Query 025825
Match_columns 247
No_of_seqs 163 out of 1130
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 09:59:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025825.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025825hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0799 Uncharacterized homolo 100.0 7.3E-39 1.6E-43 260.1 12.5 110 128-238 2-113 (115)
2 PRK11538 ribosome-associated p 100.0 3.5E-37 7.7E-42 245.9 12.7 101 129-230 3-105 (105)
3 TIGR00090 iojap_ybeB iojap-lik 100.0 1.2E-36 2.7E-41 239.5 11.8 96 133-229 2-99 (99)
4 PF02410 Oligomerisation: Olig 100.0 1.6E-35 3.5E-40 232.3 9.8 97 133-229 2-100 (100)
5 KOG3212 Uncharacterized conser 99.9 4.5E-26 9.8E-31 199.0 12.5 103 130-232 68-174 (208)
6 PF14492 EFG_II: Elongation Fa 59.1 3.4 7.3E-05 30.8 0.2 65 162-226 6-70 (75)
7 COG0314 MoaE Molybdopterin con 54.3 1.4E+02 0.0031 25.6 9.9 111 94-207 14-141 (149)
8 PF06778 Chlor_dismutase: Chlo 54.0 80 0.0017 28.1 8.0 51 133-183 7-61 (193)
9 smart00506 A1pp Appr-1"-p proc 53.8 17 0.00038 28.3 3.5 63 160-222 14-85 (133)
10 PRK11104 hemG protoporphyrinog 52.6 39 0.00084 28.8 5.7 42 127-170 12-57 (177)
11 PRK05568 flavodoxin; Provision 49.8 66 0.0014 25.5 6.3 55 127-182 13-77 (142)
12 cd00756 MoaE MoaE family. Memb 49.4 1.5E+02 0.0032 24.4 9.2 63 129-194 47-111 (124)
13 PF00258 Flavodoxin_1: Flavodo 48.1 45 0.00098 26.3 5.1 41 127-168 8-54 (143)
14 PRK08105 flavodoxin; Provision 47.9 48 0.0011 27.5 5.4 43 127-170 13-59 (149)
15 PRK05569 flavodoxin; Provision 45.7 57 0.0012 25.9 5.3 55 127-182 13-77 (141)
16 TIGR01755 flav_wrbA NAD(P)H:qu 43.2 89 0.0019 27.0 6.5 54 128-181 13-94 (197)
17 PRK10678 moaE molybdopterin gu 41.1 2.3E+02 0.005 24.3 9.0 63 129-194 60-124 (150)
18 PRK11921 metallo-beta-lactamas 40.9 51 0.0011 31.4 5.0 46 124-169 256-310 (394)
19 PRK05452 anaerobic nitric oxid 40.8 54 0.0012 32.5 5.4 72 99-170 235-315 (479)
20 TIGR00013 taut 4-oxalocrotonat 40.8 52 0.0011 22.8 3.9 30 164-193 7-36 (63)
21 cd00491 4Oxalocrotonate_Tautom 40.2 58 0.0013 22.0 4.0 28 165-192 7-34 (58)
22 PRK12276 putative heme peroxid 40.1 1E+02 0.0023 28.6 6.7 52 130-183 34-91 (248)
23 PRK09271 flavodoxin; Provision 39.6 1.8E+02 0.0039 24.1 7.6 55 128-183 13-80 (160)
24 PRK02289 4-oxalocrotonate taut 39.2 54 0.0012 23.0 3.8 27 165-191 8-34 (60)
25 PF02391 MoaE: MoaE protein; 38.6 1.6E+02 0.0035 23.7 7.0 60 129-188 55-116 (117)
26 PRK00745 4-oxalocrotonate taut 38.5 56 0.0012 22.6 3.8 39 166-204 9-53 (62)
27 PRK03767 NAD(P)H:quinone oxido 37.8 98 0.0021 26.5 5.9 54 128-181 14-95 (200)
28 PRK01964 4-oxalocrotonate taut 36.6 73 0.0016 22.4 4.1 29 165-193 8-36 (64)
29 PRK06756 flavodoxin; Provision 35.9 1.9E+02 0.0041 23.3 7.0 42 127-169 13-59 (148)
30 TIGR01753 flav_short flavodoxi 35.8 1.1E+02 0.0023 23.8 5.4 42 127-169 10-55 (140)
31 PRK09267 flavodoxin FldA; Vali 34.7 79 0.0017 26.1 4.7 40 128-170 14-57 (169)
32 PRK02220 4-oxalocrotonate taut 34.2 87 0.0019 21.5 4.2 28 165-192 8-35 (61)
33 PF01121 CoaE: Dephospho-CoA k 34.2 1.8E+02 0.004 25.0 7.0 84 97-180 43-143 (180)
34 PF07801 DUF1647: Protein of u 32.7 2.1E+02 0.0046 24.5 7.0 64 136-208 33-98 (142)
35 PRK09004 FMN-binding protein M 32.6 93 0.002 25.7 4.8 43 127-170 13-57 (146)
36 PRK00081 coaE dephospho-CoA ki 30.8 2.8E+02 0.0062 23.6 7.6 83 97-179 45-144 (194)
37 PRK06703 flavodoxin; Provision 30.6 1.9E+02 0.0041 23.3 6.2 42 127-169 13-58 (151)
38 PRK15031 5-carboxymethyl-2-hyd 30.5 2.5E+02 0.0055 23.4 7.0 65 125-189 14-92 (126)
39 smart00877 BMC Bacterial micro 29.7 1.4E+02 0.0029 22.4 4.8 41 143-185 21-61 (75)
40 PF01361 Tautomerase: Tautomer 29.3 95 0.0021 21.4 3.7 28 165-192 7-34 (60)
41 TIGR00254 GGDEF diguanylate cy 28.8 2.6E+02 0.0057 21.2 7.7 55 129-187 56-110 (165)
42 PF01656 CbiA: CobQ/CobB/MinD/ 27.4 3.3E+02 0.0072 21.9 8.3 71 133-218 83-161 (195)
43 PF00936 BMC: BMC domain; Int 26.8 97 0.0021 23.1 3.6 43 143-187 22-64 (75)
44 PHA02114 hypothetical protein 26.6 43 0.00094 27.8 1.8 23 94-116 68-92 (127)
45 PF08245 Mur_ligase_M: Mur lig 26.5 2.3E+02 0.0049 23.3 6.1 72 94-177 9-88 (188)
46 PRK03669 mannosyl-3-phosphogly 26.1 68 0.0015 28.5 3.1 20 162-181 42-61 (271)
47 PRK14730 coaE dephospho-CoA ki 25.8 4E+02 0.0086 22.9 7.7 83 97-179 45-145 (195)
48 PRK07308 flavodoxin; Validated 25.6 2.3E+02 0.0049 22.8 5.8 43 127-170 13-59 (146)
49 KOG4661 Hsp27-ERE-TATA-binding 25.3 44 0.00095 35.2 1.9 26 94-119 417-442 (940)
50 PF02962 CHMI: 5-carboxymethyl 25.1 1.4E+02 0.0031 24.8 4.6 63 127-189 15-91 (124)
51 PF05651 Diacid_rec: Putative 24.0 1.4E+02 0.0031 24.9 4.4 36 130-172 3-38 (135)
52 TIGR03371 cellulose_yhjQ cellu 23.9 3.6E+02 0.0079 22.9 7.1 40 146-185 115-162 (246)
53 smart00267 GGDEF diguanylate c 23.8 3.1E+02 0.0067 20.4 7.4 56 128-187 56-111 (163)
54 PLN02422 dephospho-CoA kinase 23.4 4.8E+02 0.011 23.6 8.1 67 144-210 105-181 (232)
55 KOG3220 Similar to bacterial d 23.3 80 0.0017 29.2 3.0 73 105-179 68-145 (225)
56 cd05006 SIS_GmhA Phosphoheptos 23.1 3.4E+02 0.0074 22.5 6.6 55 133-187 117-173 (177)
57 COG3579 PepC Aminopeptidase C 23.0 74 0.0016 31.6 2.9 15 95-109 140-154 (444)
58 PF00076 RRM_1: RNA recognitio 23.0 77 0.0017 21.2 2.2 17 94-110 10-26 (70)
59 PF02873 MurB_C: UDP-N-acetyle 23.0 1.7E+02 0.0037 23.5 4.5 58 135-192 39-96 (105)
60 TIGR01487 SPP-like sucrose-pho 23.0 81 0.0018 26.7 2.9 18 162-179 36-53 (215)
61 PRK10513 sugar phosphate phosp 22.9 82 0.0018 27.5 2.9 19 162-180 38-56 (270)
62 COG5476 Uncharacterized conser 22.8 7.5E+02 0.016 25.4 9.8 117 89-209 167-303 (488)
63 PF01820 Dala_Dala_lig_N: D-al 22.8 41 0.00088 26.9 0.9 46 162-207 3-51 (117)
64 TIGR01499 folC folylpolyglutam 22.3 5.9E+02 0.013 24.0 8.7 59 132-191 97-162 (397)
65 PRK02260 S-ribosylhomocysteina 22.1 5.4E+02 0.012 22.5 9.3 75 119-194 43-119 (158)
66 smart00362 RRM_2 RNA recogniti 22.1 1.5E+02 0.0033 18.9 3.5 18 94-111 11-28 (72)
67 cd06417 GH25_LysA-like LysA is 21.6 3.3E+02 0.0072 23.2 6.4 99 64-193 11-116 (195)
68 PRK01158 phosphoglycolate phos 21.6 90 0.002 26.4 2.8 17 162-178 38-54 (230)
69 PRK05723 flavodoxin; Provision 21.4 1.4E+02 0.0031 25.0 4.0 42 127-169 12-57 (151)
70 PF12724 Flavodoxin_5: Flavodo 21.3 1.6E+02 0.0035 23.7 4.2 48 128-176 10-60 (143)
71 TIGR03328 salvage_mtnB methylt 21.3 4E+02 0.0086 22.9 6.8 53 127-187 134-186 (193)
72 TIGR01752 flav_long flavodoxin 21.2 2.1E+02 0.0045 23.8 4.9 40 128-170 12-55 (167)
73 cd04723 HisA_HisF Phosphoribos 20.8 1.7E+02 0.0037 26.0 4.5 55 96-155 113-169 (233)
74 PF15221 LEP503: Lens epitheli 20.6 26 0.00056 26.1 -0.6 8 53-60 50-57 (61)
75 COG2199 c-di-GMP synthetase (d 20.2 4.7E+02 0.01 21.1 6.9 53 131-187 76-128 (181)
76 PLN02390 molybdopterin synthas 20.2 4.8E+02 0.01 21.2 8.4 58 131-188 38-97 (111)
No 1
>COG0799 Uncharacterized homolog of plant Iojap protein [Function unknown]
Probab=100.00 E-value=7.3e-39 Score=260.13 Aligned_cols=110 Identities=33% Similarity=0.615 Sum_probs=101.0
Q ss_pred hhHHHHHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCC--CCCCCCCEEEE
Q 025825 128 ESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS--GDSKPNSWTLL 205 (247)
Q Consensus 128 ~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~--~g~~~~~WiLl 205 (247)
+..++++.++++|+|+||+||++|||++++++|||||||||+|.||++|||++|.+.+|+ .|..|. +|...++|+||
T Consensus 2 ~~~~l~~~i~~alddkKAeDIv~lDv~~~s~~tDyfVIatg~s~rhv~Aiad~i~~~~k~-~g~~~~~~EG~~~~~Wvli 80 (115)
T COG0799 2 SMEELLEVIVEALDDKKAEDIVVLDVSGKSSLTDYFVIATGNSSRHVKAIADNVKEELKE-AGEVPLRIEGLSEGEWVLI 80 (115)
T ss_pred cHHHHHHHHHHHHHhccCCCeEEEEccCCcccccEEEEEEeCchHHHHHHHHHHHHHHHH-cCCCcccccCCCcCCEEEE
Confidence 456789999999999999999999999999999999999999999999999999999965 466664 46678999999
Q ss_pred EcCCEEEEecCcccccccchhhhcCCCceecCC
Q 025825 206 DFGDVVIHIFLPQQRAFYNLEEFYGNATTIELP 238 (247)
Q Consensus 206 D~GdIVVHIFtpE~RefYdLE~LW~da~~i~l~ 238 (247)
|+||||||||+|+.|+|||||+||++++.++..
T Consensus 81 D~GdivVHvf~~e~R~~Y~LEklW~d~~~~~~~ 113 (115)
T COG0799 81 DLGDIVVHVFTPEEREFYNLEKLWGDAPVVDVD 113 (115)
T ss_pred ecCcEEEEecCHHHHHHccHHHHhccCCccCcc
Confidence 999999999999999999999999999988754
No 2
>PRK11538 ribosome-associated protein; Provisional
Probab=100.00 E-value=3.5e-37 Score=245.90 Aligned_cols=101 Identities=24% Similarity=0.435 Sum_probs=93.3
Q ss_pred hHHHHHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCC--CCCCCCCEEEEE
Q 025825 129 SLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS--GDSKPNSWTLLD 206 (247)
Q Consensus 129 s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~--~g~~~~~WiLlD 206 (247)
+.++++.++++|+|+||+||+||||+++++++||||||||+|.||++|||++|.+.+++. |..|. +|..+++|+|+|
T Consensus 3 ~~~~~~~i~~~l~dkKa~DI~vlDv~~~~~~~Dy~VIatg~S~rh~~aia~~v~~~~k~~-~~~~~~~eG~~~~~WillD 81 (105)
T PRK11538 3 GKALQDFVIDKIDDLKGQDIIALDVQGKSSITDCMIICTGTSSRHVMSIADHVVQESRAA-GLLPLGVEGENAADWIVVD 81 (105)
T ss_pred HHHHHHHHHHHHHHcCCCCeEEEECCCCCcccCEEEEEEeCCHHHHHHHHHHHHHHHHHc-CCCCCcccCCCCCCEEEEe
Confidence 457899999999999999999999999999999999999999999999999999999865 55554 466778999999
Q ss_pred cCCEEEEecCcccccccchhhhcC
Q 025825 207 FGDVVIHIFLPQQRAFYNLEEFYG 230 (247)
Q Consensus 207 ~GdIVVHIFtpE~RefYdLE~LW~ 230 (247)
||+||||||+|+.|+|||||+||+
T Consensus 82 ~g~ivVHif~~e~Re~Y~LE~LW~ 105 (105)
T PRK11538 82 LGDVIVHVMQEESRRLYELEKLWS 105 (105)
T ss_pred CCCEEEEcCCHHHHhhcCHHhhhC
Confidence 999999999999999999999996
No 3
>TIGR00090 iojap_ybeB iojap-like ribosome-associated protein. This model describes a widely distributed family of bacterial proteins related to iojap from plants. It includes YbeB from E. coli. The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells. More recent work in bacteria suggests that the bacterial iojap-related protein physically associates with ribosomes. The function remains unknown.
