-10 fold. These so-called 'cold shock' proteins are thought to help the cell to survive in temperatures lower than optimum growth temperature, by contrast with heat shock proteins, which help the cell to survive in temperatures greater than the optimum, possibly by condensation of the chromosome and organisation of the prokaryotic nucleoid []. A conserved domain of about 70 amino acids has been found in prokaryotic and eukaryotic DNA-binding proteins [, , ]. This domain is known as the 'cold-shock domain' (CSD), part of which is highly similar [] to the RNP-1 RNA-binding motif.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1HZC_A 1I5F_A 1HZ9_B 1C9O_B 1HZB_B 1HZA_A 2HAX_B 2L15_A 2LSS_A 3I2Z_B ....
Probab=28.88 E-value=1.7e+02 Score=19.01 Aligned_cols=32 Identities=13% Similarity=0.180 Sum_probs=25.9
Q ss_pred CcEEEEEeCCCcch-hhhccCCCeEEEEeeCCC
Q 047182 89 GVPYFYLTTLDPTA-SNALKDKRSSLAISEYPL 120 (207)
Q Consensus 89 g~~y~~~s~~s~h~-~NL~~nprvSl~V~~~~~ 120 (207)
..+|||.|...... +.|..+.+|++.+.....
T Consensus 24 ~diFfh~s~~~~~~~~~l~~G~~V~F~~~~~~~ 56 (66)
T PF00313_consen 24 EDIFFHISDLSGNGFRSLKEGDRVEFEVEEGKK 56 (66)
T ss_dssp SEEEEEGGGBCSSSSTS--TTSEEEEEEEECTT
T ss_pred eeEEeccccccccccccCCCCCEEEEEEEECCC
Confidence 37999999998776 999999999999999653
No 41
>COG1853 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]
Probab=28.54 E-value=1.7e+02 Score=23.21 Aligned_cols=60 Identities=12% Similarity=0.021 Sum_probs=40.5
Q ss_pred cCCeEEEEeecCC-CCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcchhhhccCCCeEEEEeeCC
Q 047182 55 QNSWGVLSTISSG-LGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTASNALKDKRSSLAISEYP 119 (207)
Q Consensus 55 ~~~~~vLAT~s~~-~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h~~NL~~nprvSl~V~~~~ 119 (207)
-....++.|.+.+ .+|.|+++..... ...-.+.+-+.+.+..+.||+++.+..+-|-..+
T Consensus 17 p~pv~~VTt~~~~~~ng~~~s~~~~vs-----~~PP~v~v~v~~~~~t~~~i~~~~~F~vNvl~~~ 77 (176)
T COG1853 17 PTPVTVVTTKDGDRRNGMTASSFTSVS-----LEPPLVLVCVNKSSDTWPNIEETGEFVVNVLSED 77 (176)
T ss_pred CCceEEEEcCCCCcceeEEEEEEEecc-----CCCCEEEEEecCCcchhhhhhhcCEEEEEeCCHH
Confidence 4566777887753 2556666665555 2223355666777788999999999999886665
No 42
>PF01990 ATP-synt_F: ATP synthase (F/14-kDa) subunit; InterPro: IPR008218 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit F found in the V1 complex of V-ATPases (both eukaryotic and bacterial), as well as in the A1 complex of A-ATPases. Subunit F is a 16 kDa protein that is required for the assembly and activity of V-ATPase, and has a potential role in the differential targeting and regulation of the enzyme for specific organelles. This subunit is not necessary for the rotation of the ATPase V1 rotor, but it does promote catalysis []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 2D00_E 3A5C_P 3J0J_H 3A5D_H 2OV6_A 2QAI_B 3AON_B 2I4R_A.
Probab=24.78 E-value=1.1e+02 Score=21.68 Aligned_cols=43 Identities=19% Similarity=0.299 Sum_probs=34.3
Q ss_pred HHHHHHhhhheecccccccccCCCCCCCchHHHHHHHHHHhcCCeEEEEeec
Q 047182 14 SLVLLFVVVGTQDSVEGRLIPAISNKPHPNDAAAYARWLVSQNSWGVLSTIS 65 (207)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ar~LL~~~~~~vLAT~s 65 (207)
.+++||-|+|+...... .+.+++.+..+++++...+|++-...
