Query 037690
Match_columns 192
No_of_seqs 127 out of 794
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 03:28:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037690.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037690hhsearch_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 3.6E-45 7.8E-50 287.4 12.8 163 14-178 1-170 (170)
2 KOG3374 Cellular repressor of 100.0 1.5E-34 3.2E-39 221.9 14.5 170 11-180 36-209 (210)
3 PRK03467 hypothetical protein; 99.8 9.4E-18 2E-22 127.5 15.0 129 18-167 5-137 (144)
4 TIGR03668 Rv0121_F420 PPOX cla 99.7 3.6E-16 7.8E-21 119.3 14.7 124 21-160 3-138 (141)
5 TIGR03618 Rv1155_F420 PPOX cla 99.6 3.3E-14 7.2E-19 104.1 13.2 109 34-160 1-116 (117)
6 TIGR03666 Rv2061_F420 PPOX cla 99.6 4.5E-14 9.7E-19 106.6 13.6 113 25-157 7-127 (132)
7 PF01243 Pyridox_oxidase: Pyri 99.6 3.9E-14 8.4E-19 98.5 11.2 85 20-121 2-87 (89)
8 TIGR03667 Rv3369 PPOX class pr 99.6 1.4E-13 2.9E-18 103.6 13.4 119 20-158 4-129 (130)
9 PF12900 Pyridox_ox_2: Pyridox 99.5 1.5E-13 3.2E-18 104.7 11.4 128 20-160 2-140 (143)
10 COG3467 Predicted flavin-nucle 99.4 5.1E-12 1.1E-16 98.9 14.7 131 19-160 12-157 (166)
11 COG0748 HugZ Putative heme iro 99.4 9.2E-15 2E-19 119.3 -2.5 139 16-167 2-140 (245)
12 COG0748 HugZ Putative heme iro 99.2 1.1E-12 2.3E-17 107.3 -2.6 143 20-175 84-227 (245)
13 PRK05679 pyridoxamine 5'-phosp 99.2 1.3E-09 2.9E-14 87.4 14.5 121 23-164 20-170 (195)
14 COG3871 Uncharacterized stress 99.1 1.8E-09 3.9E-14 81.7 12.4 126 17-167 4-134 (145)
15 COG3787 Uncharacterized protei 99.0 5.5E-09 1.2E-13 77.3 11.5 133 21-174 3-140 (145)
16 PRK06733 hypothetical protein; 98.9 5.5E-08 1.2E-12 74.7 14.1 111 20-167 10-120 (151)
17 TIGR00558 pdxH pyridoxamine-ph 98.9 6E-08 1.3E-12 79.1 14.0 77 27-121 46-122 (217)
18 PLN03049 pyridoxine (pyridoxam 98.6 1.3E-06 2.7E-11 78.7 15.4 118 27-164 286-433 (462)
19 COG0259 PdxH Pyridoxamine-phos 98.6 1.7E-06 3.6E-11 69.0 13.1 121 25-164 41-189 (214)
20 COG5015 Uncharacterized conser 98.5 3.2E-06 6.9E-11 62.1 12.3 120 22-166 3-125 (132)
21 PLN02918 pyridoxine (pyridoxam 98.1 8.1E-05 1.8E-09 68.1 13.8 120 27-164 368-515 (544)
22 PF04299 FMN_bind_2: Putative 97.8 0.00068 1.5E-08 53.2 12.9 133 19-159 11-169 (169)
23 TIGR00026 hi_GC_TIGR00026 deaz 97.8 0.00025 5.4E-09 52.1 9.1 88 30-143 7-99 (113)
24 KOG2586 Pyridoxamine-phosphate 97.8 0.00021 4.5E-09 57.1 8.8 76 28-121 54-130 (228)
25 PF04075 DUF385: Domain of unk 97.2 0.0023 5E-08 48.2 8.1 84 31-140 26-114 (132)
26 PF12766 Pyridox_oxase_2: Pyri 97.2 0.0062 1.3E-07 43.7 9.8 91 14-119 2-99 (100)
27 COG2808 PaiB Transcriptional r 96.6 0.032 6.9E-07 44.7 10.2 115 19-137 11-134 (209)
28 COG3576 Predicted flavin-nucle 94.2 0.55 1.2E-05 37.0 9.1 68 20-93 31-101 (173)
29 PF04289 DUF447: Protein of un 87.5 1.4 3E-05 34.7 5.1 53 33-93 3-55 (177)
30 PF01613 Flavin_Reduct: Flavin 56.0 15 0.00031 27.6 3.3 59 32-94 8-66 (154)
31 COG1853 Conserved protein/doma 44.0 69 0.0015 24.8 5.5 60 29-93 17-77 (176)
32 PRK10530 pyridoxal phosphate ( 43.2 22 0.00048 28.9 2.7 43 2-52 10-52 (272)
33 cd01782 AF6_RA_repeat1 Ubiquit 42.6 92 0.002 22.7 5.4 67 73-157 12-79 (112)
34 cd00472 Ribosomal_L24e_L24 Rib 41.7 17 0.00037 23.0 1.3 32 48-84 16-47 (54)
35 PRK14891 50S ribosomal protein 40.4 15 0.00033 27.5 1.1 32 48-84 17-48 (131)
36 KOG2500 Uncharacterized conser 39.0 52 0.0011 27.2 4.0 68 106-173 44-120 (253)
37 COG2075 RPL24A Ribosomal prote 37.0 28 0.0006 23.0 1.8 35 45-84 13-47 (66)
38 COG2457 Uncharacterized conser 36.8 1.3E+02 0.0029 24.2 6.0 34 61-94 37-70 (199)
39 PRK00807 50S ribosomal protein 36.2 20 0.00043 22.4 1.0 25 60-84 21-45 (52)
40 PF08922 DUF1905: Domain of un 34.6 1.4E+02 0.0031 20.0 5.3 58 22-89 21-80 (80)
41 PF11250 DUF3049: Protein of u 34.4 50 0.0011 21.0 2.7 45 36-88 8-54 (56)
42 PF08282 Hydrolase_3: haloacid 31.2 37 0.0008 26.6 2.1 34 2-37 5-38 (254)
43 PF05902 4_1_CTD: 4.1 protein 30.7 54 0.0012 24.1 2.6 33 107-141 70-102 (114)
44 PRK10976 putative hydrolase; P 27.0 62 0.0013 26.3 2.8 44 2-53 9-52 (266)
45 PF02184 HAT: HAT (Half-A-TPR) 25.8 24 0.00051 19.9 0.1 21 126-146 6-26 (32)
46 PF00644 PARP: Poly(ADP-ribose 24.9 2E+02 0.0043 22.6 5.3 42 113-163 2-43 (206)
47 TIGR01487 SPP-like sucrose-pho 23.3 94 0.002 24.4 3.2 44 2-53 8-51 (215)
48 PF12471 GTP_CH_N: GTP cyclohy 22.3 74 0.0016 25.4 2.3 51 129-179 137-190 (194)
49 PRK10513 sugar phosphate phosp 21.5 96 0.0021 25.2 3.0 43 2-52 10-52 (270)
50 PRK15126 thiamin pyrimidine py 20.9 70 0.0015 26.1 2.0 43 2-52 9-51 (272)
51 PF10707 YrbL-PhoP_reg: PhoP r 20.6 3E+02 0.0065 21.9 5.5 50 127-177 128-179 (199)
No 1
>PF13883 Pyrid_oxidase_2: Pyridoxamine 5'-phosphate oxidase; PDB: 1XHN_C.
Probab=100.00 E-value=3.6e-45 Score=287.35 Aligned_cols=163 Identities=41% Similarity=0.738 Sum_probs=125.9
Q ss_pred CCchHHHHHHHHHHhhCCEEEEEeecC--CCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEee
Q 037690 14 PHPNDAAAFARWLVSQNYWGVLNTISS--DLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISE 91 (192)
Q Consensus 14 p~~~~~a~~ar~Ll~~~~~~~LAT~~~--~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~ 91 (192)
|+..++++.||+||+.+++|+|||++. +.+|+||+|+++|+||+..+.+|+|||++|.++.|++||++||||||+|.+
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 788999999999999999999999998 337999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCC--CCCCCCCCcceEEEEEEEEEecCCcHHHHHHHHHHHHhCCCCcCCCCC---CCeEEEEEEEeEEEEeccCC
Q 037690 92 YPLGTCG--ERDPENPACAKITLTGKLVLVDVSTKEAEFAEHALFTKHPEMMDWPED---HNFQIFKLEIEDIFLINWFG 166 (192)
Q Consensus 92 ~~~~~~~--~~dp~~~~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rhP~~~~~~~~---~df~~~~l~~~~~~~v~GFG 166 (192)
.....|. ..||+.++++|+||+|++++|+. +|.+.+++||++|||+|+.|+++ |||.||||+|++++||||||
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 9875442 25788789999999999999984 46778999999999999999999 99999999999999999999
Q ss_pred CCcccChhhhcC
Q 037690 167 GRKPLTVDQYLH 178 (192)
Q Consensus 167 ~a~~i~~~~~~~ 178 (192)
+++||+++||.+
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 999999999963
No 2
>KOG3374 consensus Cellular repressor of transcription [Transcription]
Probab=100.00 E-value=1.5e-34 Score=221.86 Aligned_cols=170 Identities=41% Similarity=0.748 Sum_probs=161.2
Q ss_pred CCCCCchHHHHHHHHHHhhCCEEEEEeecCCC--CCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEE
Q 037690 11 SKKPHPNDAAAFARWLVSQNYWGVLNTISSDL--GGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLA 88 (192)
Q Consensus 11 ~~~p~~~~~a~~ar~Ll~~~~~~~LAT~~~~~--~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~ 88 (192)
..+|+..+.|+.||.|++++.||+|+|+|.++ .|+||+.++++.||++..++|.||||++++..+.+|+++|++++|+
T Consensus 36 ~~~p~r~d~A~iAR~lvh~~~Wgal~TlSt~e~vkG~Pf~nViS~sDg~p~~gtG~pyFyLt~Ld~t~~n~qkd~~atL~ 115 (210)
T KOG3374|consen 36 YKRPQRLDHAKIARDLVHRANWGALGTLSTNERVKGYPFVNVISISDGDPNNGTGRPYFYLTDLDFTGPNWQKDNKATLL 115 (210)
T ss_pred CCCCchhhHHHHHHHHhhhcccceeeeeeecccccCCccceEEEccCCCCcCCCCceEEEeccCCCCCcccccCCceeEE
Confidence 45778889999999999999999999999875 7999999999999998899999999999999999999999999999
Q ss_pred EeeCCCCCCCC--CCCCCCCcceEEEEEEEEEecCCcHHHHHHHHHHHHhCCCCcCCCCCCCeEEEEEEEeEEEEeccCC
Q 037690 89 ISEYPLGTCGE--RDPENPACAKITLTGKLVLVDVSTKEAEFAEHALFTKHPEMMDWPEDHNFQIFKLEIEDIFLINWFG 166 (192)
Q Consensus 89 v~~~~~~~~~~--~dp~~~~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rhP~~~~~~~~~df~~~~l~~~~~~~v~GFG 166 (192)
+.+.+..+|.. .|||.|.|.|++|.|++.+++..+++.+..+++|+.|||+|+.|...|+|+|.+++|..|+++|-||
T Consensus 116 ~s~~qt~~Ck~~g~DPm~PtC~~~mlsG~v~k~~~~~~~~~~~~~alf~rHPem~~w~~~hn~~~~~l~isni~vld~~g 195 (210)
T KOG3374|consen 116 FSDEQTLRCKEGGKDPMEPTCARSMLSGQVKKMDPSDKSYQPSLDALFRRHPEMINWVKAHNFYLCELEISNIFVLDFYG 195 (210)
T ss_pred eeccccchhhcCCCCCCCchhhhheecceEEEeCCcchhhhhhhhhHhhcCHhHcCCccccceEEEEEeeeeEEEEEecC
Confidence 99999999953 5999999999999999999998888899999999999999999999999999999999999999999
Q ss_pred CCcccChhhhcCCC
Q 037690 167 GRKPLTVDQYLHTK 180 (192)
Q Consensus 167 ~a~~i~~~~~~~a~ 180 (192)
+.+.++.+||++..
