Query 044357
Match_columns 93
No_of_seqs 112 out of 1065
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 02:33:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044357.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044357hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00450 Peptidase_S10: Serine 99.9 3.9E-27 8.4E-32 174.5 5.1 87 2-93 312-413 (415)
2 PTZ00472 serine carboxypeptida 99.9 2E-26 4.2E-31 176.4 7.8 90 2-93 346-456 (462)
3 PLN02213 sinapoylglucose-malat 99.9 1.2E-25 2.5E-30 165.1 7.3 87 3-93 217-314 (319)
4 KOG1282 Serine carboxypeptidas 99.9 1.7E-25 3.8E-30 170.9 7.1 88 4-93 346-445 (454)
5 PLN02209 serine carboxypeptida 99.9 3E-25 6.6E-30 169.1 7.9 87 3-93 335-432 (437)
6 PLN03016 sinapoylglucose-malat 99.9 3.4E-24 7.4E-29 163.2 7.1 86 4-93 332-428 (433)
7 KOG1283 Serine carboxypeptidas 99.8 1.2E-20 2.6E-25 139.3 5.1 90 1-92 306-410 (414)
8 COG2939 Carboxypeptidase C (ca 99.5 6.5E-15 1.4E-19 113.5 5.2 90 2-93 382-488 (498)
9 PRK03204 haloalkane dehalogena 95.6 0.011 2.5E-07 42.2 2.7 32 60-93 254-285 (286)
10 TIGR03343 biphenyl_bphD 2-hydr 95.4 0.02 4.4E-07 39.9 3.4 31 61-93 250-280 (282)
11 TIGR01738 bioH putative pimelo 94.4 0.059 1.3E-06 35.7 3.5 30 62-93 216-245 (245)
12 PLN02679 hydrolase, alpha/beta 93.9 0.061 1.3E-06 39.9 3.0 32 60-93 323-354 (360)
13 PRK11126 2-succinyl-6-hydroxy- 93.9 0.061 1.3E-06 36.6 2.8 30 62-93 210-239 (242)
14 PRK10673 acyl-CoA esterase; Pr 93.8 0.074 1.6E-06 36.4 3.1 31 61-93 222-252 (255)
15 PRK10349 carboxylesterase BioH 93.5 0.1 2.2E-06 36.1 3.6 30 61-92 223-252 (256)
16 PLN03084 alpha/beta hydrolase 93.2 0.099 2.1E-06 39.7 3.2 30 62-93 352-381 (383)
17 TIGR02427 protocat_pcaD 3-oxoa 93.1 0.13 2.7E-06 34.1 3.4 31 61-93 220-250 (251)
18 TIGR01250 pro_imino_pep_2 prol 93.0 0.14 3.1E-06 34.7 3.5 30 62-93 258-287 (288)
19 KOG4178 Soluble epoxide hydrol 92.9 0.044 9.6E-07 41.1 0.9 35 57-93 282-317 (322)
20 TIGR03056 bchO_mg_che_rel puta 92.7 0.15 3.2E-06 35.0 3.3 31 61-93 247-277 (278)
21 TIGR03695 menH_SHCHC 2-succiny 92.5 0.17 3.8E-06 33.3 3.4 31 61-93 220-250 (251)
22 KOG2382 Predicted alpha/beta h 92.3 0.035 7.7E-07 41.5 -0.2 31 61-93 280-310 (315)
23 PLN02824 hydrolase, alpha/beta 92.1 0.15 3.1E-06 36.2 2.7 29 63-93 263-291 (294)
24 PRK00870 haloalkane dehalogena 91.9 0.15 3.2E-06 36.4 2.5 28 64-93 271-298 (302)
25 TIGR03611 RutD pyrimidine util 91.8 0.2 4.2E-06 33.6 3.0 31 61-93 225-255 (257)
26 PRK08775 homoserine O-acetyltr 90.2 0.2 4.4E-06 36.6 2.0 30 62-93 306-336 (343)
27 PRK03592 haloalkane dehalogena 90.1 0.2 4.4E-06 35.4 1.9 30 62-93 257-286 (295)
28 PLN02965 Probable pheophorbida 89.7 0.34 7.4E-06 33.6 2.7 31 61-93 220-250 (255)
29 PRK07581 hypothetical protein; 89.5 0.36 7.9E-06 35.0 2.8 30 62-93 303-333 (339)
30 PRK14875 acetoin dehydrogenase 87.8 0.61 1.3E-05 33.8 3.0 31 61-93 338-368 (371)
31 KOG1454 Predicted hydrolase/ac 87.8 0.62 1.3E-05 34.6 3.1 32 60-93 290-321 (326)
32 TIGR01392 homoserO_Ac_trn homo 87.5 0.55 1.2E-05 34.5 2.7 28 64-93 322-350 (351)
33 TIGR02240 PHA_depoly_arom poly 86.2 0.75 1.6E-05 32.2 2.7 30 61-93 234-263 (276)
34 PLN02578 hydrolase 86.1 0.98 2.1E-05 33.3 3.4 30 61-93 323-352 (354)
35 PLN02894 hydrolase, alpha/beta 85.7 0.69 1.5E-05 35.1 2.5 28 63-92 354-381 (402)
36 KOG4409 Predicted hydrolase/ac 83.7 1.7 3.7E-05 33.2 3.7 66 8-91 292-359 (365)
37 PRK00175 metX homoserine O-ace 83.1 1.1 2.4E-05 33.5 2.5 28 64-93 343-371 (379)
38 PF12697 Abhydrolase_6: Alpha/ 81.6 0.85 1.8E-05 29.4 1.3 23 62-86 204-226 (228)
39 PRK05855 short chain dehydroge 79.4 2.1 4.6E-05 32.8 3.0 28 63-93 262-289 (582)
40 PLN02385 hydrolase; alpha/beta 79.3 2 4.2E-05 31.5 2.7 30 62-93 309-342 (349)
41 PLN02980 2-oxoglutarate decarb 77.9 1.7 3.7E-05 38.9 2.3 29 63-93 1608-1636(1655)
42 PRK06765 homoserine O-acetyltr 75.8 3.3 7.1E-05 31.5 3.1 30 62-93 355-385 (389)
43 PHA02857 monoglyceride lipase; 74.4 3.5 7.7E-05 28.6 2.8 46 20-83 209-257 (276)
44 PF05414 DUF1717: Viral domain 73.8 3.4 7.4E-05 25.5 2.2 11 19-29 39-49 (101)
45 TIGR03100 hydr1_PEP hydrolase, 72.7 3.5 7.7E-05 29.3 2.5 31 61-93 241-272 (274)
46 PRK06489 hypothetical protein; 71.8 4.4 9.5E-05 29.9 2.9 29 62-93 322-354 (360)
47 PLN03087 BODYGUARD 1 domain co 68.9 5.8 0.00013 31.2 3.1 29 63-93 447-476 (481)
48 COG0596 MhpC Predicted hydrola 68.8 6.1 0.00013 25.3 2.8 27 63-91 251-277 (282)
49 PF00702 Hydrolase: haloacid d 63.3 8.9 0.00019 25.4 2.8 22 8-29 131-152 (215)
50 PLN02298 hydrolase, alpha/beta 61.9 7.5 0.00016 28.0 2.4 20 63-84 282-301 (330)
51 PF01624 MutS_I: MutS domain I 58.8 13 0.00029 23.1 2.9 22 8-29 65-86 (113)
52 PF00101 RuBisCO_small: Ribulo 58.7 23 0.00049 22.2 3.9 34 9-48 16-49 (99)
53 COG4451 RbcS Ribulose bisphosp 53.1 18 0.0004 23.6 2.8 36 8-49 23-58 (127)
54 cd03527 RuBisCO_small Ribulose 51.4 23 0.0005 22.2 3.0 36 8-49 16-51 (99)
55 PF00561 Abhydrolase_1: alpha/ 50.6 12 0.00026 24.5 1.8 53 19-90 174-229 (230)
56 PF03720 UDPG_MGDP_dh_C: UDP-g 49.7 26 0.00057 21.4 3.1 21 8-28 18-38 (106)
57 cd01427 HAD_like Haloacid deha 47.7 29 0.00063 20.5 3.1 24 6-29 26-49 (139)
58 PLN02511 hydrolase 47.5 13 0.00029 27.9 1.8 22 61-84 326-347 (388)
59 PRK10749 lysophospholipase L2; 46.7 19 0.00041 26.1 2.4 52 20-83 259-313 (330)
60 PLN02652 hydrolase; alpha/beta 42.4 24 0.00053 26.8 2.5 56 20-93 324-384 (395)
61 PLN02211 methyl indole-3-aceta 42.2 36 0.00079 24.1 3.3 26 64-92 241-266 (273)
62 KOG2564 Predicted acetyltransf 38.1 31 0.00066 26.2 2.4 30 61-92 294-323 (343)
63 KOG3275 Zinc-binding protein o 34.8 21 0.00045 23.4 0.9 12 18-29 92-103 (127)
64 PF05576 Peptidase_S37: PS-10 34.4 1.8E+02 0.0039 23.1 6.1 66 9-92 339-410 (448)
65 PF01936 NYN: NYN domain; Int 34.0 41 0.00089 20.9 2.3 21 7-27 106-126 (146)
66 PRK11460 putative hydrolase; P 34.0 42 0.00091 23.2 2.5 29 62-92 180-208 (232)
67 smart00728 ChW Clostridial hyd 33.6 35 0.00077 18.3 1.6 25 39-63 3-27 (46)
68 PF09456 RcsC: RcsC Alpha-Beta 32.5 41 0.0009 20.8 2.0 21 9-29 11-32 (92)
69 smart00775 LNS2 LNS2 domain. T 32.4 68 0.0015 21.1 3.2 26 4-29 26-52 (157)
70 KOG2551 Phospholipase/carboxyh 32.3 46 0.00099 24.1 2.4 16 65-82 193-208 (230)
71 PRK10566 esterase; Provisional 32.2 42 0.00092 22.7 2.3 27 62-90 220-246 (249)
72 PF14877 mIF3: Mitochondrial t 31.7 43 0.00093 23.3 2.2 26 4-29 141-166 (181)
73 PF03096 Ndr: Ndr family; Int 29.8 23 0.00051 26.2 0.7 28 63-92 248-275 (283)
74 COG1004 Ugd Predicted UDP-gluc 29.6 59 0.0013 25.5 2.8 26 4-29 325-352 (414)
75 PF14453 ThiS-like: ThiS-like 28.9 61 0.0013 18.3 2.1 21 9-29 17-37 (57)
76 PF08645 PNK3P: Polynucleotide 28.7 80 0.0017 20.9 3.1 22 8-29 33-54 (159)
77 TIGR01607 PST-A Plasmodium sub 28.0 93 0.002 22.8 3.6 29 63-93 301-330 (332)
78 PF15237 PTRF_SDPR: PTRF/SDPR 27.9 43 0.00094 24.4 1.7 19 14-32 96-116 (246)
79 COG1832 Predicted CoA-binding 27.2 98 0.0021 20.7 3.2 39 2-40 25-65 (140)
80 COG4185 Uncharacterized protei 27.1 17 0.00037 25.3 -0.4 14 69-82 117-130 (187)
81 COG4569 MhpF Acetaldehyde dehy 25.8 66 0.0014 23.4 2.3 26 55-82 258-283 (310)
82 PF10593 Z1: Z1 domain; Inter 25.6 75 0.0016 22.6 2.6 31 8-38 98-132 (239)
83 TIGR01497 kdpB K+-transporting 25.6 75 0.0016 26.3 2.9 26 4-29 445-471 (675)
84 PF13606 Ank_3: Ankyrin repeat 25.0 48 0.001 15.6 1.1 15 9-23 14-28 (30)
85 PF06014 DUF910: Bacterial pro 24.8 45 0.00098 19.2 1.1 18 11-29 5-22 (62)
86 TIGR01524 ATPase-IIIB_Mg magne 24.6 84 0.0018 26.6 3.1 26 4-29 514-540 (867)
87 PRK10517 magnesium-transportin 24.5 80 0.0017 26.9 3.0 26 4-29 549-575 (902)