T Consensus 8 ~~v~gFrLaGv~~~~~~---------~~~ee~~~~l~~l~~~~~~gIIii~e 50 (95)
T PF01990_consen 8 DTVLGFRLAGVEGVYVN---------TDPEEAEEALKELLKDEDVGIIIITE 50 (95)
T ss_dssp HHHHHHHHTTSEEEEES---------HSHHHHHHHHHHHHHHTTEEEEEEEH
T ss_pred HHHHHHHHcCCCCccCC---------CCHHHHHHHHHHHhcCCCccEEEeeH
Confidence 46889999998766443 25688899999999999999988754
No 43
>TIGR03044 PS_II_psb27 photosystem II protein Psb27. Members of this family are the Psb27 protein of the cyanobacterial photosynthetic supracomplex, photosystem II. Although most protein components of both cyanobacterial and chloroplast versions of photosystem II are closely related and described together by single model families, this family is strictly bacterial. Some uncharacterized proteins with highly divergent sequences, from Arabidopsis, score between trusted and noise cutoffs for this model but are not at this time assigned as functionally equivalent photosystem II proteins.
Probab=24.42 E-value=1.5e+02 Score=23.17 Aligned_cols=18 Identities=33% Similarity=0.551 Sum_probs=12.7
Q ss_pred CCCCchHHHHHHHHHHhc
Q 047182 38 NKPHPNDAAAYARWLVSQ 55 (207)
Q Consensus 38 ~~~~~~~~~~~ar~LL~~ 55 (207)
+-|...++..++|+++..
T Consensus 57 d~p~~~~a~~~ar~~ind 74 (135)
T TIGR03044 57 DDPNKSEAQAEARQLIND 74 (135)
T ss_pred CCccHHHHHHHHHHHHHH
Confidence 456677777778888764
No 44
>PF12471 GTP_CH_N: GTP cyclohydrolase N terminal ; InterPro: IPR022163 This domain family is found in bacteria and eukaryotes, and is approximately 190 amino acids in length. This family is the N-terminal of GTP cyclohydrolase, the rate limiting enzyme in the synthesis of tetrahydrobiopterin.
Probab=23.80 E-value=68 Score=26.45 Aligned_cols=50 Identities=10% Similarity=0.125 Sum_probs=39.6
Q ss_pred HHHHHHH-hC-CCCCCCCC-CCCeEEEEEEEeEEEEeccCCCceeechhhhcc
Q 047182 155 ARNALFA-KH-PEMKGWPK-DHNFQTFKLEIDDIFLINWFGGPKPLTVDQYLH 204 (207)
Q Consensus 155 a~~~~~~-rh-P~~~~~~~-~~df~~~rl~~~~~~~V~GFG~a~~v~~~~~~~ 204 (207)
+.++..+ |- ||.+-.++ ..+..+-|+.+|-+||+-|-...+-++..+++.