T Consensus 196 gp~~vs~~~yy~vs 209 (210)
T KOG3374|consen 196 GPHKVSASDYYAVS 209 (210)
T ss_pred CCcccCHHHhcccc
Confidence 99999999999864
No 3
>PRK03467 hypothetical protein; Provisional
Probab=99.78 E-value=9.4e-18 Score=127.53 Aligned_cols=129 Identities=10% Similarity=0.126 Sum_probs=110.9
Q ss_pred HHHHHHHHHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCC-CceEEEEecCChhhHhhhcCCCeEEEEeeCCCCC
Q 037690 18 DAAAFARWLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGS-GVPYFYLTTLDPTARNALRDKRSSLAISEYPLGT 96 (192)
Q Consensus 18 ~~a~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~-g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~~ 96 (192)
+..+.+.++|+++...+|||.+. +.||+..+.|+ .|++ -.+||++++.++|.+|+.+||+|+.+|..+..
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 45678999999999999999984 78999999999 5665 46899999999999999999999999997763
Q ss_pred CCCCCCCCCCcceEEEEEEEEEecCCcHHHHHHHHHHHHhCCCCcCCCCCCCeEEEEEEEeEEEEec---cCCC
Q 037690 97 CGERDPENPACAKITLTGKLVLVDVSTKEAEFAEHALFTKHPEMMDWPEDHNFQIFKLEIEDIFLIN---WFGG 167 (192)
Q Consensus 97 ~~~~dp~~~~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rhP~~~~~~~~~df~~~~l~~~~~~~v~---GFG~ 167 (192)
+- ...+.|++.|++..+++ +|...++++|.+|||.++.. ..-+|+|+++++.++| |||.
T Consensus 76 ----~v--~~I~GvQ~~G~~~~l~~--~e~~~Ar~~Y~~rFP~A~~~----~~~iw~l~l~~iK~tdN~LGFgk 137 (144)
T PRK03467 76 ----TV--ALIRGVQFKGEIRRLEG--EESDAARKRYNRRFPVARAL----SAPVWELRLDEIKMTDNTLGFGK 137 (144)
T ss_pred ----ch--hhceEEEEEEEEEecCh--hHHHHHHHHHHHhCcchhcc----CCceEEEEEEEEEEecccccccc
Confidence 21 26789999999999975 46678999999999998654 3449999999999999 9997
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=99.71 E-value=3.6e-16 Score=119.31 Aligned_cols=124 Identities=21% Similarity=0.134 Sum_probs=95.9
Q ss_pred HHHHHHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCC------CCCceEEEE------ecCChhhHhhhcCCCeEEE
Q 037690 21 AFARWLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNE------GSGVPYFYL------TTLDPTARNALRDKRSSLA 88 (192)
Q Consensus 21 ~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~------~~g~~~~~~------s~~s~h~~Nl~~np~vSl~ 88 (192)
.+++++|+++++|+|||+++ +|.|++++|.|+ .+ +++.+||++ ++.+.|.+||++||+|||+
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 57899999999999999998 699999999998 65 367788875 4567999999999999999
Q ss_pred EeeCCCCCCCCCCCCCCCcceEEEEEEEEEecCCcHHHHHHHHHHHHhCCCCcCCCCCCCeEEEEEEEeEEE
Q 037690 89 ISEYPLGTCGERDPENPACAKITLTGKLVLVDVSTKEAEFAEHALFTKHPEMMDWPEDHNFQIFKLEIEDIF 160 (192)
Q Consensus 89 v~~~~~~~~~~~dp~~~~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rhP~~~~~~~~~df~~~~l~~~~~~ 160 (192)
|...+. .+ .....+++.|+++.+++++.|.+.+.+.+.+|++... ....+..+++|+|+++.
T Consensus 77 v~~~~~-------~~-~~~~~v~v~G~a~~~~d~~~e~~~~~~~l~~kY~~~~--~~~~~~~vi~i~~~r~~ 138 (141)
T TIGR03668 77 VDRYDD-------DW-TRLWWVRADGRAEILRPGEEEHAAAVRLLRAKYHQYQ--AVPLEGPVIAIRVERWA 138 (141)
T ss_pred EecCCC-------Cc-cceEEEEEEEEEEEecCCchhhHHHHHHHHHHhHhhh--hcCCCCcEEEEEEEEEe
Confidence 865331 12 1235699999999998865477778888888885411 12233789999998653
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=99.60 E-value=3.3e-14 Score=104.12 Aligned_cols=109 Identities=20% Similarity=0.235 Sum_probs=86.6
Q ss_pred EEEeecCCCCCCeeeeEeccccCCCCC-CCCceEEEEecCChhhHhhhcCCCeEEEEeeCCCCCCCCCCCCCCCcceEEE
Q 037690 34 VLNTISSDLGGAPFGNVVSFSDGLPNE-GSGVPYFYLTTLDPTARNALRDKRSSLAISEYPLGTCGERDPENPACAKITL 112 (192)
Q Consensus 34 ~LAT~~~~~~G~P~~S~v~y~d~~~~~-~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~~~~~~dp~~~~~~rvtl 112 (192)
+|||++. +|.|++++|.|+ .+ .++.+||+.+..++|++||++||+|||++.+.+. ...++++
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 699999999998 43 4566999999999999999999999999999763 1158999
Q ss_pred EEEEEEecCCcHHHHHHHHHHHHhCCCCc---CCCC---CCCeEEEEEEEeEEE
Q 037690 113 TGKLVLVDVSTKEAEFAEHALFTKHPEMM---DWPE---DHNFQIFKLEIEDIF 160 (192)
Q Consensus 113 ~G~~~~i~~~~~e~~~~~~~~~~rhP~~~---~~~~---~~df~~~~l~~~~~~ 160 (192)
.|+++.+.+ .++.+.+.+.|.+++..+. .|.+ .++-.+++|.|++++
T Consensus 64 ~G~a~~v~d-~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~l~i~p~~~~ 116 (117)
T TIGR03618 64 EGTAELVED-PDPVRDLVDRLAERYRGAAGEDEYRRPMVDPRRVVVRVTPTRVY 116 (117)
T ss_pred EEEEEEecC-CcccHHHHHHHHHHHcccccchhcccccCCCCEEEEEEEEEEec
Confidence 999999976 3456777788888884432 2322 366799999999874
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=99.59 E-value=4.5e-14 Score=106.63 Aligned_cols=113 Identities=13% Similarity=0.058 Sum_probs=89.9
Q ss_pred HHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEeeCCCCCCCCCCCCC
Q 037690 25 WLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISEYPLGTCGERDPEN 104 (192)
Q Consensus 25 ~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~~~~~~dp~~ 104 (192)
..|+++++|+|+|+.+ +|.|++++|.|+ . .+|.+||+++..+.|.+||++||+|||++.+...
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----V-DGDKLLVRTKEDSWKVKRIRNNPRVTLAPCDRRG---------- 69 (132)
T ss_pred HHhccCcEEEEEEECC--CCcEEEEEEEEE----E-ECCEEEEEECCcCHHHHHHHhCCCEEEEEECCCC----------
Confidence 6788999999999987 699999999998 4 4689999999999999999999999999876542
Q ss_pred CCcceEEEEEEEEEecCCcHHHHHHHHHHHHhCCCC-cCCC-------CCCCeEEEEEEEe
Q 037690 105 PACAKITLTGKLVLVDVSTKEAEFAEHALFTKHPEM-MDWP-------EDHNFQIFKLEIE 157 (192)
Q Consensus 105 ~~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rhP~~-~~~~-------~~~df~~~~l~~~ 157 (192)
....+++.|+++.+. .+|...+.+++.+|++.. ..|. ..+....++|.|+
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 457778888999999663 2221 1245566676664
No 7
>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=99.57 E-value=3.9e-14 Score=98.52 Aligned_cols=85 Identities=20% Similarity=0.263 Sum_probs=74.8
Q ss_pred HHHHHHHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCC-CceEEEEecCChhhHhhhcCCCeEEEEeeCCCCCCC
Q 037690 20 AAFARWLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGS-GVPYFYLTTLDPTARNALRDKRSSLAISEYPLGTCG 98 (192)
Q Consensus 20 a~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~-g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~~~~ 98 (192)
.++++++|+++++++|||++. +|.|++++|.|. ...+ ..+||.....+.|++||++||+|+|++.+.+.
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 478999999999999999997 699999999998 3333 36999999999999999999999999999861
Q ss_pred CCCCCCCCcceEEEEEEEEEecC
Q 037690 99 ERDPENPACAKITLTGKLVLVDV 121 (192)
Q Consensus 99 ~~dp~~~~~~rvtl~G~~~~i~~ 121 (192)
....+++.|+++.+++
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 2479999999999974
No 8
>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=99.55 E-value=1.4e-13 Score=103.62 Aligned_cols=119 Identities=18% Similarity=0.093 Sum_probs=91.5
Q ss_pred HHHHHHHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEeeCCCCCCCC
Q 037690 20 AAFARWLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISEYPLGTCGE 99 (192)
Q Consensus 20 a~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~~~~~ 99 (192)
.++++++|++.+++.|||+++ +|.|++.+|.|. .+ +|.++|+....+.|.+||++||+|+|++.+...
T Consensus 4 ~~~~~~~L~~~~~~~LaT~~~--dG~P~~~P~~~~----~~-d~~l~~~t~~~s~K~~~l~~np~Vsl~~~~~~~----- 71 (130)
T TIGR03667 4 TAKVARRLREESIVWLTTVRR--SGQPQPVPVWFL----WD-GTEFLIYSRPQAAKLRNIRRNPRVSLHLNSDGR----- 71 (130)
T ss_pred CHHHHHHhcCCCeEEEEEECC--CCceEEEEEEEE----EE-CCEEEEEeCCcCHHHHHHhhCCcEEEEEEcCCC-----
Confidence 467899999999999999988 699999999998 44 788999999999999999999999999876542
Q ss_pred CCCCCCCcceEEEEEEEEEecCCcHHHHHHHHHHHHhCCC-CcCC-C-----CCCCeEEEEEEEeE
Q 037690 100 RDPENPACAKITLTGKLVLVDVSTKEAEFAEHALFTKHPE-MMDW-P-----EDHNFQIFKLEIED 158 (192)
Q Consensus 100 ~dp~~~~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rhP~-~~~~-~-----~~~df~~~~l~~~~ 158 (192)
....+.+.|+++.+++. +.. ...+.|.++++. ++.+ . ..+.-.++||.|++
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 333 334556667653 2222 2 23445699998875
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=1.5e-13 Score=104.72 Aligned_cols=128 Identities=17% Similarity=0.201 Sum_probs=100.0
Q ss_pred HHHHHHHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEeeCCCCCCCC
Q 037690 20 AAFARWLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISEYPLGTCGE 99 (192)
Q Consensus 20 a~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~~~~~ 99 (192)
.+++.+||+++.+|+||+++ +|.||+.+++|+ .+ +|.+||+++..+++.++|.+|| ||+.+...+.... .