88 COG3208 GrsT Predicted thioest 24.0 36 0.00078 24.8 0.7 23 70-92 210-232 (244)
89 PF07532 Big_4: Bacterial Ig-l 23.8 1.3E+02 0.0029 16.2 3.3 27 30-56 33-59 (59)
90 TIGR01675 plant-AP plant acid 23.7 88 0.0019 22.4 2.7 23 7-29 123-145 (229)
91 PF02702 KdpD: Osmosensitive K 23.2 70 0.0015 22.8 2.1 15 10-24 106-120 (211)
92 TIGR01652 ATPase-Plipid phosph 23.0 77 0.0017 27.4 2.6 22 8-29 635-656 (1057)
93 TIGR01691 enolase-ppase 2,3-di 22.7 1.3E+02 0.0029 21.0 3.4 25 5-29 96-120 (220)
94 PRK12353 putative amino acid k 22.5 64 0.0014 23.9 1.9 24 6-29 28-51 (314)
95 cd06167 LabA_like LabA_like pr 22.5 1.1E+02 0.0023 19.3 2.7 20 8-27 111-130 (149)
96 PRK01122 potassium-transportin 22.5 99 0.0021 25.7 3.0 26 4-29 444-470 (679)
97 TIGR01647 ATPase-IIIA_H plasma 22.4 95 0.0021 25.8 3.0 26 4-29 441-467 (755)
98 PF03959 FSH1: Serine hydrolas 22.4 55 0.0012 22.4 1.4 18 64-83 191-208 (212)
99 PF08386 Abhydrolase_4: TAP-li 22.2 87 0.0019 19.0 2.2 28 64-93 64-91 (103)
100 PRK14010 potassium-transportin 21.9 1E+02 0.0022 25.6 3.0 26 4-29 440-466 (673)
101 TIGR01517 ATPase-IIB_Ca plasma 21.8 1.1E+02 0.0023 26.1 3.2 26 4-29 578-604 (941)
102 TIGR01657 P-ATPase-V P-type AT 21.3 1.1E+02 0.0023 26.5 3.1 26 4-29 655-681 (1054)
103 PF04256 DUF434: Protein of un 21.1 59 0.0013 18.3 1.1 17 7-23 4-20 (58)
104 KOG0385 Chromatin remodeling c 20.8 75 0.0016 27.3 2.0 19 11-29 478-496 (971)
105 PLN03190 aminophospholipid tra 20.7 1.1E+02 0.0023 27.1 3.0 26 4-29 725-751 (1178)
106 TIGR01662 HAD-SF-IIIA HAD-supe 20.7 1.6E+02 0.0035 18.0 3.2 23 7-29 28-50 (132)
107 COG2217 ZntA Cation transport 20.6 1.2E+02 0.0025 25.5 3.1 27 3-29 535-562 (713)
108 COG1407 Predicted ICC-like pho 20.5 1.8E+02 0.004 21.0 3.8 32 10-41 52-93 (235)
109 COG3769 Predicted hydrolase (H 20.5 1E+02 0.0022 22.6 2.5 23 7-29 26-48 (274)
110 PRK14558 pyrH uridylate kinase 20.3 82 0.0018 21.9 1.9 23 7-29 26-48 (231)
111 TIGR02461 osmo_MPG_phos mannos 20.3 1.5E+02 0.0032 20.6 3.2 22 8-29 19-40 (225)
112 PF07519 Tannase: Tannase and 20.3 1E+02 0.0022 24.2 2.7 78 7-92 340-423 (474)
113 cd08588 PI-PLCc_At5g67130_like 20.2 91 0.002 22.7 2.2 20 10-29 138-157 (270)
114 TIGR03026 NDP-sugDHase nucleot 20.1 1.3E+02 0.0029 22.7 3.2 21 8-28 334-354 (411)
115 PRK15122 magnesium-transportin 20.0 1.1E+02 0.0023 26.2 2.8 26 4-29 549-575 (903)
No 1
>PF00450 Peptidase_S10: Serine carboxypeptidase; InterPro: IPR001563 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S10 (clan SC). The type example is carboxypeptidase Y from Saccharomyces cerevisiae (Baker's yeast) []. All known carboxypeptidases are either metallo carboxypeptidases or serine carboxypeptidases (3.4.16.5 from EC and 3.4.16.6 from EC). The catalytic activity of the serine carboxypeptidases, like that of the trypsin family serine proteases, is provided by a charge relay system involving an aspartic acid residue hydrogen-bonded to a histidine, which is itself hydrogen-bonded to a serine []. The sequences surrounding the active site serine and histidine residues are highly conserved in all the serine carboxypeptidases.; GO: 0004185 serine-type carboxypeptidase activity, 0006508 proteolysis; PDB: 1AC5_A 1WHS_B 3SC2_B 1WHT_A 1BCR_A 1BCS_A 1GXS_A 1IVY_A 1WPX_A 1YSC_A ....
Probab=99.93 E-value=3.9e-27 Score=174.55 Aligned_cols=87 Identities=41% Similarity=0.702 Sum_probs=72.6
Q ss_pred CCccccchhhhHHHHHhcCceEEEEecc---------------eeeecCccccccCCcEeEEECCEeeeEEEeeCCeeEE
Q 044357 2 QMDWMRHLEVGIPALLEDGIRVLIYAGG---------------AIEWFGRKDVVAAPTVLFKVDGEEAWQMKSHGPLTFF 66 (93)
Q Consensus 2 ~~D~~~~~~~~l~~Ll~~girVLiy~Gd---------------~l~w~g~~~f~~~~~~~w~~~~~~~G~~k~~~~ltf~ 66 (93)
..|++.++.+.+++||++|+|||||+|| .|+|+|++.|+.++++ .+++++||+|+++||||+
T Consensus 312 ~~d~~~~~~~~l~~lL~~~irVLiy~Gd~D~i~n~~Gt~~~i~~L~w~~~~~f~~~~~~---~~~~~~G~~k~~~~ltf~ 388 (415)
T PF00450_consen 312 YDDFMPSSIPDLPELLDNGIRVLIYNGDLDLICNFLGTERWIDNLNWSGKDGFRQWPRK---VNGQVAGYVKQYGNLTFV 388 (415)
T ss_dssp TCCC-SBCHHHHHHHHHTT-EEEEEEETT-SSS-HHHHHHHHHCTECTEEEEEEEEEEE---TTCSEEEEEEEETTEEEE
T ss_pred cccccccchhhhhhhhhccceeEEeccCCCEEEEeccchhhhhccccCccccccccccc---ccccccceeEEeccEEEE
Confidence 4688899999999999999999999999 4555555555555444 488999999999999999
Q ss_pred EeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 67 KEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 67 ~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
+ |++||||||.|||++|++||++||
T Consensus 389 ~--V~~AGHmvP~dqP~~a~~m~~~fl 413 (415)
T PF00450_consen 389 T--VRGAGHMVPQDQPEAALQMFRRFL 413 (415)
T ss_dssp E--ETT--SSHHHHSHHHHHHHHHHHH
T ss_pred E--EcCCcccChhhCHHHHHHHHHHHh
Confidence 9 999999999999999999999996
No 2
>PTZ00472 serine carboxypeptidase (CBP1); Provisional
Probab=99.93 E-value=2e-26 Score=176.45 Aligned_cols=90 Identities=44% Similarity=0.853 Sum_probs=85.4
Q ss_pred CCccccchhhhHHHHHhcCceEEEEecc---------------eeeecCccccccCCcEeE-EECCEeeeEEEeeC----
Q 044357 2 QMDWMRHLEVGIPALLEDGIRVLIYAGG---------------AIEWFGRKDVVAAPTVLF-KVDGEEAWQMKSHG---- 61 (93)
Q Consensus 2 ~~D~~~~~~~~l~~Ll~~girVLiy~Gd---------------~l~w~g~~~f~~~~~~~w-~~~~~~~G~~k~~~---- 61 (93)
..|+++++.+.|++||++|+|||||+|| +|+|+|+++|.++++++| .++++++||+|+++
T Consensus 346 ~~D~~~~~~~~l~~LL~~gikVLiYnGd~D~icn~~Gt~~wi~~L~w~g~~~f~~a~~~~w~~~~~~v~G~vk~~~~~~~ 425 (462)
T PTZ00472 346 EMDWMKNFNYTVPGLLEDGVRVMIYAGDMDFICNWIGNKAWTLALQWPGNAEFNAAPDVPFSAVDGRWAGLVRSAASNTS 425 (462)
T ss_pred hhccccchHHHHHHHHhcCceEEEEECCcCeecCcHhHHHHHHhCCCCCccchhhcCccccEecCCEeceEEEEEecccC
Confidence 4688999999999999999999999999 789999999999999999 56899999999999
Q ss_pred -CeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 62 -PLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 62 -~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
||+|++ |++||||||.|||+++++|+++|+
T Consensus 426 ~~l~~~~--V~~AGH~vp~d~P~~~~~~i~~fl 456 (462)
T PTZ00472 426 SGFSFVQ--VYNAGHMVPMDQPAVALTMINRFL 456 (462)
T ss_pred CCeEEEE--ECCCCccChhhHHHHHHHHHHHHH
Confidence 999999 999999999999999999999985
No 3
>PLN02213 sinapoylglucose-malate O-sinapoyltransferase/ carboxypeptidase
Probab=99.92 E-value=1.2e-25 Score=165.07 Aligned_cols=87 Identities=18% Similarity=0.273 Sum_probs=73.0
Q ss_pred CccccchhhhHHHHHhcCceEEEEecc---eeeecCcccccc-------CCcEeEEECCEeeeEEEeeCC-eeEEEeeec
Q 044357 3 MDWMRHLEVGIPALLEDGIRVLIYAGG---AIEWFGRKDVVA-------APTVLFKVDGEEAWQMKSHGP-LTFFKEQLH 71 (93)
Q Consensus 3 ~D~~~~~~~~l~~Ll~~girVLiy~Gd---~l~w~g~~~f~~-------~~~~~w~~~~~~~G~~k~~~~-ltf~~~~V~ 71 (93)
.|++. ..+.+.++|.+|+|||||||| .|+|.|++.|.+ .+|+||.++++++||+|+++| |+|++ |+
T Consensus 217 ~d~~~-~~~~~~~~l~~~i~VliY~Gd~D~icn~~g~~~wi~~L~w~~~~~~~~w~~~~~~~G~vk~y~~~ltf~~--V~ 293 (319)
T PLN02213 217 HDIVS-SIPYHMNNSISGYRSLIYSGDHDIAVPFLATQAWIRSLNYSPIHNWRPWMINNQIAGYTRAYSNKMTFAT--IK 293 (319)
T ss_pred ccccc-chHHHHHHHhcCceEEEEECCcCeeCCcHhHHHHHHhcCCCCCCCCccccCCCEeeeEEEEecCcceEEE--Ec
Confidence 35543 334444555678999999999 888888887753 468899999999999999986 99999 99
Q ss_pred CCcccCCCCChHHHHHHHHhhC
Q 044357 72 DACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 72 ~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
+|||||| +||++|++||++||
T Consensus 294 ~AGHmV~-~qP~~al~m~~~fi 314 (319)
T PLN02213 294 AGGHTAE-YRPNETFIMFQRWI 314 (319)
T ss_pred CCCCCCC-cCHHHHHHHHHHHH
Confidence 9999998 69999999999996
No 4
>KOG1282 consensus Serine carboxypeptidases (lysosomal cathepsin A) [Posttranslational modification, protein turnover, chaperones; Amino acid transport and metabolism]