Probab=100.00 E-value=1.2e-36 Score=239.49 Aligned_cols=96 Identities=33% Similarity=0.605 Sum_probs=90.2
Q ss_pred HHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCC--CCCCCCCEEEEEcCCE
Q 025825 133 AVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS--GDSKPNSWTLLDFGDV 210 (247)
Q Consensus 133 a~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~--~g~~~~~WiLlD~GdI 210 (247)
++.++++|+++||+||+||||++.++++||||||||+|.||++|||++|.+.+|+. |..|. +|.++++|+|+|||+|
T Consensus 2 ~~~i~~~l~~kka~dI~vldv~~~~~~~dy~VI~Tg~S~rh~~aia~~v~~~~k~~-~~~~~~~EG~~~~~WillD~g~i 80 (99)
T TIGR00090 2 LELIVEALDDKKAEDIVVLDVRGKSSIADYFVIASGTSSRHVKAIADNVEEELKEA-GLKPLGVEGLEEGDWVLVDLGDV 80 (99)
T ss_pred HHHHHHHHHHcCCCCEEEEECCCCCcccCEEEEEEeCCHHHHHHHHHHHHHHHHHc-CCCcccccCCCCCCEEEEECCCE
Confidence 67899999999999999999999999999999999999999999999999999864 66654 5678899999999999
Q ss_pred EEEecCcccccccchhhhc
Q 025825 211 VIHIFLPQQRAFYNLEEFY 229 (247)
Q Consensus 211 VVHIFtpE~RefYdLE~LW 229 (247)
|||||+||.|+|||||+||
T Consensus 81 vVHif~~e~R~~Y~LE~LW 99 (99)
T TIGR00090 81 VVHIFQPEAREFYDLEKLW 99 (99)
T ss_pred EEEeCChHHhhhcCHhhcC
Confidence 9999999999999999999
No 4
>PF02410 Oligomerisation: Oligomerisation domain; InterPro: IPR004394 The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells. Maize has two RNA polymerases in plastids, but the plastid-encoded one, similar to bacterial RNA polymerases, is missing in iojap mutants. The role of iojap in chloroplast development, and the role of its bacterial orthologs modeled here, is unclear [, ]. This entry contains the bacterial protein YbeB (P0AAT6 from SWISSPROT), which has been shown to comigrate with the mature 50S ribosome subunit. Therefore it either represents a novel ribosome-associated protein or it is associated with a different oligomeric complex that comigrates with ribosomal particles [].; PDB: 2O5A_A 2ID1_B 3UPS_A.
Probab=100.00 E-value=1.6e-35 Score=232.30 Aligned_cols=97 Identities=37% Similarity=0.717 Sum_probs=85.4
Q ss_pred HHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCC--CCCCCCCEEEEEcCCE
Q 025825 133 AVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS--GDSKPNSWTLLDFGDV 210 (247)
Q Consensus 133 a~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~--~g~~~~~WiLlD~GdI 210 (247)
++.|+++|+++||+||++|||++.++++||||||||+|.||++|+|++|.+.++++.+..|. +|.++++|+++|||+|
T Consensus 2 ~~~i~~~l~~~k~~dI~v~dv~~~~~~~dy~II~T~~S~rh~~aia~~v~~~~~k~~~~~~~~~eG~~~~~W~lvD~g~i 81 (100)
T PF02410_consen 2 LEEIVEALEDKKAEDIVVLDVREKSSWADYFIIATGRSERHVRAIADEVEKALKKEYGERPLRIEGLDESDWVLVDYGDI 81 (100)
T ss_dssp HHHHHHHHHHTT-EEEEEEEGCTTBSS-SEEEEEEESSHHHHHHHHHHHHHHH-HHTT----EEESTTTTSEEEEEESSE
T ss_pred HHHHHHHHHHcCCCCeEEEECCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHHcCCcccccCCCCCCCEEEEcccEE
Confidence 68899999999999999999999999999999999999999999999999999544455544 4777899999999999
Q ss_pred EEEecCcccccccchhhhc
Q 025825 211 VIHIFLPQQRAFYNLEEFY 229 (247)
Q Consensus 211 VVHIFtpE~RefYdLE~LW 229 (247)
|||||+||.|+|||||+||
T Consensus 82 vVHif~~e~R~~Y~LE~LW 100 (100)
T PF02410_consen 82 VVHIFTPEAREYYDLESLW 100 (100)
T ss_dssp EEEEEEHHHHHHHCHHHHT
T ss_pred EEEcCCHHHHhHcCHhhcC
Confidence 9999999999999999999
No 5
>KOG3212 consensus Uncharacterized conserved protein related to IojAP [Function unknown]
Probab=99.93 E-value=4.5e-26 Score=199.03 Aligned_cols=103 Identities=18% Similarity=0.380 Sum_probs=92.8
Q ss_pred HHHHHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcC-C--CC-CCCCCCCCEEEE
Q 025825 130 LSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYG-K--VP-SGDSKPNSWTLL 205 (247)
Q Consensus 130 ~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g-~--~p-~~g~~~~~WiLl 205 (247)
...++.++++|.+.+|.||.|+-+.+.+.|+||+|||||+|.||+.|||++|+..+|.+-+ . .+ ++|.++++|+++
T Consensus 68 h~~ve~vv~lLrdenadDVfVi~vpeem~y~dh~VIcSgrs~rhl~aiAe~lv~m~Kik~~kgd~hvriegk~s~dW~v~ 147 (208)
T KOG3212|consen 68 HLTVEEVVKLLRDENADDVFVIPVPEEMFYADHTVICSGRSDRHLRAIAEALVYMAKIKSQKGDKHVRIEGKQSSDWIVI 147 (208)
T ss_pred hhhHHHHHHHHHhcccCceEEEeccccceeeeeEEEEecCchHHHHHHHHHHHHHHHHhhcCCCcccccccccCCCeEEE
Confidence 3448999999999999999999999999999999999999999999999999999987622 1 22 246788999999
Q ss_pred EcCCEEEEecCcccccccchhhhcCCC
Q 025825 206 DFGDVVIHIFLPQQRAFYNLEEFYGNA 232 (247)
Q Consensus 206 D~GdIVVHIFtpE~RefYdLE~LW~da 232 (247)
|||.++||+|.||+|++||||.||+..
T Consensus 148 D~g~~vvH~mseeaRe~YdLEsLWa~~ 174 (208)
T KOG3212|consen 148 DYGKFVVHAMSEEAREYYDLESLWAAE 174 (208)
T ss_pred EeceEEEEecCHHHhhhccHHHHhccc
Confidence 999999999999999999999999873
No 6
>PF14492 EFG_II: Elongation Factor G, domain II; PDB: 1WDT_A 2DY1_A 2XEX_A 1ELO_A 2XSY_Y 2WRK_Y 1DAR_A 2WRI_Y 2XUY_Y 3J0E_H ....
Probab=59.14 E-value=3.4 Score=30.77 Aligned_cols=65 Identities=11% Similarity=0.249 Sum_probs=49.6
Q ss_pred EEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCEEEEEcCCEEEEecCcccccccchh
Q 025825 162 FFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKPNSWTLLDFGDVVIHIFLPQQRAFYNLE 226 (247)
Q Consensus 162 YfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~~g~~~~~WiLlD~GdIVVHIFtpE~RefYdLE 226 (247)
+.+-....+......+.+.+....++.-...-......++|+|-=+|++.+.|....-|+.|++|
T Consensus 6 ~~~~i~p~~~~d~~kl~~aL~~l~~eDP~l~~~~d~et~e~~l~g~Gelhlev~~~~L~~~~~v~ 70 (75)
T PF14492_consen 6 LSVAIEPKNKEDEPKLSEALQKLSEEDPSLRVERDEETGELILSGMGELHLEVLLERLKRRFGVE 70 (75)
T ss_dssp EEEEEEESSHHHHHHHHHHHHHHHHH-TTSEEEEETTTSEEEEEESSHHHHHHHHHHHHHTTCEB
T ss_pred EEEEEEECCHhHHHHHHHHHHHHHhcCCeEEEEEcchhceEEEEECCHHHHHHHHHHHHHHHCCe
Confidence 56777888899999999999887776411111123456789999999999999999999999886
No 7
>COG0314 MoaE Molybdopterin converting factor, large subunit [Coenzyme metabolism]
Probab=54.26 E-value=1.4e+02 Score=25.62 Aligned_cols=111 Identities=14% Similarity=0.114 Sum_probs=68.6
Q ss_pred chHHHHHHHHHhh--CcEE------EccCCCC-CCCc--ccCcchhhHHHHHHHHHHHHhCCCCCeEEEecCCCCcccC-
Q 025825 94 DTDEMFDNLLNKY--GKVV------YRRNDQK-SPAA--EIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTH- 161 (247)
Q Consensus 94 ~~~e~~~~lf~~~--g~~v------~~~~~~k-~~~~--e~~dd~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aD- 161 (247)
+..+.++.+-+.. |-+| .+.++-+ ...= |.-..+....+.+.+.++.+.-...|+.++.-.+.-...|
T Consensus 14 ~~~~~i~~~~~~~~~GAivtF~G~VR~~~~G~~v~~L~yEaY~~ma~k~l~~I~~e~~~k~~~~~v~i~HriG~l~~Ge~ 93 (149)
T COG0314 14 DVEELIEALSEPSEAGAIVTFVGIVREENDGRRVEALEYEAYPEMAEKELEEIAAEAKEKWGLLRVAIIHRIGELKIGEA 93 (149)
T ss_pred CHHHHHHHHhCcccCceEEEEEEEEecCCCCceeeeEEEecCHHHHHHHHHHHHHHHHHhCCceeEEEEEeeccccCCCc
Confidence 5667777776665 5543 3444321 1111 3333445666677777777777799999999888866665
Q ss_pred -EEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCC--C--CCCCCCEEEEEc
Q 025825 162 -FFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS--G--DSKPNSWTLLDF 207 (247)
Q Consensus 162 -YfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~--~--g~~~~~WiLlD~ 207 (247)
++|.+++..++-.-..++.+.+.+|.. .|. . ..++..|+--+-
T Consensus 94 ~v~v~v~s~HR~~Af~a~~~~id~lK~~---aPiWKkE~~~dg~~Wv~~~~ 141 (149)
T COG0314 94 IVLVGVASAHRKEAFEACEYIIDRLKHR---APIWKKEHTEDGERWVGDRE 141 (149)
T ss_pred EEEEEEecccHHHHHHHHHHHHHHHHhh---CCceEEEecCCCCeEEeccc
Confidence 455555555666666788888999874 554 1 223446986544
No 8
>PF06778 Chlor_dismutase: Chlorite dismutase; InterPro: IPR010644 This family contains chlorite dismutase enzymes of bacterial and archaeal origin. This enzyme catalyses the disproportionation of chlorite into chloride and oxygen [, ]. Note that many family members are hypothetical proteins.; PDB: 2VXH_B 3NN4_A 3NN2_A 3NN3_D 3NN1_E 3QPI_A 3Q08_Q 3Q09_B 1T0T_V 1VDH_E ....
Probab=53.96 E-value=80 Score=28.08 Aligned_cols=51 Identities=14% Similarity=0.045 Sum_probs=38.0
Q ss_pred HHHHHHHH---HhCC-CCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHH
Q 025825 133 AVAMARVV---SDVK-AADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRD 183 (247)
Q Consensus 133 a~~Ia~aL---~dkK-AeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d 183 (247)
++++.+++ .+.+ +.-+.++++.+...-+|+|+...+.+..+++.+-..++.
T Consensus 7 ~~e~~~~~~~~~~~~~~~~~~~Y~~~G~radaDl~~w~~~~~~~~lq~~~~~l~~ 61 (193)
T PF06778_consen 7 AEEFEAFLEEWEEAGDGVLRGVYSVSGLRADADLMFWWHAPDLEDLQEAERRLRR 61 (193)
T ss_dssp HHHHHHHHHHHHHTTTTEEEEEEEETTTSTT-SEEEEEEESSHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhccCceEEEEEEeecccCCCcEEEEEeCCCHHHHHHHHHHHHh
Confidence 44444444 3444 444899999999999999999999999999987776654
No 9
>smart00506 A1pp Appr-1"-p processing enzyme. Function determined by Martzen et al. Extended family detected by reciprocal PSI-BLAST searches (unpublished results, and Pehrson & Fuji).
Probab=53.78 E-value=17 Score=28.26 Aligned_cols=63 Identities=17% Similarity=0.232 Sum_probs=37.4
Q ss_pred cCEEEEEEcCCHHHHHHHHHHHHHHHHH-----hcCCCCCCCCCCCCEEEEEcC----CEEEEecCcccccc
Q 025825 160 THFFIIATAFSRPQIDAIGSRIRDLAEK-----EYGKVPSGDSKPNSWTLLDFG----DVVIHIFLPQQRAF 222 (247)
Q Consensus 160 aDYfVIaTg~S~RHv~AIAd~V~d~lKe-----~~g~~p~~g~~~~~WiLlD~G----dIVVHIFtpE~Ref 222 (247)
+|.+|-++-.+..+...++..|.+..-. .+.....+....++|++.+.+ ..|+|+.+|....-
T Consensus 14 ~d~IV~~~n~~~~~~~g~a~~i~~~~g~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~Iih~~~p~~~~~ 85 (133)
T smart00506 14 ADAIVNAANSDGAHGGGVAGAIARAAGKALEKEAFRKLAGGECPVGTAVVTEGGNLPAKYVIHAVGPRASGH 85 (133)
T ss_pred CCEEEECCCcccCCCCcHHHHHHHHhChHHHHHHHHHhcCCCcCCccEEEecCCCCCCCEEEEeCCCCCCCC
Confidence 5766655555555555566666544311 111111112457899999986 58999999876654
No 10
>PRK11104 hemG protoporphyrinogen oxidase; Provisional
Probab=52.61 E-value=39 Score=28.81 Aligned_cols=42 Identities=10% Similarity=0.127 Sum_probs=31.7
Q ss_pred hhhHHHHHHHHHHHHhCCCCCeEEEecCCCC--cc--cCEEEEEEcCC
Q 025825 127 AESLSFAVAMARVVSDVKAADIKVLFVKPLV--YW--THFFIIATAFS 170 (247)
Q Consensus 127 ~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s--~~--aDYfVIaTg~S 170 (247)
..+...|+.|++.|.. +.++.++++.+.. .+ +|.+||+++.-
T Consensus 12 G~T~~iA~~Ia~~l~~--g~~v~~~~~~~~~~~~l~~yD~vIlGspi~ 57 (177)
T PRK11104 12 GQTRKIASYIASELKE--GIQCDVVNLHRIEEPDLSDYDRVVIGASIR 57 (177)
T ss_pred ChHHHHHHHHHHHhCC--CCeEEEEEhhhcCccCHHHCCEEEEECccc
Confidence 3566778888888875 6788999988754 22 69999999753
No 11
>PRK05568 flavodoxin; Provisional
Probab=49.81 E-value=66 Score=25.48 Aligned_cols=55 Identities=13% Similarity=0.152 Sum_probs=38.8
Q ss_pred hhhHHHHHHHHHHHHhCCCCCeEEEecCCCC----cccCEEEEEEcCCH------HHHHHHHHHHH
Q 025825 127 AESLSFAVAMARVVSDVKAADIKVLFVKPLV----YWTHFFIIATAFSR------PQIDAIGSRIR 182 (247)
Q Consensus 127 ~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s----~~aDYfVIaTg~S~------RHv~AIAd~V~ 182 (247)
..+..+|+.|++.+.+ .+.++.++|+.... .-+|.+||+|..-. ..+....+.+.
T Consensus 13 GnT~~~a~~i~~~~~~-~g~~v~~~~~~~~~~~~~~~~d~iilgsp~y~~~~~~~~~~~~f~~~~~ 77 (142)
T PRK05568 13 GNTEAMANLIAEGAKE-NGAEVKLLNVSEASVDDVKGADVVALGSPAMGDEVLEEGEMEPFVESIS 77 (142)
T ss_pred chHHHHHHHHHHHHHH-CCCeEEEEECCCCCHHHHHhCCEEEEECCccCcccccchhHHHHHHHhh
Confidence 3567789999998865 44589999998754 24699999998643 24555555443
No 12
>cd00756 MoaE MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), which carries the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase in the second major step in Moco biosynthesis. MPT synthase is a heterotetramer consisting of two large (MoaE) and two small (MoaD) subunits.
Probab=49.38 E-value=1.5e+02 Score=24.41 Aligned_cols=63 Identities=5% Similarity=-0.048 Sum_probs=43.5
Q ss_pred hHHHHHHHHHHHHhCCCCCeEEEecCCCCcccC--EEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCC
Q 025825 129 SLSFAVAMARVVSDVKAADIKVLFVKPLVYWTH--FFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS 194 (247)
Q Consensus 129 s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aD--YfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~ 194 (247)
...+.+.+.++...-...++.|..=-+.-...| .+|.+++..+...-..++.+.+.+|+. .|.