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 46899999999999999999 489999999999 44 7889999999999999999999 9999988432100 0
Q ss_pred CCCC--CCCcceEEEEEEEEEecCCcHHHHHHHHHHHHhC-CCCcCCCCC--------CCeEEEEEEEeEEE
Q 037690 100 RDPE--NPACAKITLTGKLVLVDVSTKEAEFAEHALFTKH-PEMMDWPED--------HNFQIFKLEIEDIF 160 (192)
Q Consensus 100 ~dp~--~~~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rh-P~~~~~~~~--------~df~~~~l~~~~~~ 160 (192)
..+. .....+|+++|+++.|++ ++|..++.+++..++ |.. |-+. ..+.+|||+|+++.
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 0110 113579999999999977 568888888988887 542 3221 35899999999875
No 10
>COG3467 Predicted flavin-nucleotide-binding protein [General function prediction only]
Probab=99.44 E-value=5.1e-12 Score=98.90 Aligned_cols=131 Identities=14% Similarity=0.167 Sum_probs=97.0
Q ss_pred HHHHHHHHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEeeCCCCCCC
Q 037690 19 AAAFARWLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISEYPLGTCG 98 (192)
Q Consensus 19 ~a~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~~~~ 98 (192)
..+.+..+|+.+.+|+||+.+ +|.||+.+++|+ ..++.+|++.+..++|..+|.+||.|||.+.+...--.
T Consensus 12 ~~~~i~~~l~~~~~~~La~~~---~~~PyivP~~y~-----~~~~~lY~h~~~~grk~~~l~~~p~V~~ev~~~~~~~~- 82 (166)
T COG3467 12 SDEEIDAILAAGRVGRLAFAG---DGQPYVVPLNYG-----YEGGHLYFHGSPEGRKIELLRKNPLVCLEVDEIHGLVL- 82 (166)
T ss_pred CHHHHHHHHhhCCEEEEEEcC---CCCcEEEEeEeE-----EeCCeEEEEeCCcchhhHHhhcCCcEEEEEEcccccee-
Confidence 367899999999999999998 478999999998 56778999999999999999999999999998863110
Q ss_pred CCCCC--CCCcceEEEEEEEEEecCCcHHHHHHH----HHHHHhCCC------CcCC---CCCCCeEEEEEEEeEEE
Q 037690 99 ERDPE--NPACAKITLTGKLVLVDVSTKEAEFAE----HALFTKHPE------MMDW---PEDHNFQIFKLEIEDIF 160 (192)
Q Consensus 99 ~~dp~--~~~~~rvtl~G~~~~i~~~~~e~~~~~----~~~~~rhP~------~~~~---~~~~df~~~~l~~~~~~ 160 (192)
..|+ +.+..+|.++|+++++++. ++...+. +.+...++. .+.. .......+|++.++.+.
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 0111 2378999999999999874 4555555 333332322 1111 12244678888887754
No 11
>COG0748 HugZ Putative heme iron utilization protein [Inorganic ion transport and metabolism]
Probab=99.42 E-value=9.2e-15 Score=119.30 Aligned_cols=139 Identities=20% Similarity=0.198 Sum_probs=127.7
Q ss_pred chHHHHHHHHHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEeeCCCC
Q 037690 16 PNDAAAFARWLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISEYPLG 95 (192)
Q Consensus 16 ~~~~a~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~ 95 (192)
+.++..-+|.++++.++|.|+|..+. +|.||+|.+++. .|-+|++.++++..+.|++ +.+|+|+|++.-+..
T Consensus 2 ~~ea~~na~~~l~~~~~~~l~~~~~~-~g~p~~sv~~~g----id~~g~p~~~~~~~~~h~~-~~~d~r~sil~~~~g-- 73 (245)
T COG0748 2 DIEAHMNARHLLRSARLAALAGLEPV-TGVPFVSVVPVG----IDIDGNPLILLSRLFPHTA-DEADPRCSILLGEPG-- 73 (245)
T ss_pred cHHHHHHHHHHHHHHHHHHHhcCCCC-CCCceeeeccce----eccCCCcceeEeeeccccc-cccChhhhheecCcC--
Confidence 45778889999999999999999988 899999999999 8999999999999999999 999999999998886
Q ss_pred CCCCCCCCCCCcceEEEEEEEEEecCCcHHHHHHHHHHHHhCCCCcCCCCCCCeEEEEEEEeEEEEeccCCC
Q 037690 96 TCGERDPENPACAKITLTGKLVLVDVSTKEAEFAEHALFTKHPEMMDWPEDHNFQIFKLEIEDIFLINWFGG 167 (192)
Q Consensus 96 ~~~~~dp~~~~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rhP~~~~~~~~~df~~~~l~~~~~~~v~GFG~ 167 (192)
+.|++ +.+|+++.+++..++.++.....+.+.++-++|++..+....||++|+..+.+...-.||+.
T Consensus 74 ---~~d~~--~~~Rl~~e~~afr~~~~sv~lat~~~~g~~~~syAp~~~~~~d~~iyis~~arh~~N~~~~p 140 (245)
T COG0748 74 ---KGDEL--ALPRLTLEIEAFRLEFDSVALATLRERGLPRASYAPLYVDDGDYYIYISEIARHARNLGFNP 140 (245)
T ss_pred ---cCChh--hccchhHHHHHHHhccchHHHhhhhhcCCcCCCcCceEecCCceEEEEehHHHHhhccCcCC
Confidence 35766 88999999999999987777778888899999999999999999999999999988888887
No 12
>COG0748 HugZ Putative heme iron utilization protein [Inorganic ion transport and metabolism]
Probab=99.19 E-value=1.1e-12 Score=107.29 Aligned_cols=143 Identities=15% Similarity=0.102 Sum_probs=123.7
Q ss_pred HHHHHHHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEeeCCCCCCCC
Q 037690 20 AAFARWLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISEYPLGTCGE 99 (192)
Q Consensus 20 a~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~~~~~ 99 (192)
..+++.+...++.+.|||+.. +|.|-+|+.+|+ -.++.+|+|.|..++|++|+..||+||+|+.+++...
T Consensus 84 ~~e~~afr~~~~sv~lat~~~--~g~~~~syAp~~-----~~~~d~~iyis~~arh~~N~~~~p~vs~m~iedea~a--- 153 (245)
T COG0748 84 TLEIEAFRLEFDSVALATLRE--RGLPRASYAPLY-----VDDGDYYIYISEIARHARNLGFNPKVSVMFIEDEAKA--- 153 (245)
T ss_pred hHHHHHHHhccchHHHhhhhh--cCCcCCCcCceE-----ecCCceEEEEehHHHHhhccCcCCchhhheecCchhh---
Confidence 467888899999999999998 599999999998 4567799999999999999999999999999998621
Q ss_pred CCCCCCCcceEEEEEEEEEecCCcHHHHHHHHHHHHhCCC-CcCCCCCCCeEEEEEEEeEEEEeccCCCCcccChhh
Q 037690 100 RDPENPACAKITLTGKLVLVDVSTKEAEFAEHALFTKHPE-MMDWPEDHNFQIFKLEIEDIFLINWFGGRKPLTVDQ 175 (192)
Q Consensus 100 ~dp~~~~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rhP~-~~~~~~~~df~~~~l~~~~~~~v~GFG~a~~i~~~~ 175 (192)
... ....|++....+.-++. .+++......+..++.. ++..-...||.++.+++.+..++-|||+++.++.+.
T Consensus 154 ~s~--~~r~rl~~hmnAd~~ea-i~~yaqv~~~~~e~~~~~I~~Id~~gdfll~~l~~~~gl~v~gFgqa~~~~~d~ 227 (245)
T COG0748 154 KSA--FARKRLREHMNADHAEA-IAEYAQVLAQLAEATGGRIKGIDAMGDFLLFQLTPGQGLFVKGFGQAYAISGDG 227 (245)
T ss_pred hhH--HHHHHHHHHhhhHHHHH-HHHHHHHHHHHhhhhcchhhcccccccceeeeccCCCceEEeccchhhccccch
Confidence 111 26678888888888887 67888888888888876 788888999999999999999999999999998754
No 13
>PRK05679 pyridoxamine 5'-phosphate oxidase; Provisional
Probab=99.17 E-value=1.3e-09 Score=87.40 Aligned_cols=121 Identities=15% Similarity=0.175 Sum_probs=87.3
Q ss_pred HHHHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEeeCCCCCCCCCCC
Q 037690 23 ARWLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISEYPLGTCGERDP 102 (192)
Q Consensus 23 ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~~~~~~dp 102 (192)
.+.-++....++|||++. +|.|.+-+|.+-+ .+.+| ++|++...+.|++||.+||+|+|++.....
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 444567788999999998 6999999998841 35555 999999999999999999999999987642
Q ss_pred CCCCcceEEEEEEEEEecCCcHHHHHHHH------------------------------HHHHhCCCCcCCCCCCCeEEE
Q 037690 103 ENPACAKITLTGKLVLVDVSTKEAEFAEH------------------------------ALFTKHPEMMDWPEDHNFQIF 152 (192)
Q Consensus 103 ~~~~~~rvtl~G~~~~i~~~~~e~~~~~~------------------------------~~~~rhP~~~~~~~~~df~~~ 152 (192)
...|.+.|.++.++++ +.+++-+ .+..+++. ......+.|..|
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 2478899999988642 2111111 11111111 112234679999
Q ss_pred EEEEeEEEEecc
Q 037690 153 KLEIEDIFLINW 164 (192)
Q Consensus 153 ~l~~~~~~~v~G 164 (192)
+|.|+++-|..+
T Consensus 159 ~l~p~~veflql 170 (195)
T PRK05679 159 RVVPESIEFWQG 170 (195)
T ss_pred EEECCEEEEcCC
Confidence 999999988876
No 14
>COG3871 Uncharacterized stress protein (general stress protein 26) [General function prediction only]
Probab=99.12 E-value=1.8e-09 Score=81.65 Aligned_cols=126 Identities=19% Similarity=0.288 Sum_probs=98.2
Q ss_pred hHHHHHHHHHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCC-CceEEEEecCChhhHhhhcCCCeEEEEeeCCCC
Q 037690 17 NDAAAFARWLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGS-GVPYFYLTTLDPTARNALRDKRSSLAISEYPLG 95 (192)
Q Consensus 17 ~~~a~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~-g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~ 95 (192)
.+......++++..++|+|+|+.. +|+|..=+|.|- -++. |.+||..++.+++..-|++||+|++++..+..