Probab=99.92 E-value=1.7e-25 Score=170.92 Aligned_cols=88 Identities=31% Similarity=0.483 Sum_probs=81.4
Q ss_pred ccccchhhhHHHHHhcC-ceEEEEecc---eeeecCccccc-------cCCcEeEEEC-CEeeeEEEeeCCeeEEEeeec
Q 044357 4 DWMRHLEVGIPALLEDG-IRVLIYAGG---AIEWFGRKDVV-------AAPTVLFKVD-GEEAWQMKSHGPLTFFKEQLH 71 (93)
Q Consensus 4 D~~~~~~~~l~~Ll~~g-irVLiy~Gd---~l~w~g~~~f~-------~~~~~~w~~~-~~~~G~~k~~~~ltf~~~~V~ 71 (93)
|...++++.+..++.++ +|||||+|| .|+|.|++.|. .++|+||+.+ ++++||+++|++|+|++ |+
T Consensus 346 ~~~~sm~p~~~~~~~~~~~rvliysGD~D~~~p~~gt~~~i~~L~~~~~~~~~pW~~~~~qvaG~~~~Y~~ltf~t--Vr 423 (454)
T KOG1282|consen 346 DDIKSMLPIHKKLIASGGYRVLIYSGDHDLVVPFLGTQAWIKSLNLSITDEWRPWYHKGGQVAGYTKTYGGLTFAT--VR 423 (454)
T ss_pred cCccchHHHHHHHhhcCceEEEEEeCCcceeCcchhhHHHHHhccCccccCccCCccCCCceeeeEEEecCEEEEE--Ee
Confidence 55678999999999865 999999999 99999999874 4699999996 89999999999999999 99
Q ss_pred CCcccCCCCChHHHHHHHHhhC
Q 044357 72 DACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 72 ~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
|||||||.|||++|+.||++||
T Consensus 424 GaGH~VP~~~p~~al~m~~~fl 445 (454)
T KOG1282|consen 424 GAGHMVPYDKPESALIMFQRFL 445 (454)
T ss_pred CCcccCCCCCcHHHHHHHHHHH
Confidence 9999999999999999999996
No 5
>PLN02209 serine carboxypeptidase
Probab=99.92 E-value=3e-25 Score=169.13 Aligned_cols=87 Identities=18% Similarity=0.255 Sum_probs=73.3
Q ss_pred CccccchhhhHHHHHhcCceEEEEecc---eeeecCcccccc-------CCcEeEEECCEeeeEEEeeCC-eeEEEeeec
Q 044357 3 MDWMRHLEVGIPALLEDGIRVLIYAGG---AIEWFGRKDVVA-------APTVLFKVDGEEAWQMKSHGP-LTFFKEQLH 71 (93)
Q Consensus 3 ~D~~~~~~~~l~~Ll~~girVLiy~Gd---~l~w~g~~~f~~-------~~~~~w~~~~~~~G~~k~~~~-ltf~~~~V~ 71 (93)
.|.++++ +.+.++|++|+|||||+|| .|+|.|+++|.+ .+|++|+++++++||+|+++| |+|++ |+
T Consensus 335 ~d~~~~~-~~~~~~l~~girVLiY~GD~D~icn~~Gte~wi~~L~w~~~~~~~~w~~~~q~aG~vk~y~n~Ltfv~--V~ 411 (437)
T PLN02209 335 SDIRSSI-PYHMNNSINGYRSLIFSGDHDITMPFQATQAWIKSLNYSIIDDWRPWMIKGQIAGYTRTYSNKMTFAT--VK 411 (437)
T ss_pred cchhhhH-HHHHHHHhcCceEEEEECCccccCCcHhHHHHHHhcCCccCCCeeeeEECCEeeeEEEEeCCceEEEE--Ec
Confidence 3555433 3344555579999999999 888888887753 578999999999999999996 99999 99
Q ss_pred CCcccCCCCChHHHHHHHHhhC
Q 044357 72 DACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 72 ~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
+|||||| +||++|++|+++||
T Consensus 412 ~AGHmVp-~qP~~al~m~~~fi 432 (437)
T PLN02209 412 GGGHTAE-YLPEESSIMFQRWI 432 (437)
T ss_pred CCCCCcC-cCHHHHHHHHHHHH
Confidence 9999998 69999999999996
No 6
>PLN03016 sinapoylglucose-malate O-sinapoyltransferase
Probab=99.90 E-value=3.4e-24 Score=163.19 Aligned_cols=86 Identities=19% Similarity=0.281 Sum_probs=72.4
Q ss_pred ccccchhhhHHHHHhcCceEEEEecc---eeeecCcccccc-------CCcEeEEECCEeeeEEEeeCC-eeEEEeeecC
Q 044357 4 DWMRHLEVGIPALLEDGIRVLIYAGG---AIEWFGRKDVVA-------APTVLFKVDGEEAWQMKSHGP-LTFFKEQLHD 72 (93)
Q Consensus 4 D~~~~~~~~l~~Ll~~girVLiy~Gd---~l~w~g~~~f~~-------~~~~~w~~~~~~~G~~k~~~~-ltf~~~~V~~ 72 (93)
|.+. .++.+.+++.+|+|||||||| .|+|.|++.|.+ .+|++|+++++++||+|+++| |||++ |++
T Consensus 332 d~~~-~~~~~~~~l~~~irVLiY~Gd~D~icn~~Gt~~wi~~L~w~~~~~~~~w~~~~~~~G~vk~y~n~ltfv~--V~~ 408 (433)
T PLN03016 332 DIVS-SIPYHMNNSISGYRSLIYSGDHDIAVPFLATQAWIRSLNYSPIHNWRPWMINNQIAGYTRAYSNKMTFAT--IKA 408 (433)
T ss_pred ccch-hhHHHHHHHhcCceEEEEECCccccCCcHhHHHHHHhCCCCCCCCcccccCCCEeeeEEEEeCCceEEEE--EcC
Confidence 4543 344445556678999999999 888888877743 478999999999999999986 99999 999
Q ss_pred CcccCCCCChHHHHHHHHhhC
Q 044357 73 ACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 73 AGH~vP~dqP~~~~~m~~~f~ 93 (93)
|||||| +||++|++|+++||
T Consensus 409 AGHmVp-~qP~~al~m~~~Fi 428 (433)
T PLN03016 409 GGHTAE-YRPNETFIMFQRWI 428 (433)
T ss_pred CCCCCC-CCHHHHHHHHHHHH
Confidence 999998 79999999999996
No 7
>KOG1283 consensus Serine carboxypeptidases [Posttranslational modification, protein turnover, chaperones]
Probab=99.82 E-value=1.2e-20 Score=139.31 Aligned_cols=90 Identities=31% Similarity=0.499 Sum_probs=84.0
Q ss_pred CCCccccchhhhHHHHHhcCceEEEEecc---------------eeeecCccccccCCcEeEEECCEeeeEEEeeCCeeE
Q 044357 1 MQMDWMRHLEVGIPALLEDGIRVLIYAGG---------------AIEWFGRKDVVAAPTVLFKVDGEEAWQMKSHGPLTF 65 (93)
Q Consensus 1 ~~~D~~~~~~~~l~~Ll~~girVLiy~Gd---------------~l~w~g~~~f~~~~~~~w~~~~~~~G~~k~~~~ltf 65 (93)
|++|||+|+++.+.+||++|++|.||||+ ++.|++...|...+|.-.+++-..+||.|+|+||.|
T Consensus 306 lq~dFMKPvi~~VdeLL~~Gv~V~VynG~lDlIc~T~G~~AWv~~l~w~~~p~f~~~~r~~~~~s~~l~gy~ktyknl~f 385 (414)
T KOG1283|consen 306 LQGDFMKPVISKVDELLNNGVNVTVYNGQLDLICATMGTEAWVEKLEWSAKPSFQVSPRVGITVSRVLEGYEKTYKNLSF 385 (414)
T ss_pred hhhhhcccHHHHHHHHHhCCceEEEEecccchhhcccchhhhhhheecCCCCccccceeeeccceeecchhhhhhcccee
Confidence 57899999999999999999999999999 778888899998998888887788999999999999
Q ss_pred EEeeecCCcccCCCCChHHHHHHHHhh
Q 044357 66 FKEQLHDACHMVPVDQPKASLQMLQSW 92 (93)
Q Consensus 66 ~~~~V~~AGH~vP~dqP~~~~~m~~~f 92 (93)
.+ |..||||||.|+|+.|..|++.+
T Consensus 386 ~w--ilraghmvp~Dnp~~a~hmlr~v 410 (414)
T KOG1283|consen 386 FW--ILRAGHMVPADNPAAASHMLRHV 410 (414)
T ss_pred EE--eecccCcccCCCHHHHhhheeec
Confidence 99 99999999999999999998765
No 8
>COG2939 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]
Probab=99.54 E-value=6.5e-15 Score=113.45 Aligned_cols=90 Identities=33% Similarity=0.595 Sum_probs=82.4
Q ss_pred CCccccchhhhHHHHHhcCceEEEEecc---------------eeeecCccccccCCcEeEEE--CCEeeeEEEeeCCee
Q 044357 2 QMDWMRHLEVGIPALLEDGIRVLIYAGG---------------AIEWFGRKDVVAAPTVLFKV--DGEEAWQMKSHGPLT 64 (93)
Q Consensus 2 ~~D~~~~~~~~l~~Ll~~girVLiy~Gd---------------~l~w~g~~~f~~~~~~~w~~--~~~~~G~~k~~~~lt 64 (93)
.++++++....+..++.+|+.+++|.|| .|+|.|...|.++...+|.. ..+..|-+++++|++
T Consensus 382 ~~~~~~~~~~~~~~~lv~~~~~~~~~gd~d~icn~~~~~a~~~~Lkw~~~~g~~d~~~~~~~~~~t~e~~~~~~s~~n~~ 461 (498)
T COG2939 382 TGGWAKPSRYLVLNLLVNNVWILLYAGDKDFICNLRGNMALDPKLKWLGASGYFDASTPFFWSRLTLEEMGGYKSYRNLT 461 (498)
T ss_pred cCCcccccHHHHhhhhhcCCceeeeecCchhHhhhhhhcccCCcceEeeecchhhhcCCCcccccchhhcccccccCCce
Confidence 5788899999999999999999999999 78999999999988888865 568888889999999
Q ss_pred EEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 65 FFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 65 f~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
|++ ++.||||||+|+|..+++|++.|+
T Consensus 462 ~~r--~y~aGHMvp~d~P~~~~~~~~~~~ 488 (498)
T COG2939 462 FLR--IYEAGHMVPYDRPESSLEMVNLWI 488 (498)
T ss_pred EEE--EecCcceeecCChHHHHHHHHHHH
Confidence 999 999999999999999999999874
No 9
>PRK03204 haloalkane dehalogenase; Provisional
Probab=95.56 E-value=0.011 Score=42.23 Aligned_cols=32 Identities=16% Similarity=0.226 Sum_probs=28.4
Q ss_pred eCCeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 60 HGPLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 60 ~~~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
..+.++.. |.+|||+++.++|+...+++.+|+
T Consensus 254 ip~~~~~~--i~~aGH~~~~e~Pe~~~~~i~~~~ 285 (286)
T PRK03204 254 FPDHVLVE--LPNAKHFIQEDAPDRIAAAIIERF 285 (286)
T ss_pred cCCCeEEE--cCCCcccccccCHHHHHHHHHHhc
Confidence 34677888 999999999999999999999885
No 10
>TIGR03343 biphenyl_bphD 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase. Members of this family are 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase, or HOPD hydrolase, the BphD protein of biphenyl degradation. BphD acts on the product of ring meta-cleavage by BphC. Many species carrying bphC and bphD are capable of degrading polychlorinated biphenyls as well as biphenyl itself.