T Consensus 47 ~~~l~~I~~e~~~k~~~~~v~v~HR~G~l~vGe~~v~i~v~a~hR~~af~A~~~~id~lK~~---~Pi 111 (124)
T cd00756 47 EKELEEIAEEARERWGLLRVAIIHRVGRLPPGEAIVLVAVSSPHRKEAFEACEFLIDRLKHR---API 111 (124)
T ss_pred HHHHHHHHHHHHHhCCCceEEEEEEEcccCCCCEEEEEEEecCCHHHHHHHHHHHHHHHHhh---CCE
Confidence 444555555566667788999988777765555 455566666777777788888999874 554
No 13
>PF00258 Flavodoxin_1: Flavodoxin; InterPro: IPR008254 This domain is found in a number of proteins including flavodoxin and nitric-oxide synthase. Flavodoxins are electron-transfer proteins that function in various electron transport systems. They bind one FMN molecule, which serves as a redox-active prosthetic group [] and are functionally interchangeable with ferredoxins. They have been isolated from prokaryotes, cyanobacteria, and some eukaryotic algae. Nitric oxide synthase (1.14.13.39 from EC) produces nitric oxide from L-arginie and NADPH. Nitric oxide acts as a messenger molecule in the body.; GO: 0010181 FMN binding, 0016491 oxidoreductase activity; PDB: 2WC1_A 2FVX_A 2FOX_A 6NUL_A 1FVX_A 2FAX_A 1FLN_A 1FLA_A 4NLL_A 2FDX_A ....
Probab=48.15 E-value=45 Score=26.30 Aligned_cols=41 Identities=12% Similarity=0.244 Sum_probs=31.6
Q ss_pred hhhHHHHHHHHHHHHhCCCCCeEEEecCCCCc----c--cCEEEEEEc
Q 025825 127 AESLSFAVAMARVVSDVKAADIKVLFVKPLVY----W--THFFIIATA 168 (247)
Q Consensus 127 ~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~----~--aDYfVIaTg 168 (247)
-.+..+|+.|++.|.+ ++.++.++++..... + .+.+|+++.
T Consensus 8 G~te~~A~~ia~~l~~-~g~~~~~~~~~~~~~~~~~~~~~~~~i~~~s 54 (143)
T PF00258_consen 8 GNTEKMAEAIAEGLRE-RGVEVRVVDLDDFDDSPSDLSEYDLLIFGVS 54 (143)
T ss_dssp SHHHHHHHHHHHHHHH-TTSEEEEEEGGGSCHHHHHHCTTSEEEEEEE
T ss_pred hhHHHHHHHHHHHHHH-cCCceeeechhhhhhhhhhhhhhceeeEeec
Confidence 3567889999999988 677899999998762 2 466666654
No 14
>PRK08105 flavodoxin; Provisional
Probab=47.91 E-value=48 Score=27.49 Aligned_cols=43 Identities=12% Similarity=0.278 Sum_probs=32.4
Q ss_pred hhhHHHHHHHHHHHHhCCCCCeEEEecCCCCcc----cCEEEEEEcCC
Q 025825 127 AESLSFAVAMARVVSDVKAADIKVLFVKPLVYW----THFFIIATAFS 170 (247)
Q Consensus 127 ~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~----aDYfVIaTg~S 170 (247)
-.+..+|+.|++.|.+. +.++.++++.....+ ++++||+|.+-
T Consensus 13 Gnte~~A~~l~~~l~~~-g~~~~~~~~~~~~~~~~~~~~~vi~~~sT~ 59 (149)
T PRK08105 13 GNALLVAEEAEAILTAQ-GHEVTLFEDPELSDWQPYQDELVLVVTSTT 59 (149)
T ss_pred hHHHHHHHHHHHHHHhC-CCceEEechhhCCchhcccCCeEEEEECCC
Confidence 46778899999998754 678888988776543 47888887664
No 15
>PRK05569 flavodoxin; Provisional
Probab=45.71 E-value=57 Score=25.88 Aligned_cols=55 Identities=7% Similarity=0.086 Sum_probs=39.6
Q ss_pred hhhHHHHHHHHHHHHhCCCCCeEEEecCCCC----cccCEEEEEEcC--C----HHHHHHHHHHHH
Q 025825 127 AESLSFAVAMARVVSDVKAADIKVLFVKPLV----YWTHFFIIATAF--S----RPQIDAIGSRIR 182 (247)
Q Consensus 127 ~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s----~~aDYfVIaTg~--S----~RHv~AIAd~V~ 182 (247)
..+..+|+.|++.+.+.+ .+|.++++.+.. .-+|.+||+|.. . ..++..+.+.+.
T Consensus 13 GnT~~iA~~i~~~~~~~g-~~v~~~~~~~~~~~~~~~~d~iilgsPty~~~~~~~~~~~~~~~~l~ 77 (141)
T PRK05569 13 GNVEVLANTIADGAKEAG-AEVTIKHVADAKVEDVLEADAVAFGSPSMDNNNIEQEEMAPFLDQFK 77 (141)
T ss_pred CHHHHHHHHHHHHHHhCC-CeEEEEECCcCCHHHHhhCCEEEEECCCcCCCcCChHHHHHHHHHhh
Confidence 356778999999887765 479999998754 256999999975 1 145666666553
No 16
>TIGR01755 flav_wrbA NAD(P)H:quinone oxidoreductase, type IV. This model represents a protein, WrbA, related to and slightly larger than flavodoxin. It was just shown, in E. coli and Archaeoglobus fulgidus (and previously for some eukaryotic homologs) to act as fourth type of NAD(P)H:quinone oxidoreductase. In E. coli, this protein was earlier reported to be produced during stationary phase, bind to the trp repressor, and make trp operon repression more efficient. WrbA does not interact with the trp operator by itself. Members are found in species in which homologs of the E. coli trp operon repressor TrpR are not detected.
Probab=43.16 E-value=89 Score=26.96 Aligned_cols=54 Identities=20% Similarity=0.107 Sum_probs=37.2
Q ss_pred hhHHHHHHHHHHHHhCCCCCeEEEecCCCC------------------------cccCEEEEEEcCC----HHHHHHHHH
Q 025825 128 ESLSFAVAMARVVSDVKAADIKVLFVKPLV------------------------YWTHFFIIATAFS----RPQIDAIGS 179 (247)
Q Consensus 128 ~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s------------------------~~aDYfVIaTg~S----~RHv~AIAd 179 (247)
.+..+|+.|++.+++..+.++.+++|.+.. ..+|.+|++|..= ..+++...+
T Consensus 13 ~T~~lA~~ia~g~~~~~g~ev~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~aD~ii~GSPty~g~~~~~lk~fld 92 (197)
T TIGR01755 13 HIETMARAVAEGAREVDGAEVVVKRVPETVPEEVAEKSHGKTDQTAPVATPQELADYDAIIFGTPTRFGNMASQMRNFLD 92 (197)
T ss_pred HHHHHHHHHHHHHHhcCCCEEEEEeccccCcHHHHHhccCCcccCCccCCHHHHHHCCEEEEEecccccCccHHHHHHHH
Confidence 456678888888876656688888886531 2479999999653 445555555
Q ss_pred HH
Q 025825 180 RI 181 (247)
Q Consensus 180 ~V 181 (247)
.+
T Consensus 93 ~~ 94 (197)
T TIGR01755 93 QT 94 (197)
T ss_pred hc
Confidence 54
No 17
>PRK10678 moaE molybdopterin guanine dinucleotide biosynthesis protein MoaE; Provisional
Probab=41.09 E-value=2.3e+02 Score=24.31 Aligned_cols=63 Identities=16% Similarity=0.118 Sum_probs=43.8
Q ss_pred hHHHHHHHHHHHHhCCCCCeEEEecCCCCcccC--EEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCC
Q 025825 129 SLSFAVAMARVVSDVKAADIKVLFVKPLVYWTH--FFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPS 194 (247)
Q Consensus 129 s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aD--YfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~ 194 (247)
...+.+...++.......+|.|+.--+.-...| .+|.+++..++..-..++.+.+.+|.. .|.
T Consensus 60 ~k~l~~I~~ea~~~~~~~~v~i~HR~G~l~~Ge~~v~Vav~s~HR~~Af~A~~~~id~lK~~---vPI 124 (150)
T PRK10678 60 EKALAEIVDEARSRWPLGRVTVIHRVGELWPGDEIVFVGVTSAHRSSAFEAGQFIMDYLKTR---APF 124 (150)
T ss_pred HHHHHHHHHHHHHhCCCCcEEEEEeEecccCCCEEEEEEEECCCHHHHHHHHHHHHHHHhhc---CCe
Confidence 344555555666666788999988777655554 456666666777777788899999874 554
No 18
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=40.87 E-value=51 Score=31.39 Aligned_cols=46 Identities=11% Similarity=0.011 Sum_probs=35.9
Q ss_pred CcchhhHHHHHHHHHHHHh-CCCCCeEEEecCCCC--c------ccCEEEEEEcC
Q 025825 124 DDDAESLSFAVAMARVVSD-VKAADIKVLFVKPLV--Y------WTHFFIIATAF 169 (247)
Q Consensus 124 ~dd~~s~~la~~Ia~aL~d-kKAeDIvVLDV~~~s--~------~aDYfVIaTg~ 169 (247)
+....+..+|+.|++-+.+ ..+.+|.++++.... . -+|.+|++|.+
T Consensus 256 S~~GnTe~mA~~ia~g~~~~~~g~~v~~~~~~~~~~~~i~~~~~~~d~ii~GspT 310 (394)
T PRK11921 256 TMWNSTRRMAEAIAEGIKKANKDVTVKLYNSAKSDKNDIITEVFKSKAILVGSST 310 (394)
T ss_pred CCchHHHHHHHHHHHHHhhcCCCCeEEEEECCCCCHHHHHHHHHhCCEEEEECCC
Confidence 4556678889999999974 456699999998753 1 28999999877
No 19
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=40.80 E-value=54 Score=32.50 Aligned_cols=72 Identities=11% Similarity=0.057 Sum_probs=44.7
Q ss_pred HHHHHHhhCcEEEccCCCCCCCcccCcchhhHHHHHHHHHHHHhCC-CCCeEEEecCCCC--c------ccCEEEEEEcC
Q 025825 99 FDNLLNKYGKVVYRRNDQKSPAAEIDDDAESLSFAVAMARVVSDVK-AADIKVLFVKPLV--Y------WTHFFIIATAF 169 (247)
Q Consensus 99 ~~~lf~~~g~~v~~~~~~k~~~~e~~dd~~s~~la~~Ia~aL~dkK-AeDIvVLDV~~~s--~------~aDYfVIaTg~ 169 (247)
..++++.|.+......++|.-=.=.+-...+..+|+.|++-+.+.. +.++.++++.... . -+|.+|++|.+
T Consensus 235 ~~~~l~~Y~~~~~~~~~~kv~IvY~S~~GnTe~mA~~ia~gl~~~g~gv~v~~~~v~~~~~~~i~~~~~~ad~vilGspT 314 (479)
T PRK05452 235 PTQIVELYLKWAADYQEDRITIFYDTMSNNTRMMADAIAQGIAEVDPRVAVKIFNVARSDKNEILTNVFRSKGVLVGSST 314 (479)
T ss_pred HHHHHHHHHHHhhccCcCcEEEEEECCccHHHHHHHHHHHHHHhhCCCceEEEEECCCCCHHHHHhHHhhCCEEEEECCc
Confidence 4445555555543322222111111444567788999999999875 5688999998653 2 26999999866
Q ss_pred C
Q 025825 170 S 170 (247)
Q Consensus 170 S 170 (247)
-
T Consensus 315 ~ 315 (479)
T PRK05452 315 M 315 (479)
T ss_pred c
Confidence 3
No 20
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=40.76 E-value=52 Score=22.78 Aligned_cols=30 Identities=10% Similarity=0.096 Sum_probs=24.5
Q ss_pred EEEEcCCHHHHHHHHHHHHHHHHHhcCCCC
Q 025825 164 IIATAFSRPQIDAIGSRIRDLAEKEYGKVP 193 (247)
Q Consensus 164 VIaTg~S~RHv~AIAd~V~d~lKe~~g~~p 193 (247)
+...|++..|-++|+..|.+.+.+.+|..+
T Consensus 7 i~~~grt~eqK~~l~~~it~~l~~~lg~~~ 36 (63)
T TIGR00013 7 ILKEGRTDEQKRQLIEGVTEAMAETLGANL 36 (63)
T ss_pred ECCCCCCHHHHHHHHHHHHHHHHHHhCCCc
Confidence 334689999999999999999988776543
No 21
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=40.16 E-value=58 Score=21.97 Aligned_cols=28 Identities=14% Similarity=0.143 Sum_probs=23.2
Q ss_pred EEEcCCHHHHHHHHHHHHHHHHHhcCCC
Q 025825 165 IATAFSRPQIDAIGSRIRDLAEKEYGKV 192 (247)
Q Consensus 165 IaTg~S~RHv~AIAd~V~d~lKe~~g~~ 192 (247)
+..|++..|-++|++.|.+.+.+.+|..
T Consensus 7 ~~~grt~eqk~~l~~~i~~~l~~~~g~~ 34 (58)
T cd00491 7 ILEGRTDEQKRELIERVTEAVSEILGAP 34 (58)
T ss_pred EcCCCCHHHHHHHHHHHHHHHHHHhCcC
Confidence 3458999999999999999998876653
No 22
>PRK12276 putative heme peroxidase; Provisional
Probab=40.10 E-value=1e+02 Score=28.57 Aligned_cols=52 Identities=2% Similarity=0.067 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHhCCCCCe------EEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHH
Q 025825 130 LSFAVAMARVVSDVKAADI------KVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRD 183 (247)
Q Consensus 130 ~~la~~Ia~aL~dkKAeDI------vVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d 183 (247)
.+.+.++.++|++..+..+ .++++.+.. ||+|+...+.+...++++-..++.
T Consensus 34 ~~~~~e~~~~l~~~~~~~~~~~g~~~~Y~v~G~r--ADlm~w~~~~~~~~lq~~~~~~~~ 91 (248)
T PRK12276 34 EAAVDEFLAFLEKWEEVEAAKQGSHAIYSIVGQK--ADLMLMILRPTMEELNEIENELNK 91 (248)
T ss_pred HHHHHHHHHHHHHHhhcccccccceeEEEeeccc--ceEEEEEeCCCHHHHHHHHHHHHh
Confidence 3345555556655443333 489999877 899999999999999998877764
No 23
>PRK09271 flavodoxin; Provisional
Probab=39.64 E-value=1.8e+02 Score=24.06 Aligned_cols=55 Identities=5% Similarity=0.106 Sum_probs=35.5
Q ss_pred hhHHHHHHHHHHHHhCCCCCeEEEecCCCC------c--ccCEEEEEEcC-----CHHHHHHHHHHHHH
Q 025825 128 ESLSFAVAMARVVSDVKAADIKVLFVKPLV------Y--WTHFFIIATAF-----SRPQIDAIGSRIRD 183 (247)
Q Consensus 128 ~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s------~--~aDYfVIaTg~-----S~RHv~AIAd~V~d 183 (247)
.+..+|+.|++.|.+.+ .+|.+.++.... . -+|.+||+|.. -+..+..+.+.+..
T Consensus 13 nTe~~A~~ia~~l~~~g-~~v~~~~~~~~~~~~~~~~~~~~d~vilgt~T~~~G~~p~~~~~f~~~l~~ 80 (160)
T PRK09271 13 NTREVAREIEERCEEAG-HEVDWVETDVQTLAEYPLDPEDYDLYLLGTWTDNAGRTPPEMKRFIAELAE 80 (160)
T ss_pred hHHHHHHHHHHHHHhCC-CeeEEEecccccccccccCcccCCEEEEECcccCCCcCCHHHHHHHHHHHH
Confidence 46678999999987654 467777765321 1 24899999943 23346666655544
No 24
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=39.23 E-value=54 Score=23.05 Aligned_cols=27 Identities=11% Similarity=0.170 Sum_probs=23.2
Q ss_pred EEEcCCHHHHHHHHHHHHHHHHHhcCC
Q 025825 165 IATAFSRPQIDAIGSRIRDLAEKEYGK 191 (247)
Q Consensus 165 IaTg~S~RHv~AIAd~V~d~lKe~~g~ 191 (247)
+..|+|..|.++|++.|.+.+.+.++.