T Consensus 4 ~~~~~~~~~~~e~~kv~~l~tv~~--~g~phsRpM~f~----hdg~~~tiwf~T~kds~~v~eik~n~~v~v~~~~~~~- 76 (145)
T COG3871 4 SKALQALAELLEGSKVGMLATVQE--NGHPHSRPMTFN----HDGPKGTIWFFTNKDSRKVEEIKKNPKVCVLFGYDDH- 76 (145)
T ss_pred HHHHHHHHHHHhhCceEEEEEecC--CCCccccceecc----CCCCcccEEeeccCchHHHHHHhhCCcEEEEEecCCC-
Confidence 456778889999999999999997 589999999975 2222 89999999999999999999999999988763
Q ss_pred CCCCCCCCCCCcceEEEEEEEEEecCCcHHHHHHHHHHHHhCCCCcCCC----CCCCeEEEEEEEeEEEEeccCCC
Q 037690 96 TCGERDPENPACAKITLTGKLVLVDVSTKEAEFAEHALFTKHPEMMDWP----EDHNFQIFKLEIEDIFLINWFGG 167 (192)
Q Consensus 96 ~~~~~dp~~~~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rhP~~~~~~----~~~df~~~~l~~~~~~~v~GFG~ 167 (192)
+ .-|.+.|+++.+++. ....+.+. +..+.|. +.+++.+.+|+++.+.|..-=+.
T Consensus 77 -----~------~fv~v~Gtael~~dr----a~~d~~W~---~~~~~wFe~GkedP~l~~Lkv~~e~i~yw~~~~~ 134 (145)
T COG3871 77 -----D------AFVEVSGTAELVEDR----AKIDELWT---SVLEAWFEQGKEDPDLTMLKVTAEDIDYWNSGDN 134 (145)
T ss_pred -----c------ceEEEEEEEEeeccH----HHHHHhhh---hhHHHHHhcCCCCCCeEEEEEchhHhHHHhccCC
Confidence 2 579999999999753 12222221 2233333 35899999999999988774443
No 15
>COG3787 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=99.03 E-value=5.5e-09 Score=77.30 Aligned_cols=133 Identities=10% Similarity=0.063 Sum_probs=106.8
Q ss_pred HHHHHHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCc-eEEEEecCChhhHhhhcCCCeEEEEeeCCCCCCCC
Q 037690 21 AFARWLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGV-PYFYLTTLDPTARNALRDKRSSLAISEYPLGTCGE 99 (192)
Q Consensus 21 ~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~-~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~~~~~ 99 (192)
+.+-++|+++...+++... +|.|||.-..|+ .|+... +|++.-+..+|.+=+..|++|..+|.....
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 4677889999999999987 599999999999 777655 444445556899999999999999987652
Q ss_pred CCCCCCCcceEEEEEEEEEecCCcHHHHHHHHHHHHhCCCCcCCCCCCCeEEEEEEEeEEEEec---cCCC-CcccChh
Q 037690 100 RDPENPACAKITLTGKLVLVDVSTKEAEFAEHALFTKHPEMMDWPEDHNFQIFKLEIEDIFLIN---WFGG-RKPLTVD 174 (192)
Q Consensus 100 ~dp~~~~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rhP~~~~~~~~~df~~~~l~~~~~~~v~---GFG~-a~~i~~~ 174 (192)
. .+..+.|++.|++..+.. ++.+.++++|.+|||.++.- .--+|.++.+.+.++| |||. ..|...+
T Consensus 71 t---va~ikGVQfkge~~~l~~--~q~~~Ark~Y~~rfp~akvd----~a~vwqleL~~ikftdNaLG~~kklew~r~~ 140 (145)
T COG3787 71 T---VALIKGVQFKGEISRLSG--EQSDAARKAYNRRFPVAKVD----SAPVWQLELDEIKFTDNALGFGKKLEWLRGS 140 (145)
T ss_pred e---eeeeeeeeeeeeehhhhc--chHHHHHHHHhccCchhhcc----cCceEEeeeeeEEeecccccccceEEEeccc
Confidence 1 236789999999999985 46789999999999986532 2458999999999999 8997 5665443
No 16
>PRK06733 hypothetical protein; Provisional
Probab=98.93 E-value=5.5e-08 Score=74.71 Aligned_cols=111 Identities=13% Similarity=0.143 Sum_probs=90.9
Q ss_pred HHHHHHHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEeeCCCCCCCC
Q 037690 20 AAFARWLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISEYPLGTCGE 99 (192)
Q Consensus 20 a~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~~~~~ 99 (192)
.++..++|+..+.++|||++.+ +|.|.++++.++- .-.+..+.|.....+...+||++||+++|.+.+.+.
T Consensus 10 t~el~~~L~~~~~~~laTv~ke-dG~Pnv~~Iswv~---a~d~~tIr~A~~~~skT~~NLk~Np~v~I~~~~~~~----- 80 (151)
T PRK06733 10 TEDLVQLLRKERIVTLATTDFE-KQVPNVSAISWVY---AVSKTSIRFAVDQRSRIVENIRHNPGVVLTIIANES----- 80 (151)
T ss_pred CHHHHHHHcCCceEEEEEEccC-CCceeEEEEEEEE---EcCCCEEEEEEccCcHhHHHHhhCCcEEEEEEeCCc-----
Confidence 4678899999999999999942 5999999999762 233578999999999999999999999999998752
Q ss_pred CCCCCCCcceEEEEEEEEEecCCcHHHHHHHHHHHHhCCCCcCCCCCCCeEEEEEEEeEEEEeccCCC
Q 037690 100 RDPENPACAKITLTGKLVLVDVSTKEAEFAEHALFTKHPEMMDWPEDHNFQIFKLEIEDIFLINWFGG 167 (192)
Q Consensus 100 ~dp~~~~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rhP~~~~~~~~~df~~~~l~~~~~~~v~GFG~ 167 (192)
..++.|+++.+.+. .+ ..| -..++++++|++++=+-.+|.
T Consensus 81 ---------~yqIkG~a~i~~e~---ie--------~vp--------lk~s~vei~I~eVrdv~FyGa 120 (151)
T PRK06733 81 ---------VYSISGAAEILTDR---ME--------GVP--------LKLALIEVNVEEVRDVMFYGA 120 (151)
T ss_pred ---------EEEEEEEEEEEeee---cc--------ccc--------ceEEEEEEEEEEEEEeeeccc
Confidence 38899999888642 11 112 238999999999999999996
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=98.90 E-value=6e-08 Score=79.06 Aligned_cols=77 Identities=14% Similarity=0.145 Sum_probs=63.9
Q ss_pred HhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEeeCCCCCCCCCCCCCCC
Q 037690 27 VSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISEYPLGTCGERDPENPA 106 (192)
Q Consensus 27 l~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~~~~~~dp~~~~ 106 (192)
+...+.++|||++. +|.|.+=+|.+-+ .+. +.++|++...+.|.++|.+||+|+|++.....
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--SGRPSSRMVLLKE---LDE-RGFVFYTNYGSRKGHQIETNPNAALVFFWPDL------------ 107 (217)
T ss_pred CCCCceEEEEEECC--CCCEEEEEEEEEE---ECC-CcEEEEECCCChHHHHHHhCCcEEEEEEeCCC------------
Confidence 35567899999987 5999999888851 343 45999999999999999999999999998753
Q ss_pred cceEEEEEEEEEecC
Q 037690 107 CAKITLTGKLVLVDV 121 (192)
Q Consensus 107 ~~rvtl~G~~~~i~~ 121 (192)
...|.|.|+++.+.+
T Consensus 108 ~~qvrv~G~a~~~~~ 122 (217)
T TIGR00558 108 ERQVRVEGKVEKLPR 122 (217)
T ss_pred CEEEEEEEEEEECCH
Confidence 257999999998764
No 18
>PLN03049 pyridoxine (pyridoxamine) 5'-phosphate oxidase; Provisional
Probab=98.65 E-value=1.3e-06 Score=78.68 Aligned_cols=118 Identities=16% Similarity=0.135 Sum_probs=86.3
Q ss_pred HhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEeeCCCCCCCCCCCCCCC
Q 037690 27 VSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISEYPLGTCGERDPENPA 106 (192)
Q Consensus 27 l~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~~~~~~dp~~~~ 106 (192)
+...+.++|||+++ +|.|.+-+|-+-+ .+.+ .++||+...|+|.++|.+||+|||++.+...
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---VDKR-GFVWYTNYDSRKAHELSANPKASLVFYWDGL------------ 347 (462)
T ss_pred CCCCCeeEEEEECC--CCCeeEEEEEEeE---EcCC-cEEEEECCCCHHHHHHhhCCcEEEEeecCCC------------
Confidence 56889999999998 6999999997642 3445 4699999999999999999999999998753
Q ss_pred cceEEEEEEEEEecCCcHHHHHH------------------------------HHHHHHhCCCCcCCCCCCCeEEEEEEE
Q 037690 107 CAKITLTGKLVLVDVSTKEAEFA------------------------------EHALFTKHPEMMDWPEDHNFQIFKLEI 156 (192)
Q Consensus 107 ~~rvtl~G~~~~i~~~~~e~~~~------------------------------~~~~~~rhP~~~~~~~~~df~~~~l~~ 156 (192)
...|.+.|+++.+.+ ++.++. .+.+..+|++.......+.|..|++.|
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 257899999999863 222111 122222332222333456799999999
Q ss_pred eEEEEecc
Q 037690 157 EDIFLINW 164 (192)
Q Consensus 157 ~~~~~v~G 164 (192)
+++-|..|
T Consensus 426 ~~iEfwq~ 433 (462)
T PLN03049 426 ELIEFWQG 433 (462)
T ss_pred eEEEEccC
Confidence 99966665
No 19
>COG0259 PdxH Pyridoxamine-phosphate oxidase [Coenzyme metabolism]
Probab=98.60 E-value=1.7e-06 Score=69.03 Aligned_cols=121 Identities=17% Similarity=0.161 Sum_probs=88.2
Q ss_pred HHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEeeCCCCCCCCCCCCC
Q 037690 25 WLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISEYPLGTCGERDPEN 104 (192)
Q Consensus 25 ~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~~~~~~dp~~ 104 (192)
.=+...+-++|||++. +|.|.+=+|-.-+ .|+.| ++||..-.|+|.+.|.+||++|+++...+.