Probab=95.36 E-value=0.02 Score=39.86 Aligned_cols=31 Identities=6% Similarity=0.125 Sum_probs=28.0
Q ss_pred CCeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 61 GPLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 61 ~~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
.+..+.. |.+|||+++.++|+...+++.+|+
T Consensus 250 ~~~~~~~--i~~agH~~~~e~p~~~~~~i~~fl 280 (282)
T TIGR03343 250 PDAQLHV--FSRCGHWAQWEHADAFNRLVIDFL 280 (282)
T ss_pred CCCEEEE--eCCCCcCCcccCHHHHHHHHHHHh
Confidence 4677888 999999999999999999999885
No 11
>TIGR01738 bioH putative pimeloyl-BioC--CoA transferase BioH. This CoA-binding enzyme is required for the production of pimeloyl-coenzyme A, the substrate of the BioF protein early in the biosynthesis of biotin. Its exact function is unknown, but is proposed in ref 2. This enzyme belongs to the alpha/beta hydrolase fold family (pfam model pfam00561). Members of this family are restricted to the Proteobacteria.
Probab=94.41 E-value=0.059 Score=35.70 Aligned_cols=30 Identities=13% Similarity=0.196 Sum_probs=26.8
Q ss_pred CeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 62 PLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 62 ~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
+-++.. +.++||+.+.++|+...+.+.+||
T Consensus 216 ~~~~~~--~~~~gH~~~~e~p~~~~~~i~~fi 245 (245)
T TIGR01738 216 HSELYI--FAKAAHAPFLSHAEAFCALLVAFK 245 (245)
T ss_pred CCeEEE--eCCCCCCccccCHHHHHHHHHhhC
Confidence 456778 999999999999999999999986
No 12
>PLN02679 hydrolase, alpha/beta fold family protein
Probab=93.89 E-value=0.061 Score=39.90 Aligned_cols=32 Identities=22% Similarity=0.392 Sum_probs=28.0
Q ss_pred eCCeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 60 HGPLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 60 ~~~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
..+.++.. |.+|||+++.++|+...+.+.+|+
T Consensus 323 ip~~~l~~--i~~aGH~~~~E~Pe~~~~~I~~FL 354 (360)
T PLN02679 323 LPNVTLYV--LEGVGHCPHDDRPDLVHEKLLPWL 354 (360)
T ss_pred CCceEEEE--cCCCCCCccccCHHHHHHHHHHHH
Confidence 35667888 999999999999999999998885
No 13
>PRK11126 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate synthase; Provisional
Probab=93.85 E-value=0.061 Score=36.60 Aligned_cols=30 Identities=20% Similarity=0.247 Sum_probs=26.9
Q ss_pred CeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 62 PLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 62 ~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
+..+.. |.++||+++.+.|+...+.+..|+
T Consensus 210 ~~~~~~--i~~~gH~~~~e~p~~~~~~i~~fl 239 (242)
T PRK11126 210 ALPLHV--IPNAGHNAHRENPAAFAASLAQIL 239 (242)
T ss_pred cCeEEE--eCCCCCchhhhChHHHHHHHHHHH
Confidence 467888 999999999999999999998885
No 14
>PRK10673 acyl-CoA esterase; Provisional
Probab=93.77 E-value=0.074 Score=36.40 Aligned_cols=31 Identities=19% Similarity=0.347 Sum_probs=28.0
Q ss_pred CCeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 61 GPLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 61 ~~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
.+.++.. +.++||+.+.++|+...+.+.+|+
T Consensus 222 ~~~~~~~--~~~~gH~~~~~~p~~~~~~l~~fl 252 (255)
T PRK10673 222 PQARAHV--IAGAGHWVHAEKPDAVLRAIRRYL 252 (255)
T ss_pred CCcEEEE--eCCCCCeeeccCHHHHHHHHHHHH
Confidence 5678888 999999999999999999999885
No 15
>PRK10349 carboxylesterase BioH; Provisional
Probab=93.55 E-value=0.1 Score=36.06 Aligned_cols=30 Identities=13% Similarity=0.160 Sum_probs=26.4
Q ss_pred CCeeEEEeeecCCcccCCCCChHHHHHHHHhh
Q 044357 61 GPLTFFKEQLHDACHMVPVDQPKASLQMLQSW 92 (93)
Q Consensus 61 ~~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f 92 (93)
.+..+.. +.++||+.+.++|+...+.+.+|
T Consensus 223 ~~~~~~~--i~~~gH~~~~e~p~~f~~~l~~~ 252 (256)
T PRK10349 223 PHSESYI--FAKAAHAPFISHPAEFCHLLVAL 252 (256)
T ss_pred CCCeEEE--eCCCCCCccccCHHHHHHHHHHH
Confidence 4567788 99999999999999998888776
No 16
>PLN03084 alpha/beta hydrolase fold protein; Provisional
Probab=93.20 E-value=0.099 Score=39.68 Aligned_cols=30 Identities=17% Similarity=0.111 Sum_probs=26.7
Q ss_pred CeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 62 PLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 62 ~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
+..+.. |.+|||+++.++|++....|.+|+
T Consensus 352 ~a~l~v--Ip~aGH~~~~E~Pe~v~~~I~~Fl 381 (383)
T PLN03084 352 QHKLIE--LPMAGHHVQEDCGEELGGIISGIL 381 (383)
T ss_pred CCeEEE--ECCCCCCcchhCHHHHHHHHHHHh
Confidence 356788 999999999999999999999885
No 17
>TIGR02427 protocat_pcaD 3-oxoadipate enol-lactonase. Members of this family are 3-oxoadipate enol-lactonase. Note that the substrate is known as 3-oxoadipate enol-lactone, 2-oxo-2,3-dihydrofuran-5-acetate, 4,5-Dihydro-5-oxofuran-2-acetate, and 5-oxo-4,5-dihydrofuran-2-acetate. The enzyme the catalyzes the fourth step in the protocatechuate degradation to beta-ketoadipate and then to succinyl-CoA and acetyl-CoA. 4-hydroxybenzoate, 3-hydroxybenzoate, and vanillate all can be converted in one step to protocatechuate. This enzyme also acts in catechol degradation. In genomes that catabolize both catechol and protocatechuate, two forms of this enzyme may be found. All members of the seed alignment for this model were chosen from within protocatechuate degradation operons of at least three genes of the pathway, from genomes with the complete pathway through beta-ketoadipate.
Probab=93.14 E-value=0.13 Score=34.10 Aligned_cols=31 Identities=26% Similarity=0.372 Sum_probs=27.1
Q ss_pred CCeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 61 GPLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 61 ~~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
.+.++.. +.++||+++.++|+...+.++.|+
T Consensus 220 ~~~~~~~--~~~~gH~~~~~~p~~~~~~i~~fl 250 (251)
T TIGR02427 220 PGARFAE--IRGAGHIPCVEQPEAFNAALRDFL 250 (251)
T ss_pred CCceEEE--ECCCCCcccccChHHHHHHHHHHh
Confidence 3456788 999999999999999999999885
No 18
>TIGR01250 pro_imino_pep_2 proline-specific peptidases, Bacillus coagulans-type subfamily. This model describes a subfamily of the alpha/beta fold family of hydrolases. Characterized members include prolinases (Pro-Xaa dipeptidase, EC 3.4.13.8), prolyl aminopeptidases (EC 3.4.11.5), and a leucyl aminopeptidase
Probab=92.96 E-value=0.14 Score=34.73 Aligned_cols=30 Identities=17% Similarity=0.461 Sum_probs=26.1
Q ss_pred CeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 62 PLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 62 ~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
+..+.. +.++||+.+.++|+...+.+.+|+
T Consensus 258 ~~~~~~--~~~~gH~~~~e~p~~~~~~i~~fl 287 (288)
T TIGR01250 258 GSRLVV--FPDGSHMTMIEDPEVYFKLLSDFI 287 (288)
T ss_pred CCeEEE--eCCCCCCcccCCHHHHHHHHHHHh
Confidence 345677 899999999999999999999885
No 19
>KOG4178 consensus Soluble epoxide hydrolase [Lipid transport and metabolism]
Probab=92.91 E-value=0.044 Score=41.08 Aligned_cols=35 Identities=17% Similarity=0.244 Sum_probs=26.9
Q ss_pred EEeeCCe-eEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 57 MKSHGPL-TFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 57 ~k~~~~l-tf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
-+...++ .-+. +.++||.+++++|++..+.+..|+
T Consensus 282 rk~vp~l~~~vv--~~~~gH~vqqe~p~~v~~~i~~f~ 317 (322)
T KOG4178|consen 282 RKDVPRLTERVV--IEGIGHFVQQEKPQEVNQAILGFI 317 (322)
T ss_pred HHhhccccceEE--ecCCcccccccCHHHHHHHHHHHH
Confidence 3334444 4566 899999999999999998888774
No 20
>TIGR03056 bchO_mg_che_rel putative magnesium chelatase accessory protein. Members of this family belong to the alpha/beta fold family hydrolases (PFAM model pfam00561). Members are found in bacterial genomes if and only if they encoded for anoxygenic photosynthetic systems similar to that of Rhodobacter capsulatus and other alpha-Proteobacteria. Members often are encoded in the same operon as subunits of the protoporphyrin IX magnesium chelatase, and were once designated BchO. No literature supports a role as an actual subunit of magnesium chelatase, but an accessory role is possible, as suggested by placement by its probable hydrolase activity.