T Consensus 8 ~~~Grs~EqK~~L~~~it~a~~~~~~~ 34 (60)
T PRK02289 8 LFEGRSQEQKNALAREVTEVVSRIAKA 34 (60)
T ss_pred ECCCCCHHHHHHHHHHHHHHHHHHhCc
Confidence 345899999999999999999887764
No 25
>PF02391 MoaE: MoaE protein; InterPro: IPR003448 This family contains the MoaE protein that is involved in biosynthesis of molybdopterin []. Molybdopterin, the universal component of the pterin molybdenum cofactors, contains a dithiolene group serving to bind Mo. Addition of the dithiolene sulphurs to a molybdopterin precursor requires the activity of the converting factor. Converting factor contains the MoaE and MoaD proteins.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 2WP4_B 2OMD_B 1NVJ_E 1FM0_E 3BII_E 1NVI_E 1FMA_E 2QIE_K 2Q5W_E 3RPF_A ....
Probab=38.65 E-value=1.6e+02 Score=23.71 Aligned_cols=60 Identities=12% Similarity=0.039 Sum_probs=41.5
Q ss_pred hHHHHHHHHHHHHhCCCCCeEEEecCCCCcccC--EEEEEEcCCHHHHHHHHHHHHHHHHHh
Q 025825 129 SLSFAVAMARVVSDVKAADIKVLFVKPLVYWTH--FFIIATAFSRPQIDAIGSRIRDLAEKE 188 (247)
Q Consensus 129 s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aD--YfVIaTg~S~RHv~AIAd~V~d~lKe~ 188 (247)
...+.+.+.++.......+|.|..--+.-...| .+|.++|..++..-..++.+.+.+|+.
T Consensus 55 ~~~l~~I~~e~~~~~~~~~v~i~HR~G~l~vGe~~v~V~vsa~hR~eaf~A~~~~id~iK~~ 116 (117)
T PF02391_consen 55 EKELEEIAEEARERFGIVDVAIVHRVGRLKVGEPIVLVAVSAPHRKEAFEACEYIIDRIKKE 116 (117)
T ss_dssp HHHHHHHHHHHHHHSTTCEEEEEEEEEEEETTSEEEEEEEEESSHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCCeEEEEEEeeCCCCCCCeEEEEEEecCCHHHHHHHHHHHHHHHhhc
Confidence 344555555566667778888887666555554 466677777888877788888888863
No 26
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=38.51 E-value=56 Score=22.58 Aligned_cols=39 Identities=18% Similarity=0.250 Sum_probs=28.7
Q ss_pred EEcCCHHHHHHHHHHHHHHHHHhcCCCCC------CCCCCCCEEE
Q 025825 166 ATAFSRPQIDAIGSRIRDLAEKEYGKVPS------GDSKPNSWTL 204 (247)
Q Consensus 166 aTg~S~RHv~AIAd~V~d~lKe~~g~~p~------~g~~~~~WiL 204 (247)
..|+|..|.++|++.|.+.+.+.+|..+. .....++|..
T Consensus 9 ~~grs~eqk~~l~~~it~~l~~~~~~p~~~v~V~i~e~~~~~w~~ 53 (62)
T PRK00745 9 FEGRTVEQKRKLVEEITRVTVETLGCPPESVDIIITDVKRENWAT 53 (62)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHHcCCChhHEEEEEEEcChHHeeE
Confidence 44899999999999999999888775432 1334556654
No 27
>PRK03767 NAD(P)H:quinone oxidoreductase; Provisional
Probab=37.78 E-value=98 Score=26.54 Aligned_cols=54 Identities=19% Similarity=0.091 Sum_probs=39.5
Q ss_pred hhHHHHHHHHHHHHhCCCCCeEEEecCCCC------------------------cccCEEEEEEcC----CHHHHHHHHH
Q 025825 128 ESLSFAVAMARVVSDVKAADIKVLFVKPLV------------------------YWTHFFIIATAF----SRPQIDAIGS 179 (247)
Q Consensus 128 ~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s------------------------~~aDYfVIaTg~----S~RHv~AIAd 179 (247)
.+..+|+.+++.+.+..+.++.+++|++.- ..+|.+||+|.. =..++++..+
T Consensus 14 ~T~~lA~~ia~g~~~~~G~ev~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~aD~ii~gsPty~g~~~~~lk~fld 93 (200)
T PRK03767 14 HIETMAEAVAEGAREVAGAEVTIKRVPETVPEEVAKKAGGKTDQAAPVATPDELADYDAIIFGTPTRFGNMAGQMRNFLD 93 (200)
T ss_pred HHHHHHHHHHHHHhhcCCcEEEEEeccccCCHHHHHhcCCCcccCCCccCHHHHHhCCEEEEEecccCCCchHHHHHHHH
Confidence 567789999999987567789999986421 357999999976 3455666666
Q ss_pred HH
Q 025825 180 RI 181 (247)
Q Consensus 180 ~V 181 (247)
.+
T Consensus 94 ~~ 95 (200)
T PRK03767 94 QT 95 (200)
T ss_pred Hh
Confidence 55
No 28
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=36.58 E-value=73 Score=22.39 Aligned_cols=29 Identities=3% Similarity=0.032 Sum_probs=24.3
Q ss_pred EEEcCCHHHHHHHHHHHHHHHHHhcCCCC
Q 025825 165 IATAFSRPQIDAIGSRIRDLAEKEYGKVP 193 (247)
Q Consensus 165 IaTg~S~RHv~AIAd~V~d~lKe~~g~~p 193 (247)
+..|++.-|.++|++.|.+.+.+.+|..+
T Consensus 8 l~~grt~eqk~~l~~~it~~l~~~lg~p~ 36 (64)
T PRK01964 8 LLEGRPEEKIKNLIREVTEAISATLDVPK 36 (64)
T ss_pred EeCCCCHHHHHHHHHHHHHHHHHHhCcCh
Confidence 45699999999999999999988777543
No 29
>PRK06756 flavodoxin; Provisional
Probab=35.91 E-value=1.9e+02 Score=23.27 Aligned_cols=42 Identities=14% Similarity=0.101 Sum_probs=30.5
Q ss_pred hhhHHHHHHHHHHHHhCCCCCeEEEecCCCC-----cccCEEEEEEcC
Q 025825 127 AESLSFAVAMARVVSDVKAADIKVLFVKPLV-----YWTHFFIIATAF 169 (247)
Q Consensus 127 ~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s-----~~aDYfVIaTg~ 169 (247)
..+...|+.|++.|.+ .+.++.++|+.+.. .-+|.+||+|..
T Consensus 13 GnTe~vA~~ia~~l~~-~g~~v~~~~~~~~~~~~~~~~~d~vi~gspt 59 (148)
T PRK06756 13 GNTEEMADHIAGVIRE-TENEIEVIDIMDSPEASILEQYDGIILGAYT 59 (148)
T ss_pred chHHHHHHHHHHHHhh-cCCeEEEeehhccCCHHHHhcCCeEEEEeCC
Confidence 3566789999998864 56678888886542 235999999844
No 30
>TIGR01753 flav_short flavodoxin, short chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the short chain type. Many of these are involved in sulfite reduction.
Probab=35.84 E-value=1.1e+02 Score=23.81 Aligned_cols=42 Identities=12% Similarity=0.116 Sum_probs=32.0
Q ss_pred hhhHHHHHHHHHHHHhCCCCCeEEEecCCCC----cccCEEEEEEcC
Q 025825 127 AESLSFAVAMARVVSDVKAADIKVLFVKPLV----YWTHFFIIATAF 169 (247)
Q Consensus 127 ~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s----~~aDYfVIaTg~ 169 (247)
..+..+|+.|++.+.+ .+.++.++++.+.. .-+|.+|++|..
T Consensus 10 GnT~~~A~~i~~~~~~-~g~~v~~~~~~~~~~~~l~~~d~iilgspt 55 (140)
T TIGR01753 10 GNTEEMANIIAEGLKE-AGAEVDLLEVADADAEDLLSYDAVLLGCST 55 (140)
T ss_pred cHHHHHHHHHHHHHHh-cCCeEEEEEcccCCHHHHhcCCEEEEEcCC
Confidence 3567789999998877 45578899988753 236999999876
No 31
>PRK09267 flavodoxin FldA; Validated
Probab=34.72 E-value=79 Score=26.06 Aligned_cols=40 Identities=8% Similarity=0.023 Sum_probs=28.8
Q ss_pred hhHHHHHHHHHHHHhCCCCCeEEEecCCCCc----ccCEEEEEEcCC
Q 025825 128 ESLSFAVAMARVVSDVKAADIKVLFVKPLVY----WTHFFIIATAFS 170 (247)
Q Consensus 128 ~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~----~aDYfVIaTg~S 170 (247)
.+..+|+.|++.|.+ .++.++|+.+... -.|.+||++..=
T Consensus 14 nT~~vA~~Ia~~l~~---~~~~~~~~~~~~~~~l~~~d~vi~g~pt~ 57 (169)
T PRK09267 14 NTEDIAKMIQKKLGK---DVADVVDIAKASKEDFEAYDLLILGIPTW 57 (169)
T ss_pred hHHHHHHHHHHHhCC---CceEEEEhhhCCHhhHhhCCEEEEEecCc
Confidence 456778888888853 3788889887542 269999997553
No 32
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=34.18 E-value=87 Score=21.51 Aligned_cols=28 Identities=14% Similarity=0.200 Sum_probs=23.8
Q ss_pred EEEcCCHHHHHHHHHHHHHHHHHhcCCC
Q 025825 165 IATAFSRPQIDAIGSRIRDLAEKEYGKV 192 (247)
Q Consensus 165 IaTg~S~RHv~AIAd~V~d~lKe~~g~~ 192 (247)
+..|+|..|-++|+..|.+.+.+.+|..
T Consensus 8 ~~~Grs~eqk~~l~~~it~~l~~~~~~p 35 (61)
T PRK02220 8 LIEGRTEEQLKALVKDVTAAVSKNTGAP 35 (61)
T ss_pred EcCCCCHHHHHHHHHHHHHHHHHHhCcC
Confidence 4469999999999999999998877743
No 33
>PF01121 CoaE: Dephospho-CoA kinase; InterPro: IPR001977 This family contains dephospho-CoA kinases (2.7.1.24 from EC), which catalyzes the final step in CoA biosynthesis, the phosphorylation of the 3'-hydroxyl group of ribose using ATP as a phosphate donor. The crystal structures of a number of the proteins in this entry have been determined, including the structure of the protein from Haemophilus influenzae to 2.0-A resolution in a comlex with ATP. The protein consists of three domains: the nucleotide-binding domain with a five-stranded parallel beta-sheet, the substrate-binding alpha-helical domain, and the lid domain formed by a pair of alpha-helices; the overall topology of the protein resembles the structures of other nucleotide kinases [].; GO: 0004140 dephospho-CoA kinase activity, 0005524 ATP binding, 0015937 coenzyme A biosynthetic process; PDB: 1VHL_A 1N3B_A 1VIY_A 1VHT_B 1T3H_B 1UF9_C 2F6R_A 2GRJ_D 2IF2_C 1JJV_A.
Probab=34.17 E-value=1.8e+02 Score=25.02 Aligned_cols=84 Identities=15% Similarity=0.201 Sum_probs=49.5
Q ss_pred HHHHHHHHhhCcEEEccCCCCCCC---cccCcchhhHHH---------HHHHHHHHHhCCCCCeEEEecCCC-----Ccc
Q 025825 97 EMFDNLLNKYGKVVYRRNDQKSPA---AEIDDDAESLSF---------AVAMARVVSDVKAADIKVLFVKPL-----VYW 159 (247)
Q Consensus 97 e~~~~lf~~~g~~v~~~~~~k~~~---~e~~dd~~s~~l---------a~~Ia~aL~dkKAeDIvVLDV~~~-----s~~ 159 (247)
+.+.+|-+.+|.-|++.++.--+. .-+=.+.+.+.. -+.+.+.+...+...++|+|+.=+ ..+
T Consensus 43 ~~~~~l~~~FG~~il~~~g~idR~~L~~~vF~d~~~~~~L~~iihP~I~~~~~~~~~~~~~~~~~v~e~pLL~E~~~~~~ 122 (180)
T PF01121_consen 43 EGYKALKERFGEEILDEDGEIDRKKLAEIVFSDPEKLKKLENIIHPLIREEIEKFIKRNKSEKVVVVEIPLLFESGLEKL 122 (180)
T ss_dssp HHHHHHHHHHGGGGBETTSSB-HHHHHHHHTTSHHHHHHHHHHHHHHHHHHHHHHHHHCHSTSEEEEE-TTTTTTTGGGG
T ss_pred HHHHHHHHHcCccccCCCCCChHHHHHHHHhcCHHHHHHHHHHHhHHHHHHHHHHHHhccCCCEEEEEcchhhhhhHhhh
Confidence 567778888888877766531110 011112222222 223444555566669999999833 568
Q ss_pred cCEEEEEEcCCHHHHHHHHHH
Q 025825 160 THFFIIATAFSRPQIDAIGSR 180 (247)
Q Consensus 160 aDYfVIaTg~S~RHv~AIAd~ 180 (247)
+|+.|..++.-..+++.+.+.
T Consensus 123 ~D~vi~V~a~~e~ri~Rl~~R 143 (180)
T PF01121_consen 123 CDEVIVVYAPEEIRIKRLMER 143 (180)
T ss_dssp SSEEEEEE--HHHHHHHHHHH
T ss_pred hceEEEEECCHHHHHHHHHhh
Confidence 999999999888888777543
No 34
>PF07801 DUF1647: Protein of unknown function (DUF1647); InterPro: IPR012444 This entry consists of hypothetical proteins of unknown function.