T Consensus 41 ~~~~ePnAm~lATvd~--~G~P~~R~VLLK~---~DerG-fvFyTN~~S~Kg~eLa~np~Aal~F~W~~L---------- 104 (214)
T COG0259 41 AEVNEPNAMTLATVDE--QGRPSSRIVLLKE---LDERG-FVFYTNYGSRKGRELAANPYAALLFPWKEL---------- 104 (214)
T ss_pred cccCCCceeEEEeecC--CCCceeeEEEecc---cCCCc-EEEEeccCCcchhhHhhCcceeEEecchhc----------
Confidence 3377788999999998 6999999998862 45555 999999999999999999999999999874
Q ss_pred CCcceEEEEEEEEEecCCcH----------------------------HHHHHHHHHHHhCCCCcCCCCCCCeEEEEEEE
Q 037690 105 PACAKITLTGKLVLVDVSTK----------------------------EAEFAEHALFTKHPEMMDWPEDHNFQIFKLEI 156 (192)
Q Consensus 105 ~~~~rvtl~G~~~~i~~~~~----------------------------e~~~~~~~~~~rhP~~~~~~~~~df~~~~l~~ 156 (192)
...|.+.|+++.|.++.. +.++....|..||+... .+..+-..-|||.|
T Consensus 105 --~RQVrv~G~ve~vs~eesd~Yf~sRPr~S~iGAWAS~QS~~i~~r~~Le~~~ae~~~kf~~~~-iP~P~~WgG~ri~p 181 (214)
T COG0259 105 --ERQVRVEGRVERVSDEESDAYFASRPRGSQIGAWASKQSRPIASRAALEAKVAELTAKFADGE-IPRPPHWGGFRIVP 181 (214)
T ss_pred --cceEEEeeeeeeCCHHHHHHHHhcCCCcCccchhhccCccccCCHHHHHHHHHHHHHhcCCCC-CCCCCCccceEeee
Confidence 247999999999975311 11122223344454444 22234456789999
Q ss_pred eEEEEecc
Q 037690 157 EDIFLINW 164 (192)
Q Consensus 157 ~~~~~v~G 164 (192)
+.|-+=.|
T Consensus 182 ~~iEFWqg 189 (214)
T COG0259 182 ESIEFWQG 189 (214)
T ss_pred eEEEEecC
Confidence 99877554
No 20
>COG5015 Uncharacterized conserved protein [Function unknown]
Probab=98.54 E-value=3.2e-06 Score=62.10 Aligned_cols=120 Identities=13% Similarity=0.124 Sum_probs=92.6
Q ss_pred HHHHHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEeeCCCCCCCCCC
Q 037690 22 FARWLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISEYPLGTCGERD 101 (192)
Q Consensus 22 ~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~~~~~~d 101 (192)
.+.++|+.+..+.|||+. +|.|-+-+..+. ....+.+||+....-.-++.|.+||+|+|+-.+.+.
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 456889999999999998 588887666655 445678999988888889999999999998776542
Q ss_pred CCCCCcceEEEEEEEEEecCCcHHHHHHHHHHHHhCCCCcCCCC---CCCeEEEEEEEeEEEEeccCC
Q 037690 102 PENPACAKITLTGKLVLVDVSTKEAEFAEHALFTKHPEMMDWPE---DHNFQIFKLEIEDIFLINWFG 166 (192)
Q Consensus 102 p~~~~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rhP~~~~~~~---~~df~~~~l~~~~~~~v~GFG 166 (192)
.-|.++|+++.+++ ..++++.+..+|.++.+-+ .+-|.++-++..++..-+--|
T Consensus 69 ------~~vrlrg~a~f~~n-----ielkk~ale~yP~Lkeiy~tddnpifevfyld~~e~~m~df~g 125 (132)
T COG5015 69 ------VMVRLRGRAEFVEN-----IELKKLALEIYPVLKEIYPTDDNPIFEVFYLDSGEGEMYDFSG 125 (132)
T ss_pred ------eEEEEeeeEEeccc-----hHHHHHHhhhchhhHhhccCCCCCEEEEEEEeeccEEEEEecC
Confidence 34569999999875 2567778889999876654 456788888777766554333
No 21
>PLN02918 pyridoxine (pyridoxamine) 5'-phosphate oxidase
Probab=98.11 E-value=8.1e-05 Score=68.06 Aligned_cols=120 Identities=13% Similarity=0.076 Sum_probs=87.2
Q ss_pred HhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEeeCCCCCCCCCCCCCCC
Q 037690 27 VSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISEYPLGTCGERDPENPA 106 (192)
Q Consensus 27 l~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~~~~~~~dp~~~~ 106 (192)
+.....++|||++. +|.|.+=+|-+-+ .+.+ .++|++...|+|.+.|.+||+++|++.+.+.
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---VDKN-GFVWYTNYESQKGSDLSENPSAALLFYWEEL------------ 429 (544)
T ss_pred CCCCccceEEeeCC--CCCeeeEEEEEeE---EcCC-ceEEEECCCChhHHHHHhCCcEEEEeeeccc------------
Confidence 45677899999998 6999999888752 3554 5779999999999999999999999999864
Q ss_pred cceEEEEEEEEEecCCc----------------------------HHHHHHHHHHHHhCCCCcCCCCCCCeEEEEEEEeE
Q 037690 107 CAKITLTGKLVLVDVST----------------------------KEAEFAEHALFTKHPEMMDWPEDHNFQIFKLEIED 158 (192)
Q Consensus 107 ~~rvtl~G~~~~i~~~~----------------------------~e~~~~~~~~~~rhP~~~~~~~~~df~~~~l~~~~ 158 (192)
...|.+.|.++.+.++. ++.+...+.+..++++.......+.+.-|+|.|++
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 25799999999986421 11112222333344332223444678899999999
Q ss_pred EEEecc
Q 037690 159 IFLINW 164 (192)
Q Consensus 159 ~~~v~G 164 (192)
+-|-.|
T Consensus 510 iEFWQg 515 (544)
T PLN02918 510 FEFWQG 515 (544)
T ss_pred EEECCC
Confidence 988766
No 22
>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=97.84 E-value=0.00068 Score=53.25 Aligned_cols=133 Identities=15% Similarity=0.143 Sum_probs=87.8
Q ss_pred HHHHHHHHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCC----CCCceEEEEecCChhhHhhhcCCCeEEEEeeCCC
Q 037690 19 AAAFARWLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNE----GSGVPYFYLTTLDPTARNALRDKRSSLAISEYPL 94 (192)
Q Consensus 19 ~a~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~----~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~ 94 (192)
-.+..+.+|+...+|+|-|.+. |.|.+|.++|. .+ +.+.++-|+++...+.+.+..+..|-+.+.....
T Consensus 11 d~~~l~~~i~~~pfa~Lvt~~~---~~~~athlP~~----l~~~~~~~~~L~gHlAr~NP~~~~l~~~~~vl~iF~Gp~a 83 (169)
T PF04299_consen 11 DPEELRAFIRAHPFATLVTNGD---GGPVATHLPFL----LDEDDGGRGTLIGHLARANPQWKALDDGQEVLVIFQGPHA 83 (169)
T ss_dssp -HCHHHHHHHHS-EEEEEEEET---TEEEEEEEE-E----E-T---TSSEEEEEEETTSGGGGGTT-TS-EEEEEEEEEE
T ss_pred CHHHHHHHHHhCCcEEEEEcCC---CCcceeeecEE----EEeeeCCCCEEEEEeCCCCHhHhhcCCCCcEEEEEECCCe
Confidence 3556899999999999999774 67999999998 44 4678999999999999999988888777766432
Q ss_pred -----CCCCC--CCCCC--CCcceEEEEEEEEEecCCcHHHHHHHHHHHHhC-CCC-cCCC--C---------CCCeEEE
Q 037690 95 -----GTCGE--RDPEN--PACAKITLTGKLVLVDVSTKEAEFAEHALFTKH-PEM-MDWP--E---------DHNFQIF 152 (192)
Q Consensus 95 -----~~~~~--~dp~~--~~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rh-P~~-~~~~--~---------~~df~~~ 152 (192)
++..+ ....+ .+...|-+.|+++.+++ +++..+..+.+..+| +.. ..|. + .....=|
T Consensus 84 YISPsWYp~k~~~~~~VPTWNY~aVh~~G~~~~~~d-~~~~~~~l~~l~~~~E~~~~~pW~~~~~~~~~~~~ll~~IvGf 162 (169)
T PF04299_consen 84 YISPSWYPTKAEHGKVVPTWNYAAVHAYGTVRIIDD-PDWLRAHLDRLTAHFEPDRPPPWSVDDAPEDYIERLLRGIVGF 162 (169)
T ss_dssp EE-CCCS----STTS---EEEEEEEEEEEEEEE----HHHHHHHHHHHHHHHS-T-T----S-------HCHHHCTEEEE
T ss_pred eECchhhcccCcCCCCCCCcCEEEEEEEEEEEEEeC-HHHHHHHHHHHHHHhCCCCCCCcccccCCHHHHHHHhCCeEEE
Confidence 22111 11111 38889999999999965 567777778887777 332 2332 1 1455777
Q ss_pred EEEEeEE
Q 037690 153 KLEIEDI 159 (192)
Q Consensus 153 ~l~~~~~ 159 (192)
+|.|+++
T Consensus 163 ei~I~~i 169 (169)
T PF04299_consen 163 EIEITRI 169 (169)
T ss_dssp EEEEEEE
T ss_pred EEEEEeC
Confidence 8888764
No 23
>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=97.79 E-value=0.00025 Score=52.12 Aligned_cols=88 Identities=15% Similarity=0.088 Sum_probs=67.5
Q ss_pred CCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCC-----hhhHhhhcCCCeEEEEeeCCCCCCCCCCCCC
Q 037690 30 NYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLD-----PTARNALRDKRSSLAISEYPLGTCGERDPEN 104 (192)
Q Consensus 30 ~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s-----~h~~Nl~~np~vSl~v~~~~~~~~~~~dp~~ 104 (192)
..++.|-|.+.. +|.|+.+++.|+ .+ +|.+|+..|.-+ .-++||++||+|++.+..
T Consensus 7 ~p~~lL~t~GRk-SG~~r~tpl~~~----~~-~~~~~vvas~~G~~~~p~W~~Nl~A~p~v~v~~~g------------- 67 (113)
T TIGR00026 7 LPVLLLTTTGRK-SGKPRTTPVTYV----RH-DPGVLIVASNGGAPRHPDWYKNLKANPRVRVRVGG------------- 67 (113)
T ss_pred CCEEEEEECCCC-CCcEEEEEEEEE----EE-CCEEEEEEecCCCCCCCHHHHHhhhCCcEEEEECC-------------
Confidence 357889998876 899999999998 33 566777755543 459999999999987611
Q ss_pred CCcceEEEEEEEEEecCCcHHHHHHHHHHHHhCCCCcCC
Q 037690 105 PACAKITLTGKLVLVDVSTKEAEFAEHALFTKHPEMMDW 143 (192)
Q Consensus 105 ~~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rhP~~~~~ 143 (192)
+ +..+.++.+++ +|.+.+...+..++|....|
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 36788989975 47788889999999975444
No 24
>KOG2586 consensus Pyridoxamine-phosphate oxidase [Coenzyme transport and metabolism]
Probab=97.76 E-value=0.00021 Score=57.08 Aligned_cols=76 Identities=13% Similarity=0.124 Sum_probs=60.4
Q ss_pred hhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEec-CChhhHhhhcCCCeEEEEeeCCCCCCCCCCCCCCC
Q 037690 28 SQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTT-LDPTARNALRDKRSSLAISEYPLGTCGERDPENPA 106 (192)
Q Consensus 28 ~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~-~s~h~~Nl~~np~vSl~v~~~~~~~~~~~dp~~~~ 106 (192)
..-.-++|||+.. +|.|..=+|-|- ..+.+| ++||+.- .+++..||..||++||++...+. +
T Consensus 54 ~~~~am~LsT~~~--d~rvssRmvLlK---gl~~~g-f~fytn~~~srk~kdL~~NP~Aal~Fyw~~l----~------- 116 (228)
T KOG2586|consen 54 GEINAMTLSTADK--DGRVSSRMVLLK---GLDHDG-FVFYTNYGTSRKGKDLQENPNAALLFYWEDL----N------- 116 (228)
T ss_pred Cchhheeehhccc--cCCcceeeeeee---cccCCC-eEEEeeccccccccccccCCcceEEEeehhc----c-------
Confidence 3445789999987 699999999986 255665 7777776 79999999999999999999864 1
Q ss_pred cceEEEEEEEEEecC
Q 037690 107 CAKITLTGKLVLVDV 121 (192)
Q Consensus 107 ~~rvtl~G~~~~i~~ 121 (192)
..|.+.|.++.+++
T Consensus 117 -rQVRveG~ve~l~~ 130 (228)
T KOG2586|consen 117 -RQVRVEGIVEKLPR 130 (228)
T ss_pred -ceeEEEeccccCCH
Confidence 36777888887764
No 25
>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=97.22 E-value=0.0023 Score=48.22 Aligned_cols=84 Identities=13% Similarity=0.034 Sum_probs=61.6
Q ss_pred CEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecC-----ChhhHhhhcCCCeEEEEeeCCCCCCCCCCCCCC
Q 037690 31 YWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTL-----DPTARNALRDKRSSLAISEYPLGTCGERDPENP 105 (192)
Q Consensus 31 ~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~-----s~h~~Nl~~np~vSl~v~~~~~~~~~~~dp~~~ 105 (192)
.++.|-|.+.. .|.|+.+++.|. ..+|++|+..+.. ..=++||+++|.|.+.+..