Probab=92.73 E-value=0.15 Score=35.04 Aligned_cols=31 Identities=13% Similarity=0.162 Sum_probs=27.0
Q ss_pred CCeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 61 GPLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 61 ~~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
.+..+.. +.++||+.+.++|+...+.+..|+
T Consensus 247 ~~~~~~~--~~~~gH~~~~e~p~~~~~~i~~f~ 277 (278)
T TIGR03056 247 PTATLHV--VPGGGHLVHEEQADGVVGLILQAA 277 (278)
T ss_pred cCCeEEE--ECCCCCcccccCHHHHHHHHHHHh
Confidence 3456788 999999999999999999999885
No 21
>TIGR03695 menH_SHCHC 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate synthase. This protein catalyzes the formation of SHCHC, or (1 R,6 R)-2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate, by elmination of pyruvate from 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate (SEPHCHC). Note that SHCHC synthase activity previously was attributed to MenD, which in fact is SEPHCHC synthase.
Probab=92.53 E-value=0.17 Score=33.25 Aligned_cols=31 Identities=23% Similarity=0.439 Sum_probs=27.5
Q ss_pred CCeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 61 GPLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 61 ~~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
.+.++.. +.++||+++.++|+.....+.+|+
T Consensus 220 ~~~~~~~--~~~~gH~~~~e~~~~~~~~i~~~l 250 (251)
T TIGR03695 220 PNLTLVI--IANAGHNIHLENPEAFAKILLAFL 250 (251)
T ss_pred CCCcEEE--EcCCCCCcCccChHHHHHHHHHHh
Confidence 4567888 999999999999999999998885
No 22
>KOG2382 consensus Predicted alpha/beta hydrolase [General function prediction only]
Probab=92.30 E-value=0.035 Score=41.47 Aligned_cols=31 Identities=16% Similarity=0.430 Sum_probs=26.2
Q ss_pred CCeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 61 GPLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 61 ~~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
.+..+.. +++|||+|..|+|+...+.+..|+
T Consensus 280 p~~e~~~--ld~aGHwVh~E~P~~~~~~i~~Fl 310 (315)
T KOG2382|consen 280 PNVEVHE--LDEAGHWVHLEKPEEFIESISEFL 310 (315)
T ss_pred cchheee--cccCCceeecCCHHHHHHHHHHHh
Confidence 3456677 888999999999999999988874
No 23
>PLN02824 hydrolase, alpha/beta fold family protein
Probab=92.06 E-value=0.15 Score=36.16 Aligned_cols=29 Identities=17% Similarity=0.294 Sum_probs=26.2
Q ss_pred eeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 63 LTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 63 ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
..+.. +.+|||+++.++|+...+.+.+|+
T Consensus 263 ~~~~~--i~~~gH~~~~e~p~~~~~~i~~fl 291 (294)
T PLN02824 263 EDFIV--LPGVGHCPQDEAPELVNPLIESFV 291 (294)
T ss_pred cceEE--eCCCCCChhhhCHHHHHHHHHHHH
Confidence 56788 999999999999999999999885
No 24
>PRK00870 haloalkane dehalogenase; Provisional
Probab=91.88 E-value=0.15 Score=36.41 Aligned_cols=28 Identities=11% Similarity=0.195 Sum_probs=24.9
Q ss_pred eEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 64 TFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 64 tf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
.+.. +.++||+++.++|+.....+.+|+
T Consensus 271 ~~~~--i~~~gH~~~~e~p~~~~~~l~~fl 298 (302)
T PRK00870 271 PHPT--IKGAGHFLQEDSGEELAEAVLEFI 298 (302)
T ss_pred ceee--ecCCCccchhhChHHHHHHHHHHH
Confidence 4677 999999999999999999998885
No 25
>TIGR03611 RutD pyrimidine utilization protein D. This protein is observed in operons extremely similar to that characterized in E. coli K-12 responsible for the import and catabolism of pyrimidines, primarily uracil. This protein is a member of the hydrolase, alpha/beta fold family defined by pfam00067.
Probab=91.79 E-value=0.2 Score=33.64 Aligned_cols=31 Identities=16% Similarity=0.141 Sum_probs=26.6
Q ss_pred CCeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 61 GPLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 61 ~~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
.+..+.. +.++||+.+.++|+...+.+.+|+
T Consensus 225 ~~~~~~~--~~~~gH~~~~~~~~~~~~~i~~fl 255 (257)
T TIGR03611 225 PNAQLKL--LPYGGHASNVTDPETFNRALLDFL 255 (257)
T ss_pred CCceEEE--ECCCCCCccccCHHHHHHHHHHHh
Confidence 3456778 999999999999999999998885
No 26
>PRK08775 homoserine O-acetyltransferase; Provisional
Probab=90.16 E-value=0.2 Score=36.65 Aligned_cols=30 Identities=10% Similarity=-0.012 Sum_probs=25.8
Q ss_pred CeeEEEeeecC-CcccCCCCChHHHHHHHHhhC
Q 044357 62 PLTFFKEQLHD-ACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 62 ~ltf~~~~V~~-AGH~vP~dqP~~~~~m~~~f~ 93 (93)
+-.+.. |.+ |||+++.++|+....++..|+
T Consensus 306 ~a~l~~--i~~~aGH~~~lE~Pe~~~~~l~~FL 336 (343)
T PRK08775 306 RGSLRV--LRSPYGHDAFLKETDRIDAILTTAL 336 (343)
T ss_pred CCeEEE--EeCCccHHHHhcCHHHHHHHHHHHH
Confidence 456777 874 999999999999999999885
No 27
>PRK03592 haloalkane dehalogenase; Provisional
Probab=90.12 E-value=0.2 Score=35.43 Aligned_cols=30 Identities=17% Similarity=0.368 Sum_probs=25.7
Q ss_pred CeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 62 PLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 62 ~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
+.++.. +.+|||+++.++|+...+.+..|+
T Consensus 257 ~~~~~~--i~~~gH~~~~e~p~~v~~~i~~fl 286 (295)
T PRK03592 257 QLEITV--FGAGLHFAQEDSPEEIGAAIAAWL 286 (295)
T ss_pred hcceee--ccCcchhhhhcCHHHHHHHHHHHH
Confidence 456777 899999999999999988888774
No 28
>PLN02965 Probable pheophorbidase
Probab=89.67 E-value=0.34 Score=33.64 Aligned_cols=31 Identities=23% Similarity=0.263 Sum_probs=26.3
Q ss_pred CCeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 61 GPLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 61 ~~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
.+-++.. +.+|||+...++|+....++.+|+
T Consensus 220 ~~a~~~~--i~~~GH~~~~e~p~~v~~~l~~~~ 250 (255)
T PLN02965 220 PPAQTYV--LEDSDHSAFFSVPTTLFQYLLQAV 250 (255)
T ss_pred CcceEEE--ecCCCCchhhcCHHHHHHHHHHHH
Confidence 3456777 899999999999999999998874
No 29
>PRK07581 hypothetical protein; Validated
Probab=89.49 E-value=0.36 Score=35.04 Aligned_cols=30 Identities=10% Similarity=0.156 Sum_probs=26.2
Q ss_pred CeeEEEeeecC-CcccCCCCChHHHHHHHHhhC
Q 044357 62 PLTFFKEQLHD-ACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 62 ~ltf~~~~V~~-AGH~vP~dqP~~~~~m~~~f~ 93 (93)
+..+.. |.+ |||+++.++|.....++++|+
T Consensus 303 ~a~l~~--i~~~~GH~~~~~~~~~~~~~~~~~~ 333 (339)
T PRK07581 303 NAELRP--IESIWGHLAGFGQNPADIAFIDAAL 333 (339)
T ss_pred CCeEEE--eCCCCCccccccCcHHHHHHHHHHH
Confidence 356778 998 999999999999999999885
No 30
>PRK14875 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional
Probab=87.81 E-value=0.61 Score=33.83 Aligned_cols=31 Identities=16% Similarity=0.274 Sum_probs=27.1
Q ss_pred CCeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 61 GPLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 61 ~~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
.+.++.. +.++||+...++|+...+.+..|+
T Consensus 338 ~~~~~~~--~~~~gH~~~~e~p~~~~~~i~~fl 368 (371)
T PRK14875 338 DGVAVHV--LPGAGHMPQMEAAADVNRLLAEFL 368 (371)
T ss_pred CCCeEEE--eCCCCCChhhhCHHHHHHHHHHHh
Confidence 3567788 999999999999999999998875
No 31
>KOG1454 consensus Predicted hydrolase/acyltransferase (alpha/beta hydrolase superfamily) [General function prediction only]
Probab=87.77 E-value=0.62 Score=34.62 Aligned_cols=32 Identities=16% Similarity=0.363 Sum_probs=29.1
Q ss_pred eCCeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 60 HGPLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 60 ~~~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
..|+.+.. |.+|||.+..+.|++....+..|+
T Consensus 290 ~pn~~~~~--I~~~gH~~h~e~Pe~~~~~i~~Fi 321 (326)
T KOG1454|consen 290 LPNAELVE--IPGAGHLPHLERPEEVAALLRSFI 321 (326)
T ss_pred CCCceEEE--eCCCCcccccCCHHHHHHHHHHHH
Confidence 46789999 999999999999999999998885
No 32
>TIGR01392 homoserO_Ac_trn homoserine O-acetyltransferase. This family describes homoserine-O-acetyltransferase, an enzyme of methionine biosynthesis. This model has been rebuilt to identify sequences more broadly, including a number of sequences suggested to be homoserine O-acetyltransferase based on proximity to other Met biosynthesis genes.