T Consensus 137 i~eav~~GrL~~DGki~~~~~g~~~VTK~AvEPVWyLPGVA~RFGi~E~~LRR 189 (194)
T PF12471_consen 137 IREAVRKGRLVPDGKIVLNSNGDLAVTKAAVEPVWYLPGVAERFGISEGELRR 189 (194)
T ss_pred HHHHHHhCCCCCCCeEEecCCCcEEEEEEEecccccchhhHHHcCCCHHHHHH
Confidence 3344433 33 88888888 899999999999999999988888888777654
No 45
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=22.87 E-value=1.5e+02 Score=21.45 Aligned_cols=43 Identities=14% Similarity=0.204 Sum_probs=31.9
Q ss_pred HHHHHHhhhheecccccccccCCCCCCCchHHHHHHHHHHhcCCeEEEEeec
Q 047182 14 SLVLLFVVVGTQDSVEGRLIPAISNKPHPNDAAAYARWLVSQNSWGVLSTIS 65 (207)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ar~LL~~~~~~vLAT~s 65 (207)
..++|+-|+|+.....+ ++.+++.+..++++.+..+|++--.-
T Consensus 10 dtv~GFrLaGi~~~~~~---------~~~ee~~~~l~~l~~~~d~gII~Ite 52 (100)
T PRK02228 10 EFTTGFRLAGIRKVYEV---------PDDEKLDEAVEEVLEDDDVGILVMHD 52 (100)
T ss_pred HHHHHHHHcCCceEEee---------CCHHHHHHHHHHHhhCCCEEEEEEeh
Confidence 35789999999764222 23477888889999999999887754
No 46
>PF00644 PARP: Poly(ADP-ribose) polymerase catalytic domain; InterPro: IPR012317 Poly(ADP-ribose) polymerases (PARP) are a family of enzymes present in eukaryotes, which catalyze the poly(ADP-ribosyl)ation of a limited number of proteins involved in chromatin architecture, DNA repair, or in DNA metabolism, including PARP itself. PARP, also known as poly(ADP-ribose) synthetase and poly(ADP-ribose) transferase, transfers the ADP-ribose moiety from its substrate, nicotinamide adenine dinucleotide (NAD), to carboxylate groups of aspartic and glutamic residues. Whereas some PARPs might function in genome protection, others appear to play different roles in the cell, including telomere replication and cellular transport. PARP-1 is a multifunctional enzyme. The polypeptide has a highly conserved modular organisation consisting of an N-terminal DNA-binding domain, a central regulating segment, and a C-terminal or F region accommodating the catalytic centre. The F region is composed of two parts: a purely alpha-helical N- terminal domain (alpha-hd), and the mixed alpha/beta C-terminal catalytic domain bearing the putative NAD binding site. Although proteins of the PARP family are related through their PARP catalytic domain, they do not resemble each other outside of that region, but rather, they contain unique domains that distinguish them from each other and hint at their discrete functions. Domains with which the PARP catalytic domain is found associated include zinc fingers, SAP, ankyrin, BRCT, Macro, SAM, WWE and UIM domains [, , ]. The alpha-hd domain is about 130 amino acids in length and consists of an up-up-down-up-down-down motif of helices. It is thought to relay the activation signal issued on binding to damaged DNA [, ]. The PARP catalytic domain is about 230 residues in length. Its core consists of a five-stranded antiparallel beta-sheet and four-stranded mixed beta-sheet. The two sheets are consecutive and are connected via a single pair of hydrogen bonds between two strands that run at an angle of 90 degrees. These central beta-sheets are surrounded by five alpha-helices, three 3(10)-helices, and by a three- and a two-stranded beta-sheet in a 37-residue excursion between two central beta-strands [, ]. The active site, known as the 'PARP signature' is formed by a block of 50 amino acids that is strictly conserved among the vertebrates and highly conserved among all species. The 'PARP signature' is characteristic of all PARP protein family members. It is formed by a segment of conserved amino acid residues formed by a beta-sheet, an alpha-helix, a 3(10)-helix, a beta-sheet, and an alpha-helix [].; GO: 0003950 NAD+ ADP-ribosyltransferase activity; PDB: 2PQF_F 4F0D_A 1PAX_A 1EFY_A 1A26_A 2PAW_A 4PAX_A 3PAX_A 2PAX_A 3P0N_A ....
Probab=22.61 E-value=2.2e+02 Score=22.98 Aligned_cols=27 Identities=11% Similarity=0.038 Sum_probs=22.4
Q ss_pred EEEEEEecCChHHHHHHHHHHHHhCCC
Q 047182 139 TGKLVLVDVNSKAAEFARNALFAKHPE 165 (207)
Q Consensus 139 ~G~~~~v~~~~~e~~~a~~~~~~rhP~ 165 (207)
.+++++|+.+++|++.+.+.|.+..+.