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 37899999876 899999999998 4567788888843 4559999999998886422
Q ss_pred CcceEEEEEEEEEecCCcHHHHHHHHHHHHhCCCC
Q 037690 106 ACAKITLTGKLVLVDVSTKEAEFAEHALFTKHPEM 140 (192)
Q Consensus 106 ~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rhP~~ 140 (192)
-+..++++.++ ++|...+.+.+.+++|..
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 457888888899888873
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=97.21 E-value=0.0062 Score=43.75 Aligned_cols=91 Identities=13% Similarity=0.082 Sum_probs=62.4
Q ss_pred CCchHHHH-HHHH-HHhhCCEEEEEeec-CCCCCCeeeeEeccccCCCCC---CCCceEEEEecCChhhHhhh-cCCCeE
Q 037690 14 PHPNDAAA-FARW-LVSQNYWGVLNTIS-SDLGGAPFGNVVSFSDGLPNE---GSGVPYFYLTTLDPTARNAL-RDKRSS 86 (192)
Q Consensus 14 p~~~~~a~-~ar~-Ll~~~~~~~LAT~~-~~~~G~P~~S~v~y~d~~~~~---~~g~~~~~~s~~s~h~~Nl~-~np~vS 86 (192)
|++....+ .++. --+..++.+|||++ + +|.|.+=.|-|-.-. .+ +...+.|++=.-+.|+..|. .||+++
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 45554333 3333 45678899999999 5 699998666553100 11 13458888888899999999 999999
Q ss_pred EEEeeCCCCCCCCCCCCCCCcceEEEEEEEEEe
Q 037690 87 LAISEYPLGTCGERDPENPACAKITLTGKLVLV 119 (192)
Q Consensus 87 l~v~~~~~~~~~~~dp~~~~~~rvtl~G~~~~i 119 (192)
+++...+. ...+.+.|++..+
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 99998864 2578888988766
No 27
>COG2808 PaiB Transcriptional regulator [Transcription]
Probab=96.63 E-value=0.032 Score=44.74 Aligned_cols=115 Identities=16% Similarity=0.148 Sum_probs=80.4
Q ss_pred HHHHHHHHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEeeCCC----
Q 037690 19 AAAFARWLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISEYPL---- 94 (192)
Q Consensus 19 ~a~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~---- 94 (192)
..+....||+.+.+|+|-|... |.|+++.++|.-.....++|.++.++++...+++-+.....|=.++...+.
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 4678899999999999999874 899999999972111113467888899999999999987777666655443
Q ss_pred -CCCCC-CCC-C--CCCcceEEEEEEEEEecCCcHHHHHHHHHHHHhC
Q 037690 95 -GTCGE-RDP-E--NPACAKITLTGKLVLVDVSTKEAEFAEHALFTKH 137 (192)
Q Consensus 95 -~~~~~-~dp-~--~~~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rh 137 (192)
++..+ ..| . ..+...|-..|++..++| ++-...+...+...|
T Consensus 88 ~WY~sK~e~~~~VPTWNY~aVHayG~~~~~~D-~~~~~~~~~~Lt~~~ 134 (209)
T COG2808 88 AWYPSKRETPKVVPTWNYVAVHAYGTVRIIED-DEWLRELLARLTDEH 134 (209)
T ss_pred ccccccccCCCcCCCcceEEEEEecceeeecc-HHHHHHHHHHHHHHh
Confidence 12111 111 1 138889999999999986 334455555555454
No 28
>COG3576 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase [General function prediction only]
Probab=94.17 E-value=0.55 Score=37.01 Aligned_cols=68 Identities=16% Similarity=0.168 Sum_probs=50.4
Q ss_pred HHHHHHHHhhCCEEEEEeecCCCCCCeeeeEeccccCCCCCCC-CceEEEEecC--ChhhHhhhcCCCeEEEEeeCC
Q 037690 20 AAFARWLVSQNYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGS-GVPYFYLTTL--DPTARNALRDKRSSLAISEYP 93 (192)
Q Consensus 20 a~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~-g~~~~~~s~~--s~h~~Nl~~np~vSl~v~~~~ 93 (192)
....|+++..+.++.|+|++. +|.|=....+|+ -..+ +.+.+.+.+. ...-+||..||++++......
T Consensus 31 ~~~~~e~~~~~~~~~laT~d~--dG~p~~~~~p~~----qr~d~~~~~~v~d~~~~~~~~~~lgnn~~~tl~n~~~~ 101 (173)
T COG3576 31 ENHYREFIQTSQLAALATVDK--DGPPNVDPIPFA----QRGDPAGFTIVIDDNTAGKTDRNLGNNPKITLRNILRN 101 (173)
T ss_pred HHhhhhhhccccEEEEEEecc--CCCCCcCccchh----hccCCCCceEEeCcccccccccccccCccceeEEeccC
Confidence 445777788899999999998 599999999986 3333 3444444443 344667999999999988863
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=87.45 E-value=1.4 Score=34.75 Aligned_cols=53 Identities=13% Similarity=0.070 Sum_probs=41.1
Q ss_pred EEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEeeCC
Q 037690 33 GVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISEYP 93 (192)
Q Consensus 33 ~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~ 93 (192)
+++.|.+. + .|...++... . .++.+++.+=+.|++++||.+++.+++.|.++.
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 45667665 5 7999999987 4 456799999999999999999999999998864
No 30
>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=55.96 E-value=15 Score=27.58 Aligned_cols=59 Identities=17% Similarity=0.116 Sum_probs=39.7
Q ss_pred EEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEeeCCC
Q 037690 32 WGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISEYPL 94 (192)
Q Consensus 32 ~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~ 94 (192)
.++++| +. +|.|-+.+++++-.--.++ ..+.|.+.+.+...+||++.+..++.+...+.
T Consensus 8 v~vvtt-~~--~g~~~~~~~s~~~~~s~~P-p~v~~~l~~~~~t~~~i~~~~~f~vn~l~~~~ 66 (154)
T PF01613_consen 8 VAVVTT-DE--DGEPNGMTVSSVTSVSLDP-PLVLVSLNKSSHTYDNIEESGEFTVNVLSEDQ 66 (154)
T ss_dssp -EEEEE-EE--TTEEEEEEESSEEEEETTT-TEEEEEEETTSHHHHHHHHHSEEEEEEEBGGG
T ss_pred cEEEEE-CC--CCeEEEEEeeeeEEEECCC-CEEEEEECCCCchhHHHhhCCcEEEEeCHHHH
Confidence 567788 55 4777666666430000222 45677778888899999999999999987643
No 31
>COG1853 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]
Probab=44.01 E-value=69 Score=24.77 Aligned_cols=60 Identities=15% Similarity=0.022 Sum_probs=44.3
Q ss_pred hCCEEEEEeecCC-CCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEEeeCC
Q 037690 29 QNYWGVLNTISSD-LGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAISEYP 93 (192)
Q Consensus 29 ~~~~~~LAT~~~~-~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~ 93 (192)
.....++.|.+.+ .+|.|+++..... .++ -.+.+.+.+.+...+||+++.+..+-|-..+
T Consensus 17 p~pv~~VTt~~~~~~ng~~~s~~~~vs----~~P-P~v~v~v~~~~~t~~~i~~~~~F~vNvl~~~ 77 (176)
T COG1853 17 PTPVTVVTTKDGDRRNGMTASSFTSVS----LEP-PLVLVCVNKSSDTWPNIEETGEFVVNVLSED 77 (176)
T ss_pred CCceEEEEcCCCCcceeEEEEEEEecc----CCC-CEEEEEecCCcchhhhhhhcCEEEEEeCCHH
Confidence 4557788888764 2667777777766 333 3466777777888999999999999887776
No 32
>PRK10530 pyridoxal phosphate (PLP) phosphatase; Provisional
Probab=43.25 E-value=22 Score=28.87 Aligned_cols=43 Identities=12% Similarity=0.101 Sum_probs=31.6
Q ss_pred CccceeccCCCCCCchHHHHHHHHHHhhCCEEEEEeecCCCCCCeeeeEec
Q 037690 2 VEGRLISTISKKPHPNDAAAFARWLVSQNYWGVLNTISSDLGGAPFGNVVS 52 (192)
Q Consensus 2 ~~~~~~~~~~~~p~~~~~a~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~ 52 (192)
+.|.|++....+++. ..+..+++.+..-..++|| |.|+.+...
T Consensus 10 lDGTLl~~~~~i~~~--~~~ai~~~~~~G~~~~iaT------GR~~~~~~~ 52 (272)
T PRK10530 10 LDGTLLTPKKTILPE--SLEALARAREAGYKVIIVT------GRHHVAIHP 52 (272)
T ss_pred CCCceECCCCccCHH--HHHHHHHHHHCCCEEEEEc------CCChHHHHH
Confidence 579999887766654 3677888888888999999 666655443
No 33
>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=42.59 E-value=92 Score=22.73 Aligned_cols=67 Identities=12% Similarity=0.103 Sum_probs=41.7
Q ss_pred ChhhHhhhcCCCeEEEEeeCCCCCCCCCCCCCCCcceEEEEEEEEEecCCcHHHHHHHHHHHHhC-CCCcCCCCCCCeEE
Q 037690 73 DPTARNALRDKRSSLAISEYPLGTCGERDPENPACAKITLTGKLVLVDVSTKEAEFAEHALFTKH-PEMMDWPEDHNFQI 151 (192)
Q Consensus 73 s~h~~Nl~~np~vSl~v~~~~~~~~~~~dp~~~~~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rh-P~~~~~~~~~df~~ 151 (192)
+.-..|+.=++-+-+.+.+... . +.-++..|.- .....++.++++.|| |+|+..-. ++|++
T Consensus 12 s~p~e~lef~gvmrf~~qd~~~--------------k--~atK~VrVsS-~~tt~eVI~~LLeKFk~d~~~~s~-p~FAL 73 (112)
T cd01782 12 SYPTEDLEFHGVMRFYFQDGGE--------------K--VATKCIRVSS-TATTRDVIDTLSEKFRPDMRMLSN-PTYSL 73 (112)
T ss_pred cCCCcccEEeeEEEEEEEcCCC--------------c--EEEEEEEEec-CCCHHHHHHHHHHHhcccccccCC-cceEE
Confidence 3445666777777776666542 1 2234444533 223457788888888 88764444 59999
Q ss_pred EEEEEe
Q 037690 152 FKLEIE 157 (192)
Q Consensus 152 ~~l~~~ 157 (192)
|++...