Probab=87.46 E-value=0.55 Score=34.49 Aligned_cols=28 Identities=7% Similarity=0.224 Sum_probs=23.3
Q ss_pred eEEEeee-cCCcccCCCCChHHHHHHHHhhC
Q 044357 64 TFFKEQL-HDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 64 tf~~~~V-~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
+|+. | .+|||+++.++|+...+.+.+|+
T Consensus 322 ~~~~--i~~~~GH~~~le~p~~~~~~l~~FL 350 (351)
T TIGR01392 322 TYVE--IESPYGHDAFLVETDQVEELIRGFL 350 (351)
T ss_pred EEEE--eCCCCCcchhhcCHHHHHHHHHHHh
Confidence 3445 5 48999999999999999999885
No 33
>TIGR02240 PHA_depoly_arom poly(3-hydroxyalkanoate) depolymerase. This family consists of the polyhydroxyalkanoic acid (PHA) depolymerase of Pseudomonas oleovorans, Pseudomonas putida BM01, and related species. This enzyme is part of polyester storage and mobilization system as in many bacteria. However, species containing this enzyme are unusual in their capacity to produce aromatic polyesters when grown on carbon sources such as benzoic acid or phenylacetic acid.
Probab=86.22 E-value=0.75 Score=32.24 Aligned_cols=30 Identities=7% Similarity=0.228 Sum_probs=24.6
Q ss_pred CCeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 61 GPLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 61 ~~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
.+.++.. +. +||+.+.++|+.....+.+|+
T Consensus 234 ~~~~~~~--i~-~gH~~~~e~p~~~~~~i~~fl 263 (276)
T TIGR02240 234 PNAELHI--ID-DGHLFLITRAEAVAPIIMKFL 263 (276)
T ss_pred CCCEEEE--Ec-CCCchhhccHHHHHHHHHHHH
Confidence 4566777 75 599999999999999988874
No 34
>PLN02578 hydrolase
Probab=86.15 E-value=0.98 Score=33.30 Aligned_cols=30 Identities=23% Similarity=0.364 Sum_probs=25.2
Q ss_pred CCeeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 61 GPLTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 61 ~~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
.+..++. + ++||+.+.++|++..+.+..|+
T Consensus 323 p~a~l~~--i-~~GH~~~~e~p~~~~~~I~~fl 352 (354)
T PLN02578 323 PDTTLVN--L-QAGHCPHDEVPEQVNKALLEWL 352 (354)
T ss_pred CCCEEEE--e-CCCCCccccCHHHHHHHHHHHH
Confidence 3456677 7 7999999999999999999885
No 35
>PLN02894 hydrolase, alpha/beta fold family protein
Probab=85.75 E-value=0.69 Score=35.07 Aligned_cols=28 Identities=14% Similarity=0.184 Sum_probs=23.3
Q ss_pred eeEEEeeecCCcccCCCCChHHHHHHHHhh
Q 044357 63 LTFFKEQLHDACHMVPVDQPKASLQMLQSW 92 (93)
Q Consensus 63 ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f 92 (93)
..+.. |.+|||+++.|+|+.-.+.+.+|
T Consensus 354 ~~~~~--i~~aGH~~~~E~P~~f~~~l~~~ 381 (402)
T PLN02894 354 CEIIR--VPQGGHFVFLDNPSGFHSAVLYA 381 (402)
T ss_pred CcEEE--eCCCCCeeeccCHHHHHHHHHHH
Confidence 45788 99999999999998877766654
No 36
>KOG4409 consensus Predicted hydrolase/acyltransferase (alpha/beta hydrolase superfamily) [General function prediction only]
Probab=83.75 E-value=1.7 Score=33.22 Aligned_cols=66 Identities=15% Similarity=0.153 Sum_probs=42.0
Q ss_pred chhhhHHHHHhcCceEEEEecc--eeeecCccccccCCcEeEEECCEeeeEEEeeCCeeEEEeeecCCcccCCCCChHHH
Q 044357 8 HLEVGIPALLEDGIRVLIYAGG--AIEWFGRKDVVAAPTVLFKVDGEEAWQMKSHGPLTFFKEQLHDACHMVPVDQPKAS 85 (93)
Q Consensus 8 ~~~~~l~~Ll~~girVLiy~Gd--~l~w~g~~~f~~~~~~~w~~~~~~~G~~k~~~~ltf~~~~V~~AGH~vP~dqP~~~ 85 (93)
|+++.+.+| +..++|++..|+ =|+|.+...-.+.- . ...-.... |.+|||.|=.|+|+.=
T Consensus 292 Pm~~r~~~l-~~~~pv~fiyG~~dWmD~~~g~~~~~~~-----~----------~~~~~~~~--v~~aGHhvylDnp~~F 353 (365)
T KOG4409|consen 292 PMIQRLREL-KKDVPVTFIYGDRDWMDKNAGLEVTKSL-----M----------KEYVEIII--VPGAGHHVYLDNPEFF 353 (365)
T ss_pred hHHHHHHhh-ccCCCEEEEecCcccccchhHHHHHHHh-----h----------cccceEEE--ecCCCceeecCCHHHH
Confidence 344444443 346999999998 66776655443321 0 01124567 9999999999999865
Q ss_pred HHHHHh
Q 044357 86 LQMLQS 91 (93)
Q Consensus 86 ~~m~~~ 91 (93)
-+.+..
T Consensus 354 n~~v~~ 359 (365)
T KOG4409|consen 354 NQIVLE 359 (365)
T ss_pred HHHHHH
Confidence 555543
No 37
>PRK00175 metX homoserine O-acetyltransferase; Provisional
Probab=83.06 E-value=1.1 Score=33.49 Aligned_cols=28 Identities=4% Similarity=0.106 Sum_probs=24.0
Q ss_pred eEEEeeec-CCcccCCCCChHHHHHHHHhhC
Q 044357 64 TFFKEQLH-DACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 64 tf~~~~V~-~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
+++. |. ++||+.+.++|+...+.+.+|+
T Consensus 343 ~l~~--i~~~~GH~~~le~p~~~~~~L~~FL 371 (379)
T PRK00175 343 SYAE--IDSPYGHDAFLLDDPRYGRLVRAFL 371 (379)
T ss_pred EEEE--eCCCCCchhHhcCHHHHHHHHHHHH
Confidence 5677 75 8999999999999888888875
No 38
>PF12697 Abhydrolase_6: Alpha/beta hydrolase family; PDB: 3LLC_A 3A2N_E 3A2M_A 3A2L_A 3AFI_F 3C5V_A 3C5W_P 3E0X_A 2ZJF_A 3QYJ_A ....
Probab=81.64 E-value=0.85 Score=29.44 Aligned_cols=23 Identities=17% Similarity=0.278 Sum_probs=19.0
Q ss_pred CeeEEEeeecCCcccCCCCChHHHH
Q 044357 62 PLTFFKEQLHDACHMVPVDQPKASL 86 (93)
Q Consensus 62 ~ltf~~~~V~~AGH~vP~dqP~~~~ 86 (93)
+..+.. +.++||+++.++|++..
T Consensus 204 ~~~~~~--~~~~gH~~~~~~p~~~~ 226 (228)
T PF12697_consen 204 NAELVV--IPGAGHFLFLEQPDEVA 226 (228)
T ss_dssp TEEEEE--ETTSSSTHHHHSHHHHH
T ss_pred CCEEEE--ECCCCCccHHHCHHHHh
Confidence 346788 99999999999998643
No 39
>PRK05855 short chain dehydrogenase; Validated
Probab=79.36 E-value=2.1 Score=32.80 Aligned_cols=28 Identities=18% Similarity=0.343 Sum_probs=22.2
Q ss_pred eeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 63 LTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 63 ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
..+.. + ++||+.+.+.|+...+.+..|+
T Consensus 262 ~~~~~--~-~~gH~~~~e~p~~~~~~i~~fl 289 (582)
T PRK05855 262 LWRRE--I-KAGHWLPMSHPQVLAAAVAEFV 289 (582)
T ss_pred ceEEE--c-cCCCcchhhChhHHHHHHHHHH
Confidence 34444 5 5899999999999888888874
No 40
>PLN02385 hydrolase; alpha/beta fold family protein
Probab=79.29 E-value=2 Score=31.50 Aligned_cols=30 Identities=23% Similarity=0.393 Sum_probs=23.1
Q ss_pred CeeEEEeeecCCcccCCCCChHH----HHHHHHhhC
Q 044357 62 PLTFFKEQLHDACHMVPVDQPKA----SLQMLQSWM 93 (93)
Q Consensus 62 ~ltf~~~~V~~AGH~vP~dqP~~----~~~m~~~f~ 93 (93)
+-++.. +.++||+...++|+. .++.+.+|+
T Consensus 309 ~~~l~~--i~~~gH~l~~e~p~~~~~~v~~~i~~wL 342 (349)
T PLN02385 309 DKKLKL--YEDAYHSILEGEPDEMIFQVLDDIISWL 342 (349)
T ss_pred CceEEE--eCCCeeecccCCChhhHHHHHHHHHHHH
Confidence 356788 999999999999986 555566663
No 41
>PLN02980 2-oxoglutarate decarboxylase/ hydro-lyase/ magnesium ion binding / thiamin pyrophosphate binding
Probab=77.86 E-value=1.7 Score=38.88 Aligned_cols=29 Identities=14% Similarity=0.468 Sum_probs=26.4
Q ss_pred eeEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 63 LTFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 63 ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
..++. |.+|||+++.++|+...+.+.+|+
T Consensus 1608 a~lvv--I~~aGH~~~lE~Pe~f~~~I~~FL 1636 (1655)
T PLN02980 1608 IEIVE--IPNCGHAVHLENPLPVIRALRKFL 1636 (1655)
T ss_pred eEEEE--ECCCCCchHHHCHHHHHHHHHHHH
Confidence 46788 999999999999999999999885
No 42
>PRK06765 homoserine O-acetyltransferase; Provisional
Probab=75.85 E-value=3.3 Score=31.53 Aligned_cols=30 Identities=10% Similarity=0.124 Sum_probs=25.8
Q ss_pred CeeEEEeeecC-CcccCCCCChHHHHHHHHhhC
Q 044357 62 PLTFFKEQLHD-ACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 62 ~ltf~~~~V~~-AGH~vP~dqP~~~~~m~~~f~ 93 (93)
+.++.. |.+ +||+.+.++|+.....+.+|+
T Consensus 355 ~a~l~~--I~s~~GH~~~le~p~~~~~~I~~FL 385 (389)
T PRK06765 355 YAEVYE--IESINGHMAGVFDIHLFEKKIYEFL 385 (389)
T ss_pred CeEEEE--ECCCCCcchhhcCHHHHHHHHHHHH
Confidence 456777 885 999999999999999998885
No 43
>PHA02857 monoglyceride lipase; Provisional
Probab=74.37 E-value=3.5 Score=28.63 Aligned_cols=46 Identities=13% Similarity=0.064 Sum_probs=30.3
Q ss_pred CceEEEEecc---eeeecCccccccCCcEeEEECCEeeeEEEeeCCeeEEEeeecCCcccCCCCChH
Q 044357 20 GIRVLIYAGG---AIEWFGRKDVVAAPTVLFKVDGEEAWQMKSHGPLTFFKEQLHDACHMVPVDQPK 83 (93)
Q Consensus 20 girVLiy~Gd---~l~w~g~~~f~~~~~~~w~~~~~~~G~~k~~~~ltf~~~~V~~AGH~vP~dqP~ 83 (93)
.++|||..|+ .++....+.+.+.-. .+-++.. +.++||++..++|+
T Consensus 209 ~~Pvliv~G~~D~i~~~~~~~~l~~~~~----------------~~~~~~~--~~~~gH~~~~e~~~ 257 (276)
T PHA02857 209 KTPILILQGTNNEISDVSGAYYFMQHAN----------------CNREIKI--YEGAKHHLHKETDE 257 (276)
T ss_pred CCCEEEEecCCCCcCChHHHHHHHHHcc----------------CCceEEE--eCCCcccccCCchh
Confidence 5778888887 555555544433200 0235677 99999999999884
No 44
>PF05414 DUF1717: Viral domain of unknown function (DUF1717); InterPro: IPR008745 The domain is found towards the N terminus of the polyprotein of Apple stem grooving virus (strain P-209) (ASGV), Citrus tatter leaf virus and from Apple stem grooving virus (strain Korea) (ASGV) (Pear black necrotic leaf spot virus). Its function is unknown [, ].