T Consensus 2 ~~~l~~l~~~s~ey~~I~~~f~~~~~~ 28 (206)
T PF00644_consen 2 NCELVPLEPDSEEYKEIEKYFKKTWKP 28 (206)
T ss_dssp TEEEEEEETTSHHHHHHHHHHHHTSTS
T ss_pred CCEEEEcCCCCHHHHHHHHHHHhHCCC
Confidence 367889998899999999999887654
No 47
>PF02184 HAT: HAT (Half-A-TPR) repeat; InterPro: IPR003107 The HAT (Half A TPR) repeat has a repetitive pattern characterised by three aromatic residues with a conserved spacing. They are structurally and sequentially similar to TPRs (tetratricopeptide repeats), though they lack the highly conserved alanine and glycine residues found in TPRs. The number of HAT repeats found in different proteins varies between 9 and 12. HAT-repeat-containing proteins appear to be components of macromolecular complexes that are required for RNA processing []. The repeats may be involved in protein-protein interactions. The HAT motif has striking structural similarities to HEAT repeats (IPR000357 from INTERPRO), being of a similar length and consisting of two short helices connected by a loop domain, as in HEAT repeats.; GO: 0006396 RNA processing, 0005622 intracellular
Probab=22.40 E-value=32 Score=20.13 Aligned_cols=20 Identities=30% Similarity=0.483 Sum_probs=15.5
Q ss_pred HHHHHHHHHhCCCCCCCCCC
Q 047182 153 EFARNALFAKHPEMKGWPKD 172 (207)
Q Consensus 153 ~~a~~~~~~rhP~~~~~~~~ 172 (207)
..+.+.|...||+.+.|+.-
T Consensus 7 R~IyeR~v~~hp~~k~Wiky 26 (32)
T PF02184_consen 7 RSIYERFVLVHPEVKNWIKY 26 (32)
T ss_pred HHHHHHHHHhCCCchHHHHH
Confidence 45667778899999988763
No 48
>PF11250 DUF3049: Protein of unknown function (DUF3049); InterPro: IPR021410 This eukaryotic family of proteins has no known function.
Probab=22.01 E-value=1.4e+02 Score=19.62 Aligned_cols=45 Identities=13% Similarity=0.101 Sum_probs=28.1
Q ss_pred EeecCCCCCCeeEEEeccccCCCCCCCCcEEEEEeCCCcc--hhhhccCCCeEEE
Q 047182 62 STISSGLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPT--ASNALKDKRSSLA 114 (207)
Q Consensus 62 AT~s~~~~G~P~~S~v~y~dg~~~~~~g~~y~~~s~~s~h--~~NL~~nprvSl~ 114 (207)
.+++. .|.|+.-+.++- +||.+++---....| ++.-.+|.|.-|.
T Consensus 8 ~sl~~--~g~p~~~~r~~r------~dGRLvl~~v~v~~~~~~~A~R~~GRL~L~ 54 (56)
T PF11250_consen 8 PSLAR--RGKPSVLMRPHR------EDGRLVLEEVRVPSHEYFHAEREDGRLRLQ 54 (56)
T ss_pred chhhc--CCCCcEEEEEEc------cCCEEEEEEEEcCCcceEEEEccCCEEEEE
Confidence 34444 467988888886 679888777666554 3334445554443
No 49
>PRK14998 cold shock-like protein CspD; Provisional
Probab=21.06 E-value=1.9e+02 Score=19.85 Aligned_cols=33 Identities=6% Similarity=0.027 Sum_probs=28.3
Q ss_pred CCcEEEEEeCCCcc-hhhhccCCCeEEEEeeCCC
Q 047182 88 SGVPYFYLTTLDPT-ASNALKDKRSSLAISEYPL 120 (207)
Q Consensus 88 ~g~~y~~~s~~s~h-~~NL~~nprvSl~V~~~~~ 120 (207)
...+++|.|.+... .+.+....+|++.+...+.
T Consensus 24 ~~dVFvH~s~l~~~g~~~l~~G~~V~f~~~~~~~ 57 (73)
T PRK14998 24 GEDIFAHYSTIQMDGYRTLKAGQSVRFDVHQGPK 57 (73)
T ss_pred CccEEEEeeeecccCCCCCCCCCEEEEEEEECCC
Confidence 34799999999755 5899999999999999875
Done!