T Consensus 74 Yevh~n 79 (112)
T cd01782 74 YEVHEN 79 (112)
T ss_pred EEEecC
Confidence 999764
No 34
>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=41.74 E-value=17 Score=23.02 Aligned_cols=32 Identities=13% Similarity=0.153 Sum_probs=25.1
Q ss_pred eeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCC
Q 037690 48 GNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKR 84 (192)
Q Consensus 48 ~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~ 84 (192)
|.-.-|+ ..||.+++++|...++.-.+.+|||
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 4455566 5689999999999988777788886
No 35
>PRK14891 50S ribosomal protein L24e/unknown domain fusion protein; Provisional
Probab=40.38 E-value=15 Score=27.45 Aligned_cols=32 Identities=16% Similarity=0.229 Sum_probs=25.6
Q ss_pred eeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCC
Q 037690 48 GNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKR 84 (192)
Q Consensus 48 ~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~ 84 (192)
|.-.-|| ..+|.+++++|....+.-.+.+|||
T Consensus 17 G~G~~fV-----R~DGkvf~FcssKC~k~f~~kRnPR 48 (131)
T PRK14891 17 GTGTMFV-----RKDGTVLHFVDSKCEKNYDLGREAR 48 (131)
T ss_pred CCCcEEE-----ecCCCEEEEecHHHHHHHHccCCCc
Confidence 4455566 6789999999999987777899995
No 36
>KOG2500 consensus Uncharacterized conserved protein [Function unknown]
Probab=38.97 E-value=52 Score=27.17 Aligned_cols=68 Identities=15% Similarity=0.204 Sum_probs=40.3
Q ss_pred CcceEEEEEEEEEecCCc-HHHHHHHHHHHHhCCCCcCCCCCCCeEEEEEEEeE----EEEec-cCCC---CcccCh
Q 037690 106 ACAKITLTGKLVLVDVST-KEAEFAEHALFTKHPEMMDWPEDHNFQIFKLEIED----IFLIN-WFGG---RKPLTV 173 (192)
Q Consensus 106 ~~~rvtl~G~~~~i~~~~-~e~~~~~~~~~~rhP~~~~~~~~~df~~~~l~~~~----~~~v~-GFG~---a~~i~~ 173 (192)
.+-||+-.|+...|.-++ .--+...+|++..||.-.--.-....++|.|+++. --||| |||. ++.+.+
T Consensus 44 Grlrvvakg~~~~ikLeD~tsg~LfA~c~id~~~~~avEav~DSSRYFViRv~dgngr~AFiGlGF~eR~dafDfnv 120 (253)
T KOG2500|consen 44 GRLRVVAKGERCEIKLEDKTSGELFAQCPIDEGPGNAVEAVSDSSRYFVIRVEDGNGRHAFIGLGFGERGDAFDFNV 120 (253)
T ss_pred ceeEEEEcCcEEEEEeccCCchhhhhhCcccCCCCccceeecccceEEEEEEeCCCccEEEEeecccccccccchhh
Confidence 667888888877663222 23456677888888862221223444566666654 23555 8987 555554
No 37
>COG2075 RPL24A Ribosomal protein L24E [Translation, ribosomal structure and biogenesis]
Probab=37.02 E-value=28 Score=23.01 Aligned_cols=35 Identities=11% Similarity=0.082 Sum_probs=27.1
Q ss_pred CeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCC
Q 037690 45 APFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKR 84 (192)
Q Consensus 45 ~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~ 84 (192)
.+=|+-.-|| ..||.+++++|...++.--+.+|||
T Consensus 13 I~PGtG~m~V-----r~Dg~v~~FcssKc~k~~~~~rnPR 47 (66)
T COG2075 13 IEPGTGIMYV-----RNDGKVLRFCSSKCEKLFKLGRNPR 47 (66)
T ss_pred cCCCceEEEE-----ecCCeEEEEechhHHHHHHccCCCc
Confidence 3446666777 6789999999999988666777885
No 38
>COG2457 Uncharacterized conserved protein [Function unknown]
Probab=36.83 E-value=1.3e+02 Score=24.19 Aligned_cols=34 Identities=18% Similarity=0.067 Sum_probs=30.0
Q ss_pred CCCceEEEEecCChhhHhhhcCCCeEEEEeeCCC
Q 037690 61 GSGVPYFYLTTLDPTARNALRDKRSSLAISEYPL 94 (192)
Q Consensus 61 ~~g~~~~~~s~~s~h~~Nl~~np~vSl~v~~~~~ 94 (192)
.++.+.+.+=+.++++.|+.++..+|..|.++..
T Consensus 37 ~gd~~~~kLy~GsrT~eNl~~~~~~~vnVv~D~~ 70 (199)
T COG2457 37 KGDKLKVKLYKGSRTYENLEKSNYLSVNVVDDPL 70 (199)
T ss_pred eCCEEEEEEecCcchHHHHhhcCeEEEEecCCHH
Confidence 3567899999999999999999999999988754
No 39
>PRK00807 50S ribosomal protein L24e; Validated
Probab=36.16 E-value=20 Score=22.42 Aligned_cols=25 Identities=12% Similarity=0.130 Sum_probs=20.8
Q ss_pred CCCCceEEEEecCChhhHhhhcCCC
Q 037690 60 EGSGVPYFYLTTLDPTARNALRDKR 84 (192)
Q Consensus 60 ~~~g~~~~~~s~~s~h~~Nl~~np~ 84 (192)
..||.+|+++|....+.--+.+|||
T Consensus 21 r~Dgkv~~Fcs~KC~~~f~~~~npr 45 (52)
T PRK00807 21 KKDGTILYFCSSKCEKNYKLGRVPR 45 (52)
T ss_pred EeCCcEEEEeCHHHHHHHHccCCCC
Confidence 5689999999998877667888886
No 40
>PF08922 DUF1905: Domain of unknown function (DUF1905); InterPro: IPR015018 This family consist of hypothetical bacterial proteins. ; PDB: 2D9R_A.
Probab=34.55 E-value=1.4e+02 Score=20.01 Aligned_cols=58 Identities=17% Similarity=0.093 Sum_probs=35.8
Q ss_pred HHHHHHhh--CCEEEEEeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChhhHhhhcCCCeEEEE
Q 037690 22 FARWLVSQ--NYWGVLNTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPTARNALRDKRSSLAI 89 (192)
Q Consensus 22 ~ar~Ll~~--~~~~~LAT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h~~Nl~~np~vSl~v 89 (192)
.+.+|-.. .+.-|-+|++ |.+|-+-+-.. .+|..++.++..=++..++.....|++.+
T Consensus 21 v~~~l~~~~~g~v~V~~tI~----g~~~~~sl~p~------g~G~~~Lpv~~~vRk~~g~~~Gd~V~v~l 80 (80)
T PF08922_consen 21 VAEELGEGGWGRVPVRGTID----GHPWRTSLFPM------GNGGYILPVKAAVRKAIGKEAGDTVEVTL 80 (80)
T ss_dssp HHHHH--S--S-EEEEEEET----TEEEEEEEEES------STT-EEEEE-HHHHHHHT--TTSEEEEEE
T ss_pred HHHHhccccCCceEEEEEEC----CEEEEEEEEEC------CCCCEEEEEcHHHHHHcCCCCCCEEEEEC
Confidence 34444444 6888999996 89996632223 56788888888878888888777777654
No 41
>PF11250 DUF3049: Protein of unknown function (DUF3049); InterPro: IPR021410 This eukaryotic family of proteins has no known function.
Probab=34.41 E-value=50 Score=21.04 Aligned_cols=45 Identities=13% Similarity=0.092 Sum_probs=28.7
Q ss_pred EeecCCCCCCeeeeEeccccCCCCCCCCceEEEEecCChh--hHhhhcCCCeEEE
Q 037690 36 NTISSDLGGAPFGNVVSFSDGLPNEGSGVPYFYLTTLDPT--ARNALRDKRSSLA 88 (192)
Q Consensus 36 AT~~~~~~G~P~~S~v~y~d~~~~~~~g~~~~~~s~~s~h--~~Nl~~np~vSl~ 88 (192)
.+++. .|.|+..+.++- .||++++-.-+...| ++.-..|++.-|.
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 44544 477999998885 679998877776554 3333345555443
No 42
>PF08282 Hydrolase_3: haloacid dehalogenase-like hydrolase; InterPro: IPR013200 The Haloacid Dehydrogenase (HAD) superfamily includes phosphatases, phosphonatases, P-type ATPases, beta-phosphoglucomutases, phosphomannomutases, and dehalogenases, which are involved in a variety of cellular processes ranging from amino acid biosynthesis to detoxification []. This HAD domain is found in several distinct enzymes including: Phospholipid-transporting ATPase 1 (3.6.3.1 from EC), a putative lipid-flipping enzyme involved in cold tolerance in Arabidopsis [] 3-deoxy-D-manno-octulosonate (KDO) 8-phosphate phosphatase (3.1.3.45 from EC), which catalyses the final step in the biosynthesis of KDO - a component of lipopolysaccharide in Gram-negative bacteria [] Mannosyl-3-phosphoglycerate phosphatase (3.1.3.70 from EC), which hydrolyzes mannosyl-3-phosphoglycerate to form the osmolyte mannosylglycerate [] Phosphoglycolate phopshatase (3.1.3.18 from EC), which catalyses the dephosphorylation of 2-phosphoglycolate [] ; PDB: 2B30_B 3R4C_A 1XVI_B 3IJ5_B 3MMZ_C 3L7Y_A 1XPJ_C 1RLT_B 1RLM_B 2HF2_A ....
Probab=31.16 E-value=37 Score=26.56 Aligned_cols=34 Identities=18% Similarity=0.189 Sum_probs=27.7
Q ss_pred CccceeccCCCCCCchHHHHHHHHHHhhCCEEEEEe
Q 037690 2 VEGRLISTISKKPHPNDAAAFARWLVSQNYWGVLNT 37 (192)
Q Consensus 2 ~~~~~~~~~~~~p~~~~~a~~ar~Ll~~~~~~~LAT 37 (192)
+.|.|++....+| .+..+..++|.+.....++||
T Consensus 5 lDGTLl~~~~~i~--~~~~~al~~l~~~g~~~~i~T 38 (254)
T PF08282_consen 5 LDGTLLNSDGKIS--PETIEALKELQEKGIKLVIAT 38 (254)
T ss_dssp CCTTTCSTTSSSC--HHHHHHHHHHHHTTCEEEEEC
T ss_pred ECCceecCCCeeC--HHHHHHHHhhcccceEEEEEc
Confidence 5789999877755 466777888888999999999
No 43
>PF05902 4_1_CTD: 4.1 protein C-terminal domain (CTD); InterPro: IPR008379 There is a unique sequence domain at the C terminus of all known 4.1 proteins, known as the C-terminal domain (CTD). Mammalian CTDs are associated with a growing number of protein-protein interactions, although such activities have yet to be associated with invertebrate CTDs. Mammalian CTDs are generally defined by sequence alignment as encoded by exons 18-21. Comparison of known vertebrate 4.1 proteins with invertebrate 4.1 proteins indicates that mammalian 4.1 exon 19 represents a vertebrate adaptation that extends the sequence of the CTD with a Ser/Thr-rich sequence. The CTD was first described as a 22/24 kDa domain by chymotryptic digestion of erythrocyte 4.1 (4.1R). CTD is thought to represent an independent folding structure which has gained function since the divergence of vertebrates from invertebrates [].; GO: 0003779 actin binding, 0005198 structural molecule activity, 0005856 cytoskeleton
Probab=30.67 E-value=54 Score=24.07 Aligned_cols=33 Identities=24% Similarity=0.320 Sum_probs=22.5
Q ss_pred cceEEEEEEEEEecCCcHHHHHHHHHHHHhCCCCc
Q 037690 107 CAKITLTGKLVLVDVSTKEAEFAEHALFTKHPEMM 141 (192)
Q Consensus 107 ~~rvtl~G~~~~i~~~~~e~~~~~~~~~~rhP~~~ 141 (192)
-+|++++|... |+. +++...+.+.-...||+|.