Probab=73.78 E-value=3.4 Score=25.53 Aligned_cols=11 Identities=55% Similarity=0.739 Sum_probs=10.1
Q ss_pred cCceEEEEecc
Q 044357 19 DGIRVLIYAGG 29 (93)
Q Consensus 19 ~girVLiy~Gd 29 (93)
-|+||+||.||
T Consensus 39 lgyrVhiyyGd 49 (101)
T PF05414_consen 39 LGYRVHIYYGD 49 (101)
T ss_pred cccEEEEEecc
Confidence 38999999999
No 45
>TIGR03100 hydr1_PEP hydrolase, ortholog 1, exosortase system type 1 associated. This group of proteins are members of the alpha/beta hydrolase superfamily. These proteins are generally found in genomes containing the exosortase/PEP-CTERM protein expoert system, specifically the type 1 variant of this system described by the Genome Property GenProp0652. When found in this context they are invariably present in the vicinity of a second, relatively unrelated enzyme (ortholog 2, TIGR03101) of the same superfamily.
Probab=72.70 E-value=3.5 Score=29.27 Aligned_cols=31 Identities=10% Similarity=0.065 Sum_probs=25.0
Q ss_pred CCeeEEEeeecCCcccC-CCCChHHHHHHHHhhC
Q 044357 61 GPLTFFKEQLHDACHMV-PVDQPKASLQMLQSWM 93 (93)
Q Consensus 61 ~~ltf~~~~V~~AGH~v-P~dqP~~~~~m~~~f~ 93 (93)
.+.+.++ +.+|||.+ +.+.++...+.+.+|+
T Consensus 241 ~~v~~~~--~~~~~H~l~~e~~~~~v~~~i~~wL 272 (274)
T TIGR03100 241 PGIERVE--IDGADHTFSDRVWREWVAARTTEWL 272 (274)
T ss_pred CCeEEEe--cCCCCcccccHHHHHHHHHHHHHHH
Confidence 4567888 99999998 5666688888888885
No 46
>PRK06489 hypothetical protein; Provisional
Probab=71.75 E-value=4.4 Score=29.87 Aligned_cols=29 Identities=10% Similarity=0.043 Sum_probs=24.0
Q ss_pred CeeEEEeeecCC----cccCCCCChHHHHHHHHhhC
Q 044357 62 PLTFFKEQLHDA----CHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 62 ~ltf~~~~V~~A----GH~vP~dqP~~~~~m~~~f~ 93 (93)
+-.++. |.+| ||++. ++|+.....+.+|+
T Consensus 322 ~a~l~~--i~~a~~~~GH~~~-e~P~~~~~~i~~FL 354 (360)
T PRK06489 322 HGRLVL--IPASPETRGHGTT-GSAKFWKAYLAEFL 354 (360)
T ss_pred CCeEEE--ECCCCCCCCcccc-cCHHHHHHHHHHHH
Confidence 346788 9886 99986 89999999998885
No 47
>PLN03087 BODYGUARD 1 domain containing hydrolase; Provisional
Probab=68.90 E-value=5.8 Score=31.25 Aligned_cols=29 Identities=17% Similarity=0.123 Sum_probs=24.0
Q ss_pred eeEEEeeecCCcccCCC-CChHHHHHHHHhhC
Q 044357 63 LTFFKEQLHDACHMVPV-DQPKASLQMLQSWM 93 (93)
Q Consensus 63 ltf~~~~V~~AGH~vP~-dqP~~~~~m~~~f~ 93 (93)
-.+.. +.+|||+.+. ++|+.-...+..|.
T Consensus 447 a~l~v--I~~aGH~~~v~e~p~~fa~~L~~F~ 476 (481)
T PLN03087 447 ARVKV--IDDKDHITIVVGRQKEFARELEEIW 476 (481)
T ss_pred CEEEE--eCCCCCcchhhcCHHHHHHHHHHHh
Confidence 35577 9999999996 89998888888773
No 48
>COG0596 MhpC Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]
Probab=68.83 E-value=6.1 Score=25.32 Aligned_cols=27 Identities=19% Similarity=0.249 Sum_probs=22.1
Q ss_pred eeEEEeeecCCcccCCCCChHHHHHHHHh
Q 044357 63 LTFFKEQLHDACHMVPVDQPKASLQMLQS 91 (93)
Q Consensus 63 ltf~~~~V~~AGH~vP~dqP~~~~~m~~~ 91 (93)
..+.. +.++||....++|....+.+..
T Consensus 251 ~~~~~--~~~~gH~~~~~~p~~~~~~i~~ 277 (282)
T COG0596 251 ARLVV--IPGAGHFPHLEAPEAFAAALLA 277 (282)
T ss_pred ceEEE--eCCCCCcchhhcHHHHHHHHHH
Confidence 67888 9999999999999866555544
No 49
>PF00702 Hydrolase: haloacid dehalogenase-like hydrolase; InterPro: IPR005834 This group of hydrolase enzymes is structurally different from the alpha/beta hydrolase family (abhydrolase). This group includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. The structure consists of two domains. One is an inserted four helix bundle, which is the least well conserved region of the alignment, between residues 16 and 96 of HAD1_PSESP. The rest of the fold is composed of the core alpha/beta domain.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1TE2_A 3NAL_A 3NAM_A 3NAN_A 3A1D_B 3J09_A 3J08_A 2B8E_C 3A1E_A 2VOY_J ....
Probab=63.29 E-value=8.9 Score=25.36 Aligned_cols=22 Identities=32% Similarity=0.483 Sum_probs=19.6
Q ss_pred chhhhHHHHHhcCceEEEEecc
Q 044357 8 HLEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 8 ~~~~~l~~Ll~~girVLiy~Gd 29 (93)
.+.+.+.+|-++|+++.|.+||
T Consensus 131 ~~~~~l~~L~~~Gi~~~i~TGD 152 (215)
T PF00702_consen 131 GAKEALQELKEAGIKVAILTGD 152 (215)
T ss_dssp THHHHHHHHHHTTEEEEEEESS
T ss_pred hhhhhhhhhhccCcceeeeecc
Confidence 4778888888899999999999
No 50
>PLN02298 hydrolase, alpha/beta fold family protein
Probab=61.86 E-value=7.5 Score=27.98 Aligned_cols=20 Identities=15% Similarity=0.152 Sum_probs=16.9
Q ss_pred eeEEEeeecCCcccCCCCChHH
Q 044357 63 LTFFKEQLHDACHMVPVDQPKA 84 (93)
Q Consensus 63 ltf~~~~V~~AGH~vP~dqP~~ 84 (93)
-++.. +.++||++..++|..
T Consensus 282 ~~l~~--~~~a~H~~~~e~pd~ 301 (330)
T PLN02298 282 KTIKI--YDGMMHSLLFGEPDE 301 (330)
T ss_pred ceEEE--cCCcEeeeecCCCHH
Confidence 46778 999999999999864
No 51
>PF01624 MutS_I: MutS domain I C-terminus.; InterPro: IPR007695 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the N-terminal domain of proteins in the MutS family of DNA mismatch repair proteins, as well as closely related proteins. The N-terminal domain of MutS is responsible for mismatch recognition and forms a 6-stranded mixed beta-sheet surrounded by three alpha-helices, which is similar to the structure of tRNA endonuclease. Yeast MSH3 [], bacterial proteins involved in DNA mismatch repair, and the predicted protein product of the Rep-3 gene of mouse share extensive sequence similarity. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein.; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 1FW6_A 1EWQ_A 1EWR_B 1NNE_B 3THY_B 3THZ_B 3THW_B 3THX_B 2WTU_A 1OH7_A ....
Probab=58.84 E-value=13 Score=23.09 Aligned_cols=22 Identities=41% Similarity=0.540 Sum_probs=16.7
Q ss_pred chhhhHHHHHhcCceEEEEecc
Q 044357 8 HLEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 8 ~~~~~l~~Ll~~girVLiy~Gd 29 (93)
.....++.|+++|++|.||.-.
T Consensus 65 ~l~~~l~~Ll~~G~~V~i~~q~ 86 (113)
T PF01624_consen 65 QLDKYLKKLLEAGYRVAIYEQV 86 (113)
T ss_dssp GHHHHHHHHHHTT-EEEEEEE-
T ss_pred HHHHHHHHHHHcCCEEEEEEec
Confidence 3567889999999999999743
No 52
>PF00101 RuBisCO_small: Ribulose bisphosphate carboxylase, small chain; InterPro: IPR000894 RuBisCO (ribulose-1,5-bisphosphate carboxylase/oxygenase) is a bifunctional enzyme that catalyses both the carboxylation and oxygenation of ribulose-1,5-bisphosphate (RuBP) [], thus fixing carbon dioxide as the first step of the Calvin cycle. RuBisCO is the major protein in the stroma of chloroplasts, and in higher plants exists as a complex of 8 large and 8 small subunits. The function of the small subunit is unknown []. While the large subunit is coded for by a single gene, the small subunit is coded for by several different genes, which are distributed in a tissue specific manner. They are transcriptionally regulated by light receptor phytochrome [], which results in RuBisCO being more abundant during the day when it is required. The RuBisCo small subunit consists of a central four-stranded beta-sheet, with two helices packed against it [].; PDB: 1BWV_W 1IWA_P 3AXM_X 1WDD_S 3AXK_T 1IR2_K 1RBL_N 1UZH_J 1RSC_P 1UW9_C ....