Probab=32.68 E-value=2.1e+02 Score=24.49 Aligned_cols=64 Identities=16% Similarity=0.114 Sum_probs=42.8
Q ss_pred HHHHHHhCCCCC--eEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCEEEEEcC
Q 025825 136 MARVVSDVKAAD--IKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKPNSWTLLDFG 208 (247)
Q Consensus 136 Ia~aL~dkKAeD--IvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~~g~~~~~WiLlD~G 208 (247)
.++.|++-+..| -..+|+++...-.+-+|++||.|..|.......+.. +++. . ....-||-|+|
T Consensus 33 ~l~~Le~l~l~~~~~~~v~l~~~~~n~~~vvfVSa~S~~h~~~~~~~i~s-i~~~---~-----P~~k~ilY~Lg 98 (142)
T PF07801_consen 33 LLETLEDLKLLDNPGPFVDLSSSSKNSSDVVFVSATSDNHFNESMKSISS-IRKF---Y-----PNHKIILYDLG 98 (142)
T ss_pred HHHHHhhhhhccCCCcceecccccccCCccEEEEEecchHHHHHHHHHHH-HHHH---C-----CCCcEEEEeCC
Confidence 344555554333 367788776666788999999999999988777754 3432 2 23455777776
No 35
>PRK09004 FMN-binding protein MioC; Provisional
Probab=32.56 E-value=93 Score=25.70 Aligned_cols=43 Identities=14% Similarity=0.069 Sum_probs=29.4
Q ss_pred hhhHHHHHHHHHHHHhCCCCCeEEEecCCCCc--ccCEEEEEEcCC
Q 025825 127 AESLSFAVAMARVVSDVKAADIKVLFVKPLVY--WTHFFIIATAFS 170 (247)
Q Consensus 127 ~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~--~aDYfVIaTg~S 170 (247)
-.+..+|+.|++.+.+ .+.++.++|+.+... -.|++||+|.+-
T Consensus 13 Gnae~~A~~l~~~~~~-~g~~~~~~~~~~~~~l~~~~~li~~~sT~ 57 (146)
T PRK09004 13 GGAEYVADHLAEKLEE-AGFSTETLHGPLLDDLSASGLWLIVTSTH 57 (146)
T ss_pred hHHHHHHHHHHHHHHH-cCCceEEeccCCHHHhccCCeEEEEECCC
Confidence 4567789999888875 455777788764322 247788877653
No 36
>PRK00081 coaE dephospho-CoA kinase; Reviewed
Probab=30.80 E-value=2.8e+02 Score=23.56 Aligned_cols=83 Identities=11% Similarity=0.154 Sum_probs=47.3
Q ss_pred HHHHHHHHhhCcEEEccCCCCCCC---cccCcchhhHHHH---------HHHHHHHHhCCCCCeEEEecCCC-----Ccc
Q 025825 97 EMFDNLLNKYGKVVYRRNDQKSPA---AEIDDDAESLSFA---------VAMARVVSDVKAADIKVLFVKPL-----VYW 159 (247)
Q Consensus 97 e~~~~lf~~~g~~v~~~~~~k~~~---~e~~dd~~s~~la---------~~Ia~aL~dkKAeDIvVLDV~~~-----s~~ 159 (247)
+.+.++++.+|+-++..+++-.+. .-+-.+.+.+... +++.+.+...+...++|+|+.=+ ..+
T Consensus 45 ~~~~~i~~~fg~~~~~~~g~idr~~L~~~vf~~~~~~~~L~~i~hP~v~~~~~~~~~~~~~~~~vv~e~pll~e~~~~~~ 124 (194)
T PRK00081 45 PALQAIVEAFGPEILDADGELDRAKLRELVFSDPEARKKLEAILHPLIREEILEQLQEAESSPYVVLDIPLLFENGLEKL 124 (194)
T ss_pred HHHHHHHHHhCHHhcCCCCCcCHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHcccCCEEEEEehHhhcCCchhh
Confidence 566777777887777644431110 0111112222221 23333444433347899998743 457
Q ss_pred cCEEEEEEcCCHHHHHHHHH
Q 025825 160 THFFIIATAFSRPQIDAIGS 179 (247)
Q Consensus 160 aDYfVIaTg~S~RHv~AIAd 179 (247)
+|++|+.++.-..+++.+..
T Consensus 125 ~D~vi~V~a~~e~~~~Rl~~ 144 (194)
T PRK00081 125 VDRVLVVDAPPETQLERLMA 144 (194)
T ss_pred CCeEEEEECCHHHHHHHHHH
Confidence 89999999998888777654
No 37
>PRK06703 flavodoxin; Provisional
Probab=30.64 E-value=1.9e+02 Score=23.32 Aligned_cols=42 Identities=5% Similarity=-0.057 Sum_probs=30.9
Q ss_pred hhhHHHHHHHHHHHHhCCCCCeEEEecCCCC----cccCEEEEEEcC
Q 025825 127 AESLSFAVAMARVVSDVKAADIKVLFVKPLV----YWTHFFIIATAF 169 (247)
Q Consensus 127 ~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s----~~aDYfVIaTg~ 169 (247)
-.+..+|+.|++.|.+ .+.+|.+.++.... .-.|.+||+|..
T Consensus 13 GnT~~iA~~ia~~l~~-~g~~v~~~~~~~~~~~~l~~~d~viigspt 58 (151)
T PRK06703 13 GNTEDIADLIKVSLDA-FDHEVVLQEMDGMDAEELLAYDGIILGSYT 58 (151)
T ss_pred chHHHHHHHHHHHHHh-cCCceEEEehhhCCHHHHhcCCcEEEEECC
Confidence 3567789999998864 55688889987643 245899998853
No 38
>PRK15031 5-carboxymethyl-2-hydroxymuconate delta-isomerase; Provisional
Probab=30.51 E-value=2.5e+02 Score=23.37 Aligned_cols=65 Identities=9% Similarity=0.093 Sum_probs=40.8
Q ss_pred cchhhHHHHHHHHHHHHhCCCCCeEEEecCCCC----cc----cC-EE-----EEEEcCCHHHHHHHHHHHHHHHHHhc
Q 025825 125 DDAESLSFAVAMARVVSDVKAADIKVLFVKPLV----YW----TH-FF-----IIATAFSRPQIDAIGSRIRDLAEKEY 189 (247)
Q Consensus 125 dd~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s----~~----aD-Yf-----VIaTg~S~RHv~AIAd~V~d~lKe~~ 189 (247)
++.+-..+.+.+-++|-+-+.-+.--|.++-.. -+ .| -| =|..|+|..+-+.+++.|-+.+++.+
T Consensus 14 ~~~d~~~Ll~~l~~~l~~sglF~~~~IK~Ra~~~~~y~vgdg~~~~~Fihv~l~i~~GRs~e~k~~l~~~l~~~l~~~~ 92 (126)
T PRK15031 14 EQADLPGLFAKVNQALAATGIFPLGGIRSRAHWLDTWQMADGKHDYAFVHMTLKIGAGRSLESRQEVGEMLFALIKAHF 92 (126)
T ss_pred ccCCHHHHHHHHHHHHHhCCCCCccccEeeeeecCcEEEcCCCCCCcEEEEEeeecCCCCHHHHHHHHHHHHHHHHHHh
Confidence 344556677888888876654444433333221 01 11 22 26679999999999999999988753
No 39
>smart00877 BMC Bacterial microcompartments are primitive organelles composed entirely of protein subunits. The prototypical bacterial microcompartment is the carboxysome, a protein shell for sequestering carbon fixation reactions. These proteins for hexameric structure.
Probab=29.68 E-value=1.4e+02 Score=22.37 Aligned_cols=41 Identities=17% Similarity=0.115 Sum_probs=29.9
Q ss_pred CCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHH
Q 025825 143 VKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLA 185 (247)
Q Consensus 143 kKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~l 185 (247)
.|+-||.+++++..++ ..++++.+| ....+++-.+...+.+
T Consensus 21 ~KaA~V~l~~~~~~~~-g~~~~~v~G-dvs~V~~Av~a~~~~~ 61 (75)
T smart00877 21 LKAANVELVGYESIGG-GKVTVIITG-DVAAVRAAVEAGLEAA 61 (75)
T ss_pred hhhcCcEEEEEEecCC-CEEEEEEEE-cHHHHHHHHHHHHHHH
Confidence 4677999999998876 679999999 4555655555555544
No 40
>PF01361 Tautomerase: Tautomerase enzyme; InterPro: IPR004370 4-Oxalocrotonate tautomerase (4-OT) catalyzes the isomerisation of beta,gamma-unsaturated enones to their alpha,beta-isomers. The enzyme is part of a plasmid-encoded pathway, which enables bacteria harbouring the plasmid to use various aromatic hydrocarbons as their sole sources of carbon and energy. The enzyme is a barrel-shaped hexamer, which can be viewed as a trimer of dimers. The hexamer contains a hydrophobic core formed by three beta-sheets and surrounded by three pairs of alpha-helices. Each 4-OT monomer of 62 amino acids has a relatively simple beta-alpha-beta fold as described by the structure of the enzyme from Pseudomonas putida []. The monomer begins with a conserved proline at the start of a beta-strand, followed by an alpha-helix and a 310 helix preceding a second parallel beta-strand, and ends with a beta-hairpin near the C terminus. The dimer results from antiparallel interactions between the beta-sheets and alpha-helices of the two monomers, forming a four-stranded beta-sheet with antiparallel alpha-helices on one side, creating two active sites, one at each end of the beta-sheet. Three dimers further associate to form a hexamer by the interactions of the strands of the C-terminal beta-hairpin loops with the edges of the four-stranded beta-sheets of neighbouring dimers, creating a series of cross-links that stabilise the hexamer Pro-1 of the mature protein functions as the general base while Arg-39 and an ordered water molecule each provide a hydrogen bond to the C-2 oxygen of substrate. Arg-39 plays an additional role in the binding of the C-1 carboxylate group. Arg-11 participates both in substrate binding and in catalysis. It interacts with the C-6 carboxylate group, thereby holding the substrate in place and drawing electron density to the C-5 position. The hydrophobic nature of the active site, which lowers the pKa of Pro-1 and provides a favourable environment for catalysis, is largely maintained by Phe-50. Because several Arg residues located near the active site are not conserved among all members of this family and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.; GO: 0016853 isomerase activity, 0006725 cellular aromatic compound metabolic process; PDB: 4OTA_H 4OTC_G 4OTB_J 2FM7_A 1BJP_B 1S0Y_K 3EJ9_E 3EJ7_K 3EJ3_I 3MB2_A ....
Probab=29.28 E-value=95 Score=21.38 Aligned_cols=28 Identities=18% Similarity=0.152 Sum_probs=22.2
Q ss_pred EEEcCCHHHHHHHHHHHHHHHHHhcCCC
Q 025825 165 IATAFSRPQIDAIGSRIRDLAEKEYGKV 192 (247)
Q Consensus 165 IaTg~S~RHv~AIAd~V~d~lKe~~g~~ 192 (247)
+..|++..|.++|+..|.+.+.+.+|..
T Consensus 7 ~~~g~~~e~K~~l~~~it~~~~~~lg~~ 34 (60)
T PF01361_consen 7 IPEGRTAEQKRELAEAITDAVVEVLGIP 34 (60)
T ss_dssp EESTS-HHHHHHHHHHHHHHHHHHHTS-
T ss_pred ECCCCCHHHHHHHHHHHHHHHHHHhCcC
Confidence 3467889999999999999998887763
No 41
>TIGR00254 GGDEF diguanylate cyclase (GGDEF) domain. The GGDEF domain is named for the motif GG[DE]EF shared by many proteins carrying the domain. There is evidence that the domain has diguanylate cyclase activity. Several proteins carrying this domain also carry domains with functions relating to environmental sensing. These include PleD, a response regulator protein involved in the swarmer-to-stalked cell transition in Caulobacter crescentus, and FixL, a heme-containing oxygen sensor protein.
Probab=28.80 E-value=2.6e+02 Score=21.21 Aligned_cols=55 Identities=15% Similarity=0.082 Sum_probs=38.9
Q ss_pred hHHHHHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHH
Q 025825 129 SLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEK 187 (247)
Q Consensus 129 s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe 187 (247)
...++..+++.|.+.-..+..+.-+.+ .+|+|+++..+...+..+++.+.+.++.
T Consensus 56 ~~~ll~~~a~~l~~~~~~~~~i~r~~~----~~f~il~~~~~~~~~~~l~~~i~~~~~~ 110 (165)
T TIGR00254 56 GDEVLREVARILQSSVRGSDVVGRYGG----EEFVVILPGTPLEDALSKAERLRDAINS 110 (165)
T ss_pred HHHHHHHHHHHHHHhcCcCCEEEEecC----CeEEEEeCCCChHHHHHHHHHHHHHHHh
Confidence 445677778888776555555544443 4788998888877888888888877754
No 42
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=27.39 E-value=3.3e+02 Score=21.93 Aligned_cols=71 Identities=18% Similarity=0.199 Sum_probs=46.8
Q ss_pred HHHHHHHHHhCCCCCeEEEecCCCC--------cccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCEEE
Q 025825 133 AVAMARVVSDVKAADIKVLFVKPLV--------YWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVPSGDSKPNSWTL 204 (247)
Q Consensus 133 a~~Ia~aL~dkKAeDIvVLDV~~~s--------~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p~~g~~~~~WiL 204 (247)
.+.+.+.+.... -|+++||..+.. ..+|++|+.+..+..-+..+...+ +.+++. +..
T Consensus 83 l~~~l~~l~~~~-yD~iiiD~~~~~~~~~~~~l~~ad~viv~~~~~~~~i~~~~~~~-~~l~~~-~~~------------ 147 (195)
T PF01656_consen 83 LREILESLIKSD-YDYIIIDTPPGLSDPVRNALAAADYVIVPIEPDPSSIEGAERLI-ELLKRL-GKK------------ 147 (195)
T ss_dssp HHHHHHHHHHTT-SSEEEEEECSSSSHHHHHHHHTSSEEEEEEESSHHHHHHHHHHH-HHHHHH-THT------------
T ss_pred HHHHHHHhhhcc-ccceeecccccccHHHHHHHHhCceeeeecCCcHHHHHHHHHHH-HHHHHh-ccc------------
Confidence 444444444334 999999998753 478999999999998877766554 444443 111
Q ss_pred EEcCCEEEEecCcc
Q 025825 205 LDFGDVVIHIFLPQ 218 (247)
Q Consensus 205 lD~GdIVVHIFtpE 218 (247)
++...+|+.-+.+.
T Consensus 148 ~~~~~vv~N~v~~~ 161 (195)
T PF01656_consen 148 LKIIGVVINRVDPG 161 (195)
T ss_dssp EEEEEEEEEEETSC
T ss_pred cceEEEEEeeeCCC
Confidence 55666777777443
No 43
>PF00936 BMC: BMC domain; InterPro: IPR000249 This domain is found in a variety of polyhedral organelle shell proteins, including CsoS1A, CsoS1B and CsoS1C of Thiobacillus neapolitanus (Halothiobacillus neapolitanus) and their orthologs from other bacteria. Some autotrophic and non-autotrophic organisms form polyhedral organelles, carboxysomes/enterosomes []. The best studied is the carboxysome of Halothiobacillus neapolitanus, which is composed of at least 9 proteins: six shell proteins, CsoS1A, CsoS1B, CsoS1C, Cso2A, Cso2B and CsoS3 (carbonic anhydrase) [], one protein of unknown function and the large and small subunits of RuBisCo (CbbL and Cbbs). Carboxysomes appear to be approximately 120 nm in diameter, most often observed as regular hexagons, with a solid interior bounded by a unilamellar protein shell. The interior is filled with type I RuBisCo, which is composed of 8 large subunits and 8 small subunits; it accounts for 60% of the carboxysomal protein, which amounts to approximately 300 molecules of enzyme per carboxysome. Carboxysomes are required for autotrophic growth at low CO2 concentrations and are thought to function as part of a CO2-concentrating mechanism [, ]. Polyhedral organelles, enterosomes, from non-autotrophic organisms are involved in coenzyme B12-dependent 1,2-propanediol utilisation (e.g., in Salmonella enterica []) and ethanolamine utilisation (e.g., in Salmonella typhimurium []). Genes needed for enterosome formation are located in the 1,2-propanediol utilisation pdu [, ] or ethanolamine utilisation eut [, ] operons, respectively. Although enterosomes of non-autotrophic organisms are apparently related to carboxysomes structurally, a functional relationship is uncertain. A role in CO2 concentration, similar to that of the carboxysome, is unlikely since there is no known association between CO2 and coenzyme B12-dependent 1,2-propanediol or ethanolamine utilisation []. It seems probable that entrosomes help protect the cells from reactive aldehyde species in the degradation pathways of 1,2-propanediol and ethanolamine [].; PDB: 3F56_C 3FCH_A 3I87_A 3GFH_B 3I82_A 3MPV_A 3IO0_A 4AXJ_B 3N79_A 2G13_A ....