T Consensus 70 EKRIvITGD~D-IDh-DqaLa~aI~eAk~q~Pdm~ 102 (114)
T PF05902_consen 70 EKRIVITGDAD-IDH-DQALAQAIKEAKEQHPDMS 102 (114)
T ss_pred EEEEEEecCCC-cch-HHHHHHHHHHHHHhCCCce
Confidence 37999999997 643 4455555555566789874
No 44
>PRK10976 putative hydrolase; Provisional
Probab=27.03 E-value=62 Score=26.29 Aligned_cols=44 Identities=20% Similarity=0.181 Sum_probs=31.6
Q ss_pred CccceeccCCCCCCchHHHHHHHHHHhhCCEEEEEeecCCCCCCeeeeEecc
Q 037690 2 VEGRLISTISKKPHPNDAAAFARWLVSQNYWGVLNTISSDLGGAPFGNVVSF 53 (192)
Q Consensus 2 ~~~~~~~~~~~~p~~~~~a~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y 53 (192)
+.|.|++.+..+|+. ..+..+.+.+.....++|| |.|+.+...+
T Consensus 9 lDGTLl~~~~~is~~--~~~ai~~l~~~G~~~~iaT------GR~~~~~~~~ 52 (266)
T PRK10976 9 LDGTLLSPDHTLSPY--AKETLKLLTARGIHFVFAT------GRHHVDVGQI 52 (266)
T ss_pred CCCCCcCCCCcCCHH--HHHHHHHHHHCCCEEEEEc------CCChHHHHHH
Confidence 578999887666544 4677788888888999999 6666554443
No 45
>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=25.81 E-value=24 Score=19.93 Aligned_cols=21 Identities=24% Similarity=0.398 Sum_probs=16.1
Q ss_pred HHHHHHHHHHhCCCCcCCCCC
Q 037690 126 AEFAEHALFTKHPEMMDWPED 146 (192)
Q Consensus 126 ~~~~~~~~~~rhP~~~~~~~~ 146 (192)
...+.+.|+..||+.+.|+.-
T Consensus 6 AR~IyeR~v~~hp~~k~Wiky 26 (32)
T PF02184_consen 6 ARSIYERFVLVHPEVKNWIKY 26 (32)
T ss_pred HHHHHHHHHHhCCCchHHHHH
Confidence 456677788899999888753
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=24.90 E-value=2e+02 Score=22.59 Aligned_cols=42 Identities=21% Similarity=0.278 Sum_probs=30.2
Q ss_pred EEEEEEecCCcHHHHHHHHHHHHhCCCCcCCCCCCCeEEEEEEEeEEEEec
Q 037690 113 TGKLVLVDVSTKEAEFAEHALFTKHPEMMDWPEDHNFQIFKLEIEDIFLIN 163 (192)
Q Consensus 113 ~G~~~~i~~~~~e~~~~~~~~~~rhP~~~~~~~~~df~~~~l~~~~~~~v~ 163 (192)
.+++.+|+.+++|++.+.+.|.+..+.... ..++|.+|+-|.
T Consensus 2 ~~~l~~l~~~s~ey~~I~~~f~~~~~~~~~---------~~~~I~~I~~i~ 43 (206)
T PF00644_consen 2 NCELVPLEPDSEEYKEIEKYFKKTWKPVHK---------YKPKIKKIFRIQ 43 (206)
T ss_dssp TEEEEEEETTSHHHHHHHHHHHHTSTSTTT---------EEEEEEEEEEEE
T ss_pred CCEEEEcCCCCHHHHHHHHHHHhHCCCCCC---------CCCEEEEEEEEc
Confidence 467889988899999999999887654221 556666665554
No 47
>TIGR01487 SPP-like sucrose-phosphate phosphatase-like hydrolase, Archaeal. TIGR01482, in turn, is a member of the IIB subfamily (TIGR01484) of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases.
Probab=23.35 E-value=94 Score=24.38 Aligned_cols=44 Identities=16% Similarity=0.046 Sum_probs=29.6
Q ss_pred CccceeccCCCCCCchHHHHHHHHHHhhCCEEEEEeecCCCCCCeeeeEecc
Q 037690 2 VEGRLISTISKKPHPNDAAAFARWLVSQNYWGVLNTISSDLGGAPFGNVVSF 53 (192)
Q Consensus 2 ~~~~~~~~~~~~p~~~~~a~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~y 53 (192)
+.|.|.+.+..+++ +..+..++|-+.....+++| |.|+..+..+
T Consensus 8 lDGTLl~~~~~i~~--~~~~~i~~l~~~g~~~~~~T------GR~~~~~~~~ 51 (215)
T TIGR01487 8 IDGTLTEPNRMISE--RAIEAIRKAEKKGIPVSLVT------GNTVPFARAL 51 (215)
T ss_pred cCCCcCCCCcccCH--HHHHHHHHHHHCCCEEEEEc------CCcchhHHHH
Confidence 56888876665544 34666777777778888988 5565554443
No 48
>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=22.33 E-value=74 Score=25.40 Aligned_cols=51 Identities=10% Similarity=0.137 Sum_probs=39.5
Q ss_pred HHHHHHH-hC-CCCcCCCC-CCCeEEEEEEEeEEEEeccCCCCcccChhhhcCC
Q 037690 129 AEHALFT-KH-PEMMDWPE-DHNFQIFKLEIEDIFLINWFGGRKPLTVDQYLHT 179 (192)
Q Consensus 129 ~~~~~~~-rh-P~~~~~~~-~~df~~~~l~~~~~~~v~GFG~a~~i~~~~~~~a 179 (192)
+.++..+ |. |+.+-.++ ..+..+.|+-||-+||+-|....+-++-.++..+
T Consensus 137 i~eav~~GrL~~DGki~~~~~g~~~VTK~AvEPVWyLPGVA~RFGi~E~~LRR~ 190 (194)
T PF12471_consen 137 IREAVRKGRLVPDGKIVLNSNGDLAVTKAAVEPVWYLPGVAERFGISEGELRRA 190 (194)
T ss_pred HHHHHHhCCCCCCCeEEecCCCcEEEEEEEecccccchhhHHHcCCCHHHHHHH
Confidence 4444433 33 78888887 8999999999999999999888888887666543
No 49
>PRK10513 sugar phosphate phosphatase; Provisional
Probab=21.47 E-value=96 Score=25.15 Aligned_cols=43 Identities=19% Similarity=0.190 Sum_probs=30.0
Q ss_pred CccceeccCCCCCCchHHHHHHHHHHhhCCEEEEEeecCCCCCCeeeeEec
Q 037690 2 VEGRLISTISKKPHPNDAAAFARWLVSQNYWGVLNTISSDLGGAPFGNVVS 52 (192)
Q Consensus 2 ~~~~~~~~~~~~p~~~~~a~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~ 52 (192)
+.|.|++.+..+|+. ..+..+.|.+..-..++|| |.|+.+...
T Consensus 10 lDGTLl~~~~~i~~~--~~~ai~~l~~~G~~~~iaT------GR~~~~~~~ 52 (270)
T PRK10513 10 MDGTLLLPDHTISPA--VKQAIAAARAKGVNVVLTT------GRPYAGVHR 52 (270)
T ss_pred cCCcCcCCCCccCHH--HHHHHHHHHHCCCEEEEec------CCChHHHHH
Confidence 578899877665544 3566777777778899998 666665443
No 50
>PRK15126 thiamin pyrimidine pyrophosphate hydrolase; Provisional
Probab=20.95 E-value=70 Score=26.14 Aligned_cols=43 Identities=12% Similarity=0.054 Sum_probs=29.8
Q ss_pred CccceeccCCCCCCchHHHHHHHHHHhhCCEEEEEeecCCCCCCeeeeEec
Q 037690 2 VEGRLISTISKKPHPNDAAAFARWLVSQNYWGVLNTISSDLGGAPFGNVVS 52 (192)
Q Consensus 2 ~~~~~~~~~~~~p~~~~~a~~ar~Ll~~~~~~~LAT~~~~~~G~P~~S~v~ 52 (192)
+.|.|++.+..+++. ..+..+.|.++.-..++|| |.|+.+...
T Consensus 9 lDGTLl~~~~~i~~~--~~~ai~~l~~~G~~~~iaT------GR~~~~~~~ 51 (272)
T PRK15126 9 MDGTLLMPDHHLGEK--TLSTLARLRERDITLTFAT------GRHVLEMQH 51 (272)
T ss_pred CCCcCcCCCCcCCHH--HHHHHHHHHHCCCEEEEEC------CCCHHHHHH
Confidence 578899876655444 4667777777778899998 556554433
No 51
>PF10707 YrbL-PhoP_reg: PhoP regulatory network protein YrbL; InterPro: IPR019647 This entry represents proteins that are activated by the protein PhoP. PhoP controls the expression of a large number of genes that mediate adaptation to low Mg2+ environments and/or virulence in several bacterial species. YbrL is proposed to be acting in a loop activity with PhoP and PrmA analogous to the multi-component loop in Salmonella sp., where the PhoP-dependent PmrD protein activates the regulatory protein PmrA, and the activated PmrA then represses transcription from the PmrD promoter which harbours binding sites for both the PhoP and PmrA proteins. Expression of YrbL is induced in low Mg2+ in a PhoP-dependent fashion and repressed by Fe3+ in a PmrA-dependent manner [].
Probab=20.59 E-value=3e+02 Score=21.89 Aligned_cols=50 Identities=16% Similarity=0.271 Sum_probs=29.3
Q ss_pred HHHHHHHHHhCCCCcCCCCCCCeEEEEEE--EeEEEEeccCCCCcccChhhhc
Q 037690 127 EFAEHALFTKHPEMMDWPEDHNFQIFKLE--IEDIFLINWFGGRKPLTVDQYL 177 (192)
Q Consensus 127 ~~~~~~~~~rhP~~~~~~~~~df~~~~l~--~~~~~~v~GFG~a~~i~~~~~~ 177 (192)
+++.+.++..|--...+ ..+++.+-+-. .....+|||||....|....|.
T Consensus 128 ~~f~~~l~~~~Iv~~dl-~~~NIv~~~~~~~~~~lvlIDG~G~~~~ipl~~~~ 179 (199)
T PF10707_consen 128 DEFKRYLLDHHIVIRDL-NPHNIVVQRRDSGEFRLVLIDGLGEKELIPLASWS 179 (199)
T ss_pred HHHHHHHHHcCCeecCC-CcccEEEEecCCCceEEEEEeCCCCcccccHHHHh
Confidence 34444444445333332 23444444444 3468999999998888876654
Done!