Probab=26.83 E-value=97 Score=23.10 Aligned_cols=43 Identities=19% Similarity=0.234 Sum_probs=34.9
Q ss_pred CCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHH
Q 025825 143 VKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEK 187 (247)
Q Consensus 143 kKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe 187 (247)
.|+-||.+++++..+ -.-++++.+| ....+++-.+..++.+++
T Consensus 22 lKaa~V~l~~~~~~~-~g~~~~~i~G-~vs~V~~Av~a~~~~~~~ 64 (75)
T PF00936_consen 22 LKAANVELVEIELIC-GGKVTVIITG-DVSAVKAAVDAAEEAAGK 64 (75)
T ss_dssp HHHSSEEEEEEEEES-TTEEEEEEEE-SHHHHHHHHHHHHHHHHH
T ss_pred hhcCCEEEEEEEecC-CCeEEEEEEE-CHHHHHHHHHHHHHHHhh
Confidence 467799999999877 5689999999 677888877878777765
No 44
>PHA02114 hypothetical protein
Probab=26.57 E-value=43 Score=27.85 Aligned_cols=23 Identities=43% Similarity=0.761 Sum_probs=19.9
Q ss_pred chHHHHHHH--HHhhCcEEEccCCC
Q 025825 94 DTDEMFDNL--LNKYGKVVYRRNDQ 116 (247)
Q Consensus 94 ~~~e~~~~l--f~~~g~~v~~~~~~ 116 (247)
-+-|||++| |+.||-+|+.-|--
T Consensus 68 atpemf~dl~~fd~~gtivldvn~a 92 (127)
T PHA02114 68 ATPEMFDDLGAFDQYGTIVLDVNYA 92 (127)
T ss_pred CCHHHHhhhhhHhhcCeEEEEehhh
Confidence 567999998 99999999987764
No 45
>PF08245 Mur_ligase_M: Mur ligase middle domain; InterPro: IPR013221 The bacterial cell wall provides strength and rigidity to counteract internal osmotic pressure, and protection against the environment. The peptidoglycan layer gives the cell wall its strength, and helps maintain the overall shape of the cell. The basic peptidoglycan structure of both Gram-positive and Gram-negative bacteria is comprised of a sheet of glycan chains connected by short cross-linking polypeptides. Biosynthesis of peptidoglycan is a multi-step (11-12 steps) process comprising three main stages: (1) formation of UDP-N-acetylmuramic acid (UDPMurNAc) from N-acetylglucosamine (GlcNAc). (2) addition of a short polypeptide chain to the UDPMurNAc. (3) addition of a second GlcNAc to the disaccharide-pentapeptide building block and transport of this unit through the cytoplasmic membrane and incorporation into the growing peptidoglycan layer. Stage two involves four key Mur ligase enzymes: MurC (6.3.2.8 from EC) [], MurD (6.3.2.9 from EC) [], MurE (6.3.2.13 from EC) [] and MurF (6.3.2.10 from EC) []. These four Mur ligases are responsible for the successive additions of L-alanine, D-glutamate, meso-diaminopimelate or L-lysine, and D-alanyl-D-alanine to UDP-N-acetylmuramic acid. All four Mur ligases are topologically similar to one another, even though they display low sequence identity. They are each composed of three domains: an N-terminal Rossmann-fold domain responsible for binding the UDPMurNAc substrate; a central domain (similar to ATP-binding domains of several ATPases and GTPases); and a C-terminal domain (similar to dihydrofolate reductase fold) that appears to be associated with binding the incoming amino acid. The conserved sequence motifs found in the four Mur enzymes also map to other members of the Mur ligase family, including folylpolyglutamate synthetase, cyanophycin synthetase and the capB enzyme from Bacillales []. This entry represents the C-terminal domain from all four stage 2 Mur enzymes: UDP-N-acetylmuramate-L-alanine ligase (MurC), UDP-N-acetylmuramoylalanine-D-glutamate ligase (MurD), UDP-N-acetylmuramoylalanyl-D-glutamate-2,6-diaminopimelate ligase (MurE), and UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase (MurF). This entry also includes folylpolyglutamate synthase that transfers glutamate to folylpolyglutamate and cyanophycin synthetase that catalyses the biosynthesis of the cyanobacterial reserve material multi-L-arginyl-poly-L-aspartate (cyanophycin) [].; GO: 0005524 ATP binding, 0009058 biosynthetic process; PDB: 3LK7_A 2XJA_A 2WTZ_A 2GCA_A 1JBW_A 1JBV_A 2GC5_A 1FGS_A 2GCB_A 2GC6_A ....
Probab=26.49 E-value=2.3e+02 Score=23.32 Aligned_cols=72 Identities=21% Similarity=0.271 Sum_probs=41.5
Q ss_pred chHHHHHHHHHhhCcEEEccCCCCCCCcccCcchhhHHHHHHHHHHHHhCCCCCeEEEecCCC-------Cc-ccCEEEE
Q 025825 94 DTDEMFDNLLNKYGKVVYRRNDQKSPAAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPL-------VY-WTHFFII 165 (247)
Q Consensus 94 ~~~e~~~~lf~~~g~~v~~~~~~k~~~~e~~dd~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~-------s~-~aDYfVI 165 (247)
-|-.|+.++|+..|+++...... .........+... .++..|+.|+.+... +. +--.+.|
T Consensus 9 TTt~ml~~iL~~~g~~~~~~~~~----------~~~~~~~~~~~~~--~~~~~~~~V~E~~~~~~~~~~l~~~~~p~i~v 76 (188)
T PF08245_consen 9 TTTRMLAHILSAAGKVVGTIGNT----------NNQIGLPLLLLNA--REGGADIAVLEVSEGGLGDERLSFLLKPDIAV 76 (188)
T ss_dssp HHHHHHHHHHHHTTEEEEEESSC----------HHHHHHHHHHHHH--HHTTSSEEEEEESSSCCCTSTTSGGSBESEEE
T ss_pred HHHHHHHHHHHhcCCcccccccc----------cchHHHHHHHhhh--cccccceeeeeccCCccccceeeeeeehheee
Confidence 46789999999999988877631 1112222222222 226889999999865 12 2233455
Q ss_pred EEcCCHHHHHHH
Q 025825 166 ATAFSRPQIDAI 177 (247)
Q Consensus 166 aTg~S~RHv~AI 177 (247)
.|.-..-|+...
T Consensus 77 iTni~~dH~~~~ 88 (188)
T PF08245_consen 77 ITNIGPDHLDRF 88 (188)
T ss_dssp E----SSSHCCT
T ss_pred eceecccccccC
Confidence 566666676544
No 46
>PRK03669 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=26.12 E-value=68 Score=28.50 Aligned_cols=20 Identities=5% Similarity=0.155 Sum_probs=15.4
Q ss_pred EEEEEEcCCHHHHHHHHHHH
Q 025825 162 FFIIATAFSRPQIDAIGSRI 181 (247)
Q Consensus 162 YfVIaTg~S~RHv~AIAd~V 181 (247)
.+||||||+...+..+++.+
T Consensus 42 ~~viaTGR~~~~i~~~~~~l 61 (271)
T PRK03669 42 PVILCSSKTAAEMLPLQQTL 61 (271)
T ss_pred eEEEEcCCCHHHHHHHHHHh
Confidence 58999999998777665443
No 47
>PRK14730 coaE dephospho-CoA kinase; Provisional
Probab=25.82 E-value=4e+02 Score=22.90 Aligned_cols=83 Identities=14% Similarity=0.218 Sum_probs=48.8
Q ss_pred HHHHHHHHhhCcEEEccCCCCCCCc----ccCcchhhHHHH---------HHHHHHHHhCCCCCeEEEecCCC-----Cc
Q 025825 97 EMFDNLLNKYGKVVYRRNDQKSPAA----EIDDDAESLSFA---------VAMARVVSDVKAADIKVLFVKPL-----VY 158 (247)
Q Consensus 97 e~~~~lf~~~g~~v~~~~~~k~~~~----e~~dd~~s~~la---------~~Ia~aL~dkKAeDIvVLDV~~~-----s~ 158 (247)
+.+.+|...+|+-++..+++..... -+-.+.+.+... +.+.+.+.+.+...++|+|+.=+ ..
T Consensus 45 ~~~~~l~~~fg~~i~~~~g~~idr~~L~~~vf~d~~~~~~l~~i~hP~i~~~~~~~~~~~~~~~~vv~e~pll~E~~~~~ 124 (195)
T PRK14730 45 PILKAILQRYGNKIIDPDGSELNRKALGEIIFNDPEERRWLENLIHPYVRERFEEELAQLKSNPIVVLVIPLLFEAKLTD 124 (195)
T ss_pred hHHHHHHHHhCHHhcCCCCCeeCHHHHHHHHhCCHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCEEEEEeHHhcCcchHh
Confidence 5667777778888876555111100 011122233222 23344455544456899988743 35
Q ss_pred ccCEEEEEEcCCHHHHHHHHH
Q 025825 159 WTHFFIIATAFSRPQIDAIGS 179 (247)
Q Consensus 159 ~aDYfVIaTg~S~RHv~AIAd 179 (247)
++|+.|.+++.-..+++.+..
T Consensus 125 ~~D~ii~V~a~~e~r~~Rl~~ 145 (195)
T PRK14730 125 LCSEIWVVDCSPEQQLQRLIK 145 (195)
T ss_pred CCCEEEEEECCHHHHHHHHHH
Confidence 789999999998887777654
No 48
>PRK07308 flavodoxin; Validated
Probab=25.60 E-value=2.3e+02 Score=22.80 Aligned_cols=43 Identities=16% Similarity=0.066 Sum_probs=30.2
Q ss_pred hhhHHHHHHHHHHHHhCCCCCeEEEecCCCC----cccCEEEEEEcCC
Q 025825 127 AESLSFAVAMARVVSDVKAADIKVLFVKPLV----YWTHFFIIATAFS 170 (247)
Q Consensus 127 ~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s----~~aDYfVIaTg~S 170 (247)
..+..+|+.|++.|.+. +.++.++|+.... .-.|.+||++..-
T Consensus 13 GnTe~iA~~ia~~l~~~-g~~~~~~~~~~~~~~~l~~~d~vi~g~~t~ 59 (146)
T PRK07308 13 GNTEEIADIVADKLREL-GHDVDVDECTTVDASDFEDADIAIVATYTY 59 (146)
T ss_pred chHHHHHHHHHHHHHhC-CCceEEEecccCCHhHhccCCEEEEEeCcc
Confidence 35677899999988754 4578888887642 1347888887654
No 49
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=25.31 E-value=44 Score=35.25 Aligned_cols=26 Identities=31% Similarity=0.401 Sum_probs=18.9
Q ss_pred chHHHHHHHHHhhCcEEEccCCCCCC
Q 025825 94 DTDEMFDNLLNKYGKVVYRRNDQKSP 119 (247)
Q Consensus 94 ~~~e~~~~lf~~~g~~v~~~~~~k~~ 119 (247)
-++--|+.||+|||+||-.---.+.+
T Consensus 417 TRAtDLKnlFSKyGKVvGAKVVTNaR 442 (940)
T KOG4661|consen 417 TRATDLKNLFSKYGKVVGAKVVTNAR 442 (940)
T ss_pred hhhhHHHHHHHHhcceeceeeeecCC
Confidence 56677999999999998654333333
No 50
>PF02962 CHMI: 5-carboxymethyl-2-hydroxymuconate isomerase; InterPro: IPR004220 5-carboxymethyl-2-hydroxymuconate isomerase transforms 5-carboxymethyl-2-hydroxy-muconic acid into 5-oxo-pent-3-ene-1,2,5-tricarboxylic acid during the third step of the homoprotocatechuate catabolic pathway []. Homoprotocatechuate (HPC; 3,4-dihydroxyphenylacetate) is catabolized to Krebs cycle intermediates via extradiol (meta-) cleavage and the necessary enzymes are chromosomally encoded in a variety of bacteria []. 5-carboxymethyl-2-hydroxymuconate isomerase is probably a dimer of two identical subunits []. A comparison of the N-terminal half of the isomerase/decarboxylase sequence from the pathway (both encoded by the gene hpcE), with the second half showed significant similarity. This suggests that a duplication may have occurred to produce a bifunctional gene [].; PDB: 3E6Q_H 1OTG_B.
Probab=25.13 E-value=1.4e+02 Score=24.76 Aligned_cols=63 Identities=16% Similarity=0.144 Sum_probs=37.3
Q ss_pred hhhHHHHHHHHHHHHhCCC---CCeEEEecCCCCc-c-----cCEEE-----EEEcCCHHHHHHHHHHHHHHHHHhc
Q 025825 127 AESLSFAVAMARVVSDVKA---ADIKVLFVKPLVY-W-----THFFI-----IATAFSRPQIDAIGSRIRDLAEKEY 189 (247)
Q Consensus 127 ~~s~~la~~Ia~aL~dkKA---eDIvVLDV~~~s~-~-----aDYfV-----IaTg~S~RHv~AIAd~V~d~lKe~~ 189 (247)
.+-..+.+.+.+++-+... .||++-=.+-... + -+-|| |..|+|..|-+++++.|-+.+++.+
T Consensus 15 ~d~~~ll~~l~~~~~~sglF~~~~IK~Ra~~~~~y~vgdg~~~~~FvHv~l~il~GRs~e~k~~l~~~l~~~l~~~~ 91 (124)
T PF02962_consen 15 VDIPALLRALHDALLASGLFPEGGIKVRAIRCDHYRVGDGQPDDAFVHVTLRILAGRSEEQKKALSEALLAVLKAHL 91 (124)
T ss_dssp TTHHHHHHHHHHHHHCTTSS-GGG-EEEEEEESSEEETTSSS-EEEEEEEEEEETT--HHHHHHHHHHHHHHHHHHC
T ss_pred CCHHHHHHHHHHHHHHcCCcChhceeeeeEecccEEEccCCCCCcEEEEEeeecCCCCHHHHHHHHHHHHHHHHHHh
Confidence 3445677788888766642 3333322221110 1 12233 7889999999999999999998864
No 51
>PF05651 Diacid_rec: Putative sugar diacid recognition; InterPro: IPR008599 This region is found in several proteins characterised as carbohydrate diacid regulators (e.g. P36047 from SWISSPROT). An HTH DNA-binding motif is found at the C terminus of these proteins suggesting that this region includes the sugar recognition region.
Probab=23.96 E-value=1.4e+02 Score=24.88 Aligned_cols=36 Identities=14% Similarity=0.181 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHH
Q 025825 130 LSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRP 172 (247)
Q Consensus 130 ~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~R 172 (247)
.++|+.|++-+.+.=..||-++|-.+ +||||+...|
T Consensus 3 ~~~Aq~Iv~~~~~~i~~~inimd~~G-------~IIAStd~~R 38 (135)
T PF05651_consen 3 KELAQKIVDEIMEIIGYNINIMDENG-------IIIASTDPER 38 (135)
T ss_pred HHHHHHHHHHHHHHcCCCEEEECCCc-------EEEecCChhh
Confidence 56899999999999999999998554 7999998877
No 52
>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ. Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=23.88 E-value=3.6e+02 Score=22.92 Aligned_cols=40 Identities=8% Similarity=-0.031 Sum_probs=29.9
Q ss_pred CCeEEEecCCCC--------cccCEEEEEEcCCHHHHHHHHHHHHHHH
Q 025825 146 ADIKVLFVKPLV--------YWTHFFIIATAFSRPQIDAIGSRIRDLA 185 (247)
Q Consensus 146 eDIvVLDV~~~s--------~~aDYfVIaTg~S~RHv~AIAd~V~d~l 185 (247)
.|++++|..+-. ..+|++||.+-.+..-+.++...+.+.+
T Consensus 115 ~D~viiD~pp~~~~~~~~~l~~ad~vii~~~~~~~s~~~~~~~~~~l~ 162 (246)
T TIGR03371 115 RDWVLIDVPRGPSPITRQALAAADLVLVVVNADAACYATLHQQALALF 162 (246)
T ss_pred CCEEEEECCCCchHHHHHHHHhCCeEEEEeCCCHHHHHHHHHHHHHHh
Confidence 399999999842 4689999999888777776665554444
No 53
>smart00267 GGDEF diguanylate cyclase. Diguanylate cyclase, present in a variety of bacteria
Probab=23.79 E-value=3.1e+02 Score=20.37 Aligned_cols=56 Identities=13% Similarity=0.026 Sum_probs=38.3
Q ss_pred hhHHHHHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHH
Q 025825 128 ESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEK 187 (247)
Q Consensus 128 ~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe 187 (247)
....+...+++.|...-..+-.+.-+. -.+|+||+.+.+...+..+++.|.+.++.
T Consensus 56 ~~~~~l~~i~~~l~~~~~~~~~~~r~~----~~~f~ii~~~~~~~~~~~~~~~l~~~~~~ 111 (163)
T smart00267 56 VGDELLQEVAQRLSSCLRPGDLLARLG----GDEFALLLPETSLEEAIALAERILQQLRE 111 (163)
T ss_pred hHHHHHHHHHHHHHHhcCCCCEEEEec----CceEEEEecCCCHHHHHHHHHHHHHHHhC
Confidence 345567778888866555444444443 24788888888778888888888877754
No 54
>PLN02422 dephospho-CoA kinase
Probab=23.45 E-value=4.8e+02 Score=23.63 Aligned_cols=67 Identities=16% Similarity=0.246 Sum_probs=40.8
Q ss_pred CCCCeEEEecCCC-----CcccCEEEEEEcCCHHHHHHHHHH--H-HHHHHHh-cCCCCCCC-CCCCCEEEEEcCCE
Q 025825 144 KAADIKVLFVKPL-----VYWTHFFIIATAFSRPQIDAIGSR--I-RDLAEKE-YGKVPSGD-SKPNSWTLLDFGDV 210 (247)
Q Consensus 144 KAeDIvVLDV~~~-----s~~aDYfVIaTg~S~RHv~AIAd~--V-~d~lKe~-~g~~p~~g-~~~~~WiLlD~GdI 210 (247)
+...++|+|+.=+ ..++|+.|..++.-..+++.+... + .+.+... ....|.+. ....++++...|++
T Consensus 105 ~~~~~vv~eipLL~E~~~~~~~D~vI~V~a~~e~ri~RL~~R~g~s~eea~~Ri~~Q~~~eek~~~AD~VI~N~gs~ 181 (232)
T PLN02422 105 KGCKVIVLDIPLLFETKMDKWTKPVVVVWVDPETQLERLMARDGLSEEQARNRINAQMPLDWKRSKADIVIDNSGSL 181 (232)
T ss_pred cCCCEEEEEehhhhhcchhhhCCEEEEEECCHHHHHHHHHHcCCCCHHHHHHHHHHcCChhHHHhhCCEEEECCCCH
Confidence 3457999999843 457899999999988888776542 1 1222211 11234432 23467777766653
No 55
>KOG3220 consensus Similar to bacterial dephospho-CoA kinase [Coenzyme transport and metabolism]
Probab=23.27 E-value=80 Score=29.16 Aligned_cols=73 Identities=15% Similarity=0.200 Sum_probs=48.4
Q ss_pred hhCcEEEccCCCCCCCcccCcchhhHHHHHHHHHHHHhCCCCCeEEEecCC-----CCcccCEEEEEEcCCHHHHHHHHH
Q 025825 105 KYGKVVYRRNDQKSPAAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKP-----LVYWTHFFIIATAFSRPQIDAIGS 179 (247)
Q Consensus 105 ~~g~~v~~~~~~k~~~~e~~dd~~s~~la~~Ia~aL~dkKAeDIvVLDV~~-----~s~~aDYfVIaTg~S~RHv~AIAd 179 (247)
+-|+.||+++++-+--....--+=..+..+++.+.+ ..|.-++|+|+.= .-.|+-+.|++++..+.|++.+.+
T Consensus 68 ~LG~~vF~~~~~r~~Ln~IthP~Ir~em~ke~~~~~--l~G~r~ivlDiPLLFE~~~~~~~~~tvvV~cd~~~Ql~Rl~~ 145 (225)
T KOG3220|consen 68 VLGKRVFSDPKKRQALNKITHPAIRKEMFKEILKLL--LRGYRVIVLDIPLLFEAKLLKICHKTVVVTCDEELQLERLVE 145 (225)
T ss_pred HHhHHHhCCHHHHHHHHhcccHHHHHHHHHHHHHHH--hcCCeEEEEechHHHHHhHHhheeeEEEEEECcHHHHHHHHH
Confidence 457777877775211111111122344566666665 3688999999973 357899999999999999988753
No 56
>cd05006 SIS_GmhA Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of gram-negative bacteria inner core lipopolysaccharide precursor, L-glycero-D-mannoheptose (Gmh).
Probab=23.10 E-value=3.4e+02 Score=22.50 Aligned_cols=55 Identities=11% Similarity=0.061 Sum_probs=38.9
Q ss_pred HHHHHHHHHhCCCCCeEEEecC--CCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHH
Q 025825 133 AVAMARVVSDVKAADIKVLFVK--PLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEK 187 (247)
Q Consensus 133 a~~Ia~aL~dkKAeDIvVLDV~--~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe 187 (247)
+.++++.+.++++.=|.+-+.. ++..++|+.+.+......++..+-..+.-.+.+
T Consensus 117 ~i~~~~~ak~~Ga~vI~IT~~~~s~La~~aD~~l~~~~~~~~~~~~~~~~~~~~~~~ 173 (177)
T cd05006 117 VLKALEAAKERGMKTIALTGRDGGKLLELADIEIHVPSDDTPRIQEVHLLIGHILCE 173 (177)
T ss_pred HHHHHHHHHHCCCEEEEEeCCCCCchhhhCCEEEEeCCCChHHHHHHHHHHHHHHHH
Confidence 5566677778776666555543 446789999999988888887776666555543
No 57
>COG3579 PepC Aminopeptidase C [Amino acid transport and metabolism]
Probab=23.03 E-value=74 Score=31.61 Aligned_cols=15 Identities=47% Similarity=0.733 Sum_probs=13.3
Q ss_pred hHHHHHHHHHhhCcE
Q 025825 95 TDEMFDNLLNKYGKV 109 (247)
Q Consensus 95 ~~e~~~~lf~~~g~~ 109 (247)
-=+||-.||+|||=|
T Consensus 140 QwdM~v~l~eKYGvV 154 (444)
T COG3579 140 QWDMFVSLFEKYGVV 154 (444)
T ss_pred hHHHHHHHHHHhCCC
Confidence 358999999999988
No 58
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=23.01 E-value=77 Score=21.15 Aligned_cols=17 Identities=24% Similarity=0.595 Sum_probs=14.4
Q ss_pred chHHHHHHHHHhhCcEE
Q 025825 94 DTDEMFDNLLNKYGKVV 110 (247)
Q Consensus 94 ~~~e~~~~lf~~~g~~v 110 (247)
-+++.+.++|+.||.+.
T Consensus 10 ~t~~~l~~~f~~~g~i~ 26 (70)
T PF00076_consen 10 VTEEELRDFFSQFGKIE 26 (70)
T ss_dssp SSHHHHHHHHHTTSTEE
T ss_pred CCHHHHHHHHHHhhhcc
Confidence 35689999999999983
No 59
>PF02873 MurB_C: UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; InterPro: IPR011601 This entry represents a C-terminal conserved region of UDP-N-acetylenolpyruvoylglucosamine reductase 1.1.1.158 from EC, which is also called UDP-N-acetylmuramate dehydrogenase. It is a part of the pathway for the biosynthesis of the UDP-N-acetylmuramoyl-pentapeptide, which is a precursor of bacterial peptidoglycan. ; GO: 0008762 UDP-N-acetylmuramate dehydrogenase activity, 0055114 oxidation-reduction process; PDB: 1MBB_A 2Q85_A 2MBR_A 1UXY_A 1MBT_A 1HSK_A 2GQU_A 2GQT_A 3I99_A 3TX1_A.
Probab=22.99 E-value=1.7e+02 Score=23.47 Aligned_cols=58 Identities=7% Similarity=0.126 Sum_probs=34.0
Q ss_pred HHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcCCC
Q 025825 135 AMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKV 192 (247)
Q Consensus 135 ~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~ 192 (247)
..+.++++-+.....+=++.=-...+.|+|=.-+-+...+.+|++.|++.+++++|..
T Consensus 39 ~Ag~LIe~aGlKG~~iG~a~vS~kHanfivN~g~Ata~dv~~Li~~v~~~V~~~~Gi~ 96 (105)
T PF02873_consen 39 SAGWLIEQAGLKGFRIGGAQVSEKHANFIVNHGGATAADVLALIEEVRERVKEKFGIE 96 (105)
T ss_dssp -HHHHHHHTT-TT-EETTEEE-SSSTTEEEE-SS--HHHHHHHHHHHHHHHHHHHS--
T ss_pred hHHHHHHHcCCCCCeeCcCEechhhCCeEEECCCCCHHHHHHHHHHHHHHHHHHHCCe
Confidence 3444555554444333332212335777777777789999999999999999998853
No 60
>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=22.98 E-value=81 Score=26.71 Aligned_cols=18 Identities=17% Similarity=0.102 Sum_probs=14.0
Q ss_pred EEEEEEcCCHHHHHHHHH
Q 025825 162 FFIIATAFSRPQIDAIGS 179 (247)
Q Consensus 162 YfVIaTg~S~RHv~AIAd 179 (247)
.++|||||+...++.+++
T Consensus 36 ~~~~~TGR~~~~~~~~~~ 53 (215)
T TIGR01487 36 PVSLVTGNTVPFARALAV 53 (215)
T ss_pred EEEEEcCCcchhHHHHHH
Confidence 459999999987776543
No 61
>PRK10513 sugar phosphate phosphatase; Provisional
Probab=22.91 E-value=82 Score=27.48 Aligned_cols=19 Identities=5% Similarity=-0.006 Sum_probs=14.6
Q ss_pred EEEEEEcCCHHHHHHHHHH
Q 025825 162 FFIIATAFSRPQIDAIGSR 180 (247)
Q Consensus 162 YfVIaTg~S~RHv~AIAd~ 180 (247)
.|||||||+...+..+++.
T Consensus 38 ~~~iaTGR~~~~~~~~~~~ 56 (270)
T PRK10513 38 NVVLTTGRPYAGVHRYLKE 56 (270)
T ss_pred EEEEecCCChHHHHHHHHH
Confidence 4899999999877665543
No 62
>COG5476 Uncharacterized conserved protein [Function unknown]
Probab=22.81 E-value=7.5e+02 Score=25.41 Aligned_cols=117 Identities=12% Similarity=0.011 Sum_probs=60.3
Q ss_pred CCCCcchHHHHHHHHHhhCcEEEccCCCCCCCcccCcchhhHHHHHHHHHHHHhCCCCCeEEEecCCCCccc-----CEE
Q 025825 89 SNVSEDTDEMFDNLLNKYGKVVYRRNDQKSPAAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWT-----HFF 163 (247)
Q Consensus 89 ~~~~~~~~e~~~~lf~~~g~~v~~~~~~k~~~~e~~dd~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~a-----DYf 163 (247)
-...+.+-+|+-+...--.+-|.+--+ +.|.-=....+..++++..+ ++.+.+.| |..+++----.|+ .-+
T Consensus 167 ~Et~~ra~~ll~~~lrg~~rPvv~~fr-rmp~l~pt~~eP~rSl~~~L-~a~e~~~G--ilsvs~~~GF~~aD~pe~g~~ 242 (488)
T COG5476 167 AETGERAWELLLDALRGGVRPVVSLFR-RMPFLLPTSREPMRSLYDRL-KAQEARDG--ILSVSVAHGFPAADVPEMGTI 242 (488)
T ss_pred HHHHHHHHHHHHHHHhcCCCchhhhhh-hccccCCCCcchHHHHHHHH-HhhhccCc--cEEEEeeccccccCccCCccE
Confidence 334445555665655544444444333 22221112222233333322 33344444 5555444322232 349
Q ss_pred EEEEcCCHHHHHHHHHHHHHHHHHh---cCCCCC------------CCCCCCCEEEEEcCC
Q 025825 164 IIATAFSRPQIDAIGSRIRDLAEKE---YGKVPS------------GDSKPNSWTLLDFGD 209 (247)
Q Consensus 164 VIaTg~S~RHv~AIAd~V~d~lKe~---~g~~p~------------~g~~~~~WiLlD~Gd 209 (247)
+++|++-..-..|+|+++-..+-+. ++...+ ++..+.-|+|.|.+|
T Consensus 243 lVvt~~D~~~~~a~A~~l~rel~~~r~~~~~~~l~~~~a~~~ala~r~~~g~pvviAD~~D 303 (488)
T COG5476 243 LVVTGNDKAAAAALAEELGRELLAARGAFGMAFLDTDEAVDRALATRGRPGKPVVLADVWD 303 (488)
T ss_pred EEEeCCcHHHHHHHHHHHHHHHHhhccccCCCcCCchHHHHHHHHhcCCCCCcEEEecCCC
Confidence 9999999999999999986555443 221111 123567999999865
No 63
>PF01820 Dala_Dala_lig_N: D-ala D-ala ligase N-terminus; InterPro: IPR011127 This entry represents the N-terminal region of the D-alanine--D-alanine ligase enzyme (6.3.2.4 from EC) which is thought to be involved in substrate binding []. D-Alanine is one of the central molecules of the cross-linking step of peptidoglycan assembly. There are three enzymes involved in the D-alanine branch of peptidoglycan biosynthesis: the pyridoxal phosphate-dependent D-alanine racemase (Alr), the ATP-dependent D-alanine:D-alanine ligase (Ddl), and the ATP-dependent D-alanine:D-alanine-adding enzyme (MurF) [].; GO: 0008716 D-alanine-D-alanine ligase activity, 0009252 peptidoglycan biosynthetic process, 0005618 cell wall; PDB: 4EG0_B 3E5N_A 3RFC_A 3R5F_A 1IOV_A 1IOW_A 2DLN_A 3Q1K_D 3I12_C 3N8D_B ....
Probab=22.79 E-value=41 Score=26.93 Aligned_cols=46 Identities=15% Similarity=0.197 Sum_probs=32.1
Q ss_pred EEEEEEcCCHHHHHHH--HHHHHHHHHH-hcCCCCCCCCCCCCEEEEEc
Q 025825 162 FFIIATAFSRPQIDAI--GSRIRDLAEK-EYGKVPSGDSKPNSWTLLDF 207 (247)
Q Consensus 162 YfVIaTg~S~RHv~AI--Ad~V~d~lKe-~~g~~p~~g~~~~~WiLlD~ 207 (247)
-.||+=|.|.-|--++ |..|.+.+.+ ++...|..-.+++.|.+.+.
T Consensus 3 v~vlfGG~S~EheVSl~Sa~~v~~~L~~~~y~v~~i~i~k~g~~~~~~~ 51 (117)
T PF01820_consen 3 VAVLFGGRSSEHEVSLRSARNVYEALDKEKYEVIPIYIDKDGRWYLGEG 51 (117)
T ss_dssp EEEEEETSSTTHHHHHHHHHHHHHHSHTTTEEEEEEEETTTSCEEEEHH
T ss_pred EEEEeccCchhHHHHHHHHHHHHHHHhhhcceEEEEeecCCCCEEEccc
Confidence 4689999999997666 5667776643 34445554456779999874
No 64
>TIGR01499 folC folylpolyglutamate synthase/dihydrofolate synthase. A mutation study of the FolC gene of E. coli suggests that both activitities belong to the same active site. Because some examples are monofunctional (and these cannot be separated phylogenetically), the model is treated as subfamily, not equivalog.
Probab=22.26 E-value=5.9e+02 Score=23.96 Aligned_cols=59 Identities=15% Similarity=0.153 Sum_probs=39.1
Q ss_pred HHHHHHHHHHhCCCCCeEEEecCCCCcccC-------EEEEEEcCCHHHHHHHHHHHHHHHHHhcCC
Q 025825 132 FAVAMARVVSDVKAADIKVLFVKPLVYWTH-------FFIIATAFSRPQIDAIGSRIRDLAEKEYGK 191 (247)
Q Consensus 132 la~~Ia~aL~dkKAeDIvVLDV~~~s~~aD-------YfVIaTg~S~RHv~AIAd~V~d~lKe~~g~ 191 (247)
+...+|=..-.....|+.|+.+.- ..-.| -+.|.|--+.-|+.-+.+.+++..+++.+.
T Consensus 97 ~~t~~A~~~f~~~~~d~~VlEvGl-ggrld~tn~i~p~vaViTnI~~DHl~~lG~t~e~ia~~Ka~I 162 (397)
T TIGR01499 97 LLTLLAFLYFAQAQVDVAVLEVGL-GGRLDATNVIEPLVSVITSIGLDHTEILGDTLEEIAWEKAGI 162 (397)
T ss_pred HHHHHHHHHHHHCCCCEEEEeecC-CCCcccccccCCCeEEEccccHHHHHHhCccHHHHHHHHhCc
Confidence 333433334556888999999972 21111 345667778899998887788888777554
No 65
>PRK02260 S-ribosylhomocysteinase; Provisional
Probab=22.14 E-value=5.4e+02 Score=22.53 Aligned_cols=75 Identities=17% Similarity=0.327 Sum_probs=48.4
Q ss_pred CCcccCcchhhHHHHHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEc-CCHHHH-HHHHHHHHHHHHHhcCCCCC
Q 025825 119 PAAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATA-FSRPQI-DAIGSRIRDLAEKEYGKVPS 194 (247)
Q Consensus 119 ~~~e~~dd~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg-~S~RHv-~AIAd~V~d~lKe~~g~~p~ 194 (247)
|-.|+-+.+.--.+--.+|..|.+..-....|||+++..--|-|.+|.-| .+...+ +++.+.+++.+ ...+.+|-
T Consensus 43 PN~e~m~~~alHTlEHL~At~lRn~~~~~~~iI~~sPMGCrTGFYli~~g~~~~~~i~~l~~~~l~~i~-~~~~eVPg 119 (158)
T PRK02260 43 PNKEAMPTAGIHTLEHLLAGFLRNHLDGGVEIIDISPMGCRTGFYLILIGTPDEEDVADALKATLEDVL-DDQEEVPG 119 (158)
T ss_pred CChhhCCCcchhHHHHHHHHHHhhCccCCceEEEECCCccccccEEEEeCCCCHHHHHHHHHHHHHHHH-hhcCCCCC
Confidence 33345555566666678889998876667889999999666766666667 555555 44444444443 22356664
No 66
>smart00362 RRM_2 RNA recognition motif.
Probab=22.10 E-value=1.5e+02 Score=18.91 Aligned_cols=18 Identities=28% Similarity=0.497 Sum_probs=14.2
Q ss_pred chHHHHHHHHHhhCcEEE
Q 025825 94 DTDEMFDNLLNKYGKVVY 111 (247)
Q Consensus 94 ~~~e~~~~lf~~~g~~v~ 111 (247)
-+.+.+.++|+.||.+..
T Consensus 11 ~~~~~l~~~~~~~g~v~~ 28 (72)
T smart00362 11 VTEEDLKELFSKFGPIES 28 (72)
T ss_pred CCHHHHHHHHHhcCCEEE
Confidence 356788999999998654
No 67
>cd06417 GH25_LysA-like LysA is a cell wall endolysin produced by Lactobacillus fermentum, which degrades bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues. The N-terminal glycosyl hydrolase family 25 (GH25) domain of LysA has sequence similarity with other murein hydrolase catalytic domains while the C-terminal domain has sequence similarity with putative bacterial cell wall-binding SH3b domains. This domain family also includes LysL of Lactococcus lactis.
Probab=21.61 E-value=3.3e+02 Score=23.17 Aligned_cols=99 Identities=13% Similarity=0.070 Sum_probs=52.2
Q ss_pred CcCCCCCCCCCcccccccCCCCCCCCCCCcchHHHHHHHHHh-------hCcEEEccCCCCCCCcccCcchhhHHHHHHH
Q 025825 64 NSINFKPRDLPLHFAYGKDAEDSSLSNVSEDTDEMFDNLLNK-------YGKVVYRRNDQKSPAAEIDDDAESLSFAVAM 136 (247)
Q Consensus 64 ~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~e~~~~lf~~-------~g~~v~~~~~~k~~~~e~~dd~~s~~la~~I 136 (247)
.+.+|+.= .-+|++=|-.|-.. ..|..|.+=.+. +|=+-|.+.. +..+-|+-.
T Consensus 11 g~id~~~~--~~~faiiKateG~~------~~D~~f~~n~~~A~~aGl~~G~Yhf~~~~------------~a~~qA~~f 70 (195)
T cd06417 11 SRIVTTVV--PADFVIVKATQGTG------YVNPSWRSQAAQAIAAGKLLGLYHYANGG------------NAIAEADYF 70 (195)
T ss_pred CCcchhhc--CCcEEEEEeccCCC------cCChHHHHHHHHHHHcCCceEEEEECCCC------------CHHHHHHHH
Confidence 34455532 23688877755322 233445443332 4555565321 133346666
Q ss_pred HHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHHhcCCCC
Q 025825 137 ARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEKEYGKVP 193 (247)
Q Consensus 137 a~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe~~g~~p 193 (247)
.+.+...+...+.+||+...+. +...+.+.+....+.++++.|..|
T Consensus 71 ~~~~~~~~~~~~~~lD~E~~~~-----------~~~~~~~~~~~f~~~v~~~~G~~~ 116 (195)
T cd06417 71 LNNIKGYVGKAVLVLDWESYQN-----------SAWGNSAWARQWVNRVHELTGVWP 116 (195)
T ss_pred HHHhccccCCCcEEEEeeCCCC-----------CchHHHHHHHHHHHHHHHHHCCCc
Confidence 6666666667789999987542 112333444444555555556555
No 68
>PRK01158 phosphoglycolate phosphatase; Provisional
Probab=21.56 E-value=90 Score=26.38 Aligned_cols=17 Identities=24% Similarity=-0.046 Sum_probs=12.9
Q ss_pred EEEEEEcCCHHHHHHHH
Q 025825 162 FFIIATAFSRPQIDAIG 178 (247)
Q Consensus 162 YfVIaTg~S~RHv~AIA 178 (247)
.|+|||||+...+..++
T Consensus 38 ~~~iaTGR~~~~~~~~~ 54 (230)
T PRK01158 38 PVILATGNVLCFARAAA 54 (230)
T ss_pred EEEEEcCCchHHHHHHH
Confidence 57899999987666543
No 69
>PRK05723 flavodoxin; Provisional
Probab=21.35 E-value=1.4e+02 Score=24.96 Aligned_cols=42 Identities=7% Similarity=-0.080 Sum_probs=24.0
Q ss_pred hhhHHHHHHHHHHHHhCCCCCeEEEecCCCCccc----CEEEEEEcC
Q 025825 127 AESLSFAVAMARVVSDVKAADIKVLFVKPLVYWT----HFFIIATAF 169 (247)
Q Consensus 127 ~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~a----DYfVIaTg~ 169 (247)
-.+..+|+.|++.|.+. +.++.++.......+. |.+||+|.+
T Consensus 12 G~ae~~A~~la~~l~~~-g~~~~~~~~~~~~~~~~~~~~~li~~~sT 57 (151)
T PRK05723 12 GTAEEVARHAESLLKAA-GFEAWHNPRASLQDLQAFAPEALLAVTST 57 (151)
T ss_pred hHHHHHHHHHHHHHHHC-CCceeecCcCCHhHHHhCCCCeEEEEECC
Confidence 45677888888888743 4455443322222222 557777655
No 70
>PF12724 Flavodoxin_5: Flavodoxin domain
Probab=21.31 E-value=1.6e+02 Score=23.73 Aligned_cols=48 Identities=13% Similarity=0.068 Sum_probs=29.7
Q ss_pred hhHHHHHHHHHHHHhCCCCCeEEEecC---CCCcccCEEEEEEcCCHHHHHH
Q 025825 128 ESLSFAVAMARVVSDVKAADIKVLFVK---PLVYWTHFFIIATAFSRPQIDA 176 (247)
Q Consensus 128 ~s~~la~~Ia~aL~dkKAeDIvVLDV~---~~s~~aDYfVIaTg~S~RHv~A 176 (247)
.+...|+.|++.|.+. +..+.+-++. ..-.-.|.+|++++-=..++..
T Consensus 10 ~Tk~~A~~ia~~l~~~-~~~v~~~~~~~~~~~~~~yD~vi~gspiy~g~~~~ 60 (143)
T PF12724_consen 10 NTKKIAEWIAEKLGEE-GELVDLEKVEEDEPDLSDYDAVIFGSPIYAGRIPG 60 (143)
T ss_pred hHHHHHHHHHHHHhhh-ccEEEHHhhhhcccccccCCEEEEEEEEECCcCCH
Confidence 4667788888888876 4444444431 1123469999999765444433
No 71
>TIGR03328 salvage_mtnB methylthioribulose-1-phosphate dehydratase. Members of this family are the methylthioribulose-1-phosphate dehydratase of the methionine salvage pathway. This pathway allows methylthioadenosine, left over from polyamine biosynthesis, to be recycled to methionine.
Probab=21.30 E-value=4e+02 Score=22.91 Aligned_cols=53 Identities=9% Similarity=-0.113 Sum_probs=40.4
Q ss_pred hhhHHHHHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHH
Q 025825 127 AESLSFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEK 187 (247)
Q Consensus 127 ~~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe 187 (247)
..+.++++.+++++++.+..++++ +..+=|++.|.+-.+....++.++..++-
T Consensus 134 ~gs~ela~~~~~~l~~~~~~~avl--------l~nHGv~~~G~~~~~A~~~~e~lE~~a~~ 186 (193)
T TIGR03328 134 QDIARLADSVAPYLEAYPDVPGVL--------IRGHGLYAWGRDWEEAKRHLEALEFLFEC 186 (193)
T ss_pred CChHHHHHHHHHHHhcCCCCCEEE--------EcCCcceEEcCCHHHHHHHHHHHHHHHHH
Confidence 446788999999998644444444 45666888999999999999999877654
No 72
>TIGR01752 flav_long flavodoxin, long chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the long chain type, typical for nitrogen fixation but associated with pyruvate formate-lyase activation and cobalamin-dependent methionine synthase activity in E. coli.
Probab=21.23 E-value=2.1e+02 Score=23.84 Aligned_cols=40 Identities=13% Similarity=0.125 Sum_probs=28.5
Q ss_pred hhHHHHHHHHHHHHhCCCCCeEEEecCCCC--c--ccCEEEEEEcCC
Q 025825 128 ESLSFAVAMARVVSDVKAADIKVLFVKPLV--Y--WTHFFIIATAFS 170 (247)
Q Consensus 128 ~s~~la~~Ia~aL~dkKAeDIvVLDV~~~s--~--~aDYfVIaTg~S 170 (247)
.+...|+.|++.|.+ ..+.++|+.... . -.|.+||+|+.=
T Consensus 12 nTe~vA~~Ia~~l~~---~~~~i~~~~~~~~~~l~~~d~ii~gspty 55 (167)
T TIGR01752 12 NTEGIAEKIQKELGE---DDVDVFNIAKASKEDLNAYDKLILGTPTW 55 (167)
T ss_pred hHHHHHHHHHHHhCC---CceEEEEcccCCHhHHhhCCEEEEEecCC
Confidence 466778888887753 467888887653 2 348999999663
No 73
>cd04723 HisA_HisF Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-phospho-ribosyl)-4-imidazolecarboxamide). In bacteria and archaea, ProFAR isomerase is encoded by the HisA gene. The Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to imidazole glycerol phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR). This conversion involves two tightly coupled reactions in distinct active sites of IGPS. The two catalytic domains can be fused, like in fungi and pl
Probab=20.76 E-value=1.7e+02 Score=25.97 Aligned_cols=55 Identities=11% Similarity=0.125 Sum_probs=34.5
Q ss_pred HHHHHHHHHhhCc--EEEccCCCCCCCcccCcchhhHHHHHHHHHHHHhCCCCCeEEEecCC
Q 025825 96 DEMFDNLLNKYGK--VVYRRNDQKSPAAEIDDDAESLSFAVAMARVVSDVKAADIKVLFVKP 155 (247)
Q Consensus 96 ~e~~~~lf~~~g~--~v~~~~~~k~~~~e~~dd~~s~~la~~Ia~aL~dkKAeDIvVLDV~~ 155 (247)
++++.+++++||+ +|.+-.-++- .+.. ..+.....++++.+.+. +..+.+.|+..
T Consensus 113 ~~~~~~~~~~~~~~~iivslD~~~~---~~~~-~~~~~~~~~~~~~~~~~-~~~li~~di~~ 169 (233)
T cd04723 113 SDDDEDRLAALGEQRLVLSLDFRGG---QLLK-PTDFIGPEELLRRLAKW-PEELIVLDIDR 169 (233)
T ss_pred chHHHHHHHhcCCCCeEEEEeccCC---eecc-ccCcCCHHHHHHHHHHh-CCeEEEEEcCc
Confidence 3889999999985 6665554322 1100 01111245566677788 99999999975
No 74
>PF15221 LEP503: Lens epithelial cell protein LEP503
Probab=20.60 E-value=26 Score=26.07 Aligned_cols=8 Identities=38% Similarity=0.928 Sum_probs=6.2
Q ss_pred cccccccc
Q 025825 53 CKCFWQIP 60 (247)
Q Consensus 53 ~~~~~~~~ 60 (247)
.-|||||.
T Consensus 50 lLCCWCIK 57 (61)
T PF15221_consen 50 LLCCWCIK 57 (61)
T ss_pred HHHHHHHH
Confidence 46999984
No 75
>COG2199 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]
Probab=20.25 E-value=4.7e+02 Score=21.09 Aligned_cols=53 Identities=17% Similarity=0.128 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHhCCCCCeEEEecCCCCcccCEEEEEEcCCHHHHHHHHHHHHHHHHH
Q 025825 131 SFAVAMARVVSDVKAADIKVLFVKPLVYWTHFFIIATAFSRPQIDAIGSRIRDLAEK 187 (247)
Q Consensus 131 ~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDYfVIaTg~S~RHv~AIAd~V~d~lKe 187 (247)
.....+++.|...-...-.+--+.+ -+|.||..+.+..++..+++.|+..++.
T Consensus 76 ~vL~~va~~L~~~~~~~~~~~R~gG----dEF~i~l~~~~~~~~~~~~~~l~~~~~~ 128 (181)
T COG2199 76 EVLREVARRLRSNLREGDLVARLGG----DEFAVLLPGTSLEEAARLAERIRAALEE 128 (181)
T ss_pred HHHHHHHHHHHHhcCCCCEEEEecc----ceeEEEeCCCCHHHHHHHHHHHHHHHHc
Confidence 4566777777665544445555554 5889999999999999999999776654
No 76
>PLN02390 molybdopterin synthase catalytic subunit
Probab=20.17 E-value=4.8e+02 Score=21.21 Aligned_cols=58 Identities=12% Similarity=-0.022 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHhCCCCCeEEEecCCCCcccCE--EEEEEcCCHHHHHHHHHHHHHHHHHh
Q 025825 131 SFAVAMARVVSDVKAADIKVLFVKPLVYWTHF--FIIATAFSRPQIDAIGSRIRDLAEKE 188 (247)
Q Consensus 131 ~la~~Ia~aL~dkKAeDIvVLDV~~~s~~aDY--fVIaTg~S~RHv~AIAd~V~d~lKe~ 188 (247)
.+-+...++...-...+|.|+.=-+.-...|- +|.+++..++..-..++.+.+.+|..
T Consensus 38 ~l~~I~~e~~~~~~~~~v~i~HR~G~l~vge~~v~v~v~s~HR~~Af~A~~~~id~lK~~ 97 (111)
T PLN02390 38 ELRKICDEARSRWSLHKIAVAHRLGPVPVGETSVFVAVSSVHRADALDACKFLIDELKAS 97 (111)
T ss_pred HHHHHHHHHHHhCCCceEEEEEeeecccCCCEEEEEEEECCCHHHHHHHHHHHHHHHhhc
Confidence 34444445555666889999888777666664 45556666677777788888999864
Done!