Probab=58.70 E-value=23 Score=22.17 Aligned_cols=34 Identities=18% Similarity=0.223 Sum_probs=28.2
Q ss_pred hhhhHHHHHhcCceEEEEecceeeecCccccccCCcEeEE
Q 044357 9 LEVGIPALLEDGIRVLIYAGGAIEWFGRKDVVAAPTVLFK 48 (93)
Q Consensus 9 ~~~~l~~Ll~~girVLiy~Gd~l~w~g~~~f~~~~~~~w~ 48 (93)
+...|.+||++|.++ .+++.....|...-|+-|.
T Consensus 16 i~~Qv~~ll~qG~~i------~iE~ad~r~~r~~~W~mW~ 49 (99)
T PF00101_consen 16 IAKQVRYLLSQGWII------GIEHADPRRFRTSYWQMWK 49 (99)
T ss_dssp HHHHHHHHHHTT-EE------EEEEESCGGSTSSS-EEES
T ss_pred HHHHHHhhhhcCcee------eEEecCCCCCCCCEeecCC
Confidence 667889999999999 8889999999999999885
No 53
>COG4451 RbcS Ribulose bisphosphate carboxylase small subunit [Energy production and conversion]
Probab=53.06 E-value=18 Score=23.65 Aligned_cols=36 Identities=11% Similarity=0.326 Sum_probs=29.6
Q ss_pred chhhhHHHHHhcCceEEEEecceeeecCccccccCCcEeEEE
Q 044357 8 HLEVGIPALLEDGIRVLIYAGGAIEWFGRKDVVAAPTVLFKV 49 (93)
Q Consensus 8 ~~~~~l~~Ll~~girVLiy~Gd~l~w~g~~~f~~~~~~~w~~ 49 (93)
.+...|.+||++|+++ .+++.....|..--|+.|..
T Consensus 23 qi~~QVrylL~QGyki------gvE~~d~rrprtgsWt~wg~ 58 (127)
T COG4451 23 QIAEQVRYLLSQGYKI------GVEYVDDRRPRTGSWTMWGT 58 (127)
T ss_pred HHHHHHHHHHhCCccc------ceeecccCCcccceeeecCC
Confidence 3567889999999999 77888888888888888753
No 54
>cd03527 RuBisCO_small Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco Form I, present in plants and green algae, is composed of eight large and eight small subunits. The nearly identical small subunits are encoded by a family of nuclear genes. After translation, the small subunits are translocated across the chloroplast membrane, where an N-terminal signal peptide is cleaved off. While the large subunits contain the catalytic activities, it has been shown that the small subunits are important for catalysis by enhancing the catalytic rate through inducing conformational changes in the large subunits.
Probab=51.41 E-value=23 Score=22.19 Aligned_cols=36 Identities=11% Similarity=0.195 Sum_probs=30.2
Q ss_pred chhhhHHHHHhcCceEEEEecceeeecCccccccCCcEeEEE
Q 044357 8 HLEVGIPALLEDGIRVLIYAGGAIEWFGRKDVVAAPTVLFKV 49 (93)
Q Consensus 8 ~~~~~l~~Ll~~girVLiy~Gd~l~w~g~~~f~~~~~~~w~~ 49 (93)
.+...+.+||++|..+ .+++.....|.+.-|+.|..
T Consensus 16 ~i~~QI~yll~qG~~~------~lE~ad~~~~~~~yW~mwkl 51 (99)
T cd03527 16 QIAKQIDYIISNGWAP------CLEFTEPEHYDNRYWTMWKL 51 (99)
T ss_pred HHHHHHHHHHhCCCEE------EEEcccCCCCCCCEEeeccC
Confidence 3567789999999999 88888888899998888863
No 55
>PF00561 Abhydrolase_1: alpha/beta hydrolase fold A web page of Esterases and alpha/beta hydrolases.; InterPro: IPR000073 The alpha/beta hydrolase fold [] is common to a number of hydrolytic enzymes of widely differing phylogenetic origin and catalytic function. The core of each enzyme is an alpha/beta-sheet (rather than a barrel), containing 8 strands connected by helices []. The enzymes are believed to have diverged from a common ancestor, preserving the arrangement of the catalytic residues. All have a catalytic triad, the elements of which are borne on loops, which are the best conserved structural features of the fold. Esterase (EST) from Pseudomonas putida is a member of the alpha/beta hydrolase fold superfamily of enzymes []. In most of the family members the beta-strands are parallels, but some have an inversion of the first strands, which gives it an antiparallel orientation. The catalytic triad residues are presented on loops. One of these is the nucleophile elbow and is the most conserved feature of the fold. Some other members lack one or all of the catalytic residues. Some members are therefore inactive but others are involved in surface recognition. The ESTHER database [] gathers and annotates all the published information related to gene and protein sequences of this superfamily []. This entry represents fold-1 of alpha/beta hydrolase.; PDB: 2VAT_E 2VAX_C 2VAV_H 2PSJ_A 2PSH_B 2PSE_A 2PSF_A 2PSD_A 2EDA_A 1CIJ_A ....
Probab=50.57 E-value=12 Score=24.46 Aligned_cols=53 Identities=9% Similarity=0.080 Sum_probs=35.9
Q ss_pred cCceEEEEecc---eeeecCccccccCCcEeEEECCEeeeEEEeeCCeeEEEeeecCCcccCCCCChHHHHHHHH
Q 044357 19 DGIRVLIYAGG---AIEWFGRKDVVAAPTVLFKVDGEEAWQMKSHGPLTFFKEQLHDACHMVPVDQPKASLQMLQ 90 (93)
Q Consensus 19 ~girVLiy~Gd---~l~w~g~~~f~~~~~~~w~~~~~~~G~~k~~~~ltf~~~~V~~AGH~vP~dqP~~~~~m~~ 90 (93)
-.+++|+.+|+ .+++.....+.+. ..+-.+.. +.++||....+.|+...+++.
T Consensus 174 i~~p~l~i~~~~D~~~p~~~~~~~~~~-----------------~~~~~~~~--~~~~GH~~~~~~~~~~~~~i~ 229 (230)
T PF00561_consen 174 IKVPTLIIWGEDDPLVPPESSEQLAKL-----------------IPNSQLVL--IEGSGHFAFLEGPDEFNEIII 229 (230)
T ss_dssp TTSEEEEEEETTCSSSHHHHHHHHHHH-----------------STTEEEEE--ETTCCSTHHHHSHHHHHHHHH
T ss_pred cCCCeEEEEeCCCCCCCHHHHHHHHHh-----------------cCCCEEEE--CCCCChHHHhcCHHhhhhhhc
Confidence 46888888888 4444443332221 12234567 999999999999998887765
No 56
>PF03720 UDPG_MGDP_dh_C: UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; InterPro: IPR014027 The UDP-glucose/GDP-mannose dehydrogenases are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [, ]. The enzymes have a wide range of functions. In plants UDP-glucose dehydrogenase, 1.1.1.22 from EC, is an important enzyme in the synthesis of hemicellulose and pectin [], which are the components of newly formed cell walls; while in zebrafish UDP-glucose dehydrogenase is required for cardiac valve formation []. In Xanthomonas campestris, a plant pathogen, UDP-glucose dehydrogenase is required for virulence []. GDP-mannose dehydrogenase, 1.1.1.132 from EC, catalyses the formation of GDP-mannuronic acid, which is the monomeric unit from which the exopolysaccharide alginate is formed. Alginate is secreted by a number of bacteria, which include Pseudomonas aeruginosa and Azotobacter vinelandii. In P. aeruginosa, alginate is believed to play an important role in the bacteria's resistance to antibiotics and the host immune response [], while in A. vinelandii it is essential for the encystment process []. This entry represents the C-terminal substrate-binding domain of these enzymes. Structural studies indicate that this domain forms an incomplete dinucleotide binding fold [, ].; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 3GG2_D 1DLI_A 1DLJ_A 2Y0E_D 2Y0D_B 2Y0C_D 1MV8_B 1MUU_A 1MFZ_C 3TDK_B ....
Probab=49.68 E-value=26 Score=21.43 Aligned_cols=21 Identities=29% Similarity=0.221 Sum_probs=16.5
Q ss_pred chhhhHHHHHhcCceEEEEec
Q 044357 8 HLEVGIPALLEDGIRVLIYAG 28 (93)
Q Consensus 8 ~~~~~l~~Ll~~girVLiy~G 28 (93)
++...+++|.+.|++|.+|-=
T Consensus 18 p~~~l~~~L~~~g~~V~~~DP 38 (106)
T PF03720_consen 18 PALELIEELKERGAEVSVYDP 38 (106)
T ss_dssp HHHHHHHHHHHTT-EEEEE-T
T ss_pred HHHHHHHHHHHCCCEEEEECC
Confidence 488899999999999999853
No 57
>cd01427 HAD_like Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others, all of which use a nucleophilic aspartate in their phosphoryl transfer reaction. All members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. Members of this superfamily are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.
Probab=47.68 E-value=29 Score=20.48 Aligned_cols=24 Identities=17% Similarity=0.303 Sum_probs=20.5
Q ss_pred ccchhhhHHHHHhcCceEEEEecc
Q 044357 6 MRHLEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 6 ~~~~~~~l~~Ll~~girVLiy~Gd 29 (93)
...+.+.+..|.++|+++.|.+|.
T Consensus 26 ~~~~~~~l~~l~~~g~~i~ivS~~ 49 (139)
T cd01427 26 YPGVKEALKELKEKGIKLALATNK 49 (139)
T ss_pred CcCHHHHHHHHHHCCCeEEEEeCc
Confidence 445778888999999999999997
No 58
>PLN02511 hydrolase
Probab=47.48 E-value=13 Score=27.91 Aligned_cols=22 Identities=18% Similarity=0.099 Sum_probs=18.5
Q ss_pred CCeeEEEeeecCCcccCCCCChHH
Q 044357 61 GPLTFFKEQLHDACHMVPVDQPKA 84 (93)
Q Consensus 61 ~~ltf~~~~V~~AGH~vP~dqP~~ 84 (93)
.+..++. +.++||+...++|..
T Consensus 326 p~~~l~~--~~~gGH~~~~E~p~~ 347 (388)
T PLN02511 326 PNCLLIV--TPSGGHLGWVAGPEA 347 (388)
T ss_pred CCEEEEE--CCCcceeccccCCCC
Confidence 5678888 999999999998853
No 59
>PRK10749 lysophospholipase L2; Provisional
Probab=46.66 E-value=19 Score=26.15 Aligned_cols=52 Identities=12% Similarity=0.054 Sum_probs=31.1
Q ss_pred CceEEEEecc---eeeecCccccccCCcEeEEECCEeeeEEEeeCCeeEEEeeecCCcccCCCCChH
Q 044357 20 GIRVLIYAGG---AIEWFGRKDVVAAPTVLFKVDGEEAWQMKSHGPLTFFKEQLHDACHMVPVDQPK 83 (93)
Q Consensus 20 girVLiy~Gd---~l~w~g~~~f~~~~~~~w~~~~~~~G~~k~~~~ltf~~~~V~~AGH~vP~dqP~ 83 (93)
.++|||..|+ .++..+.+.+.+.-.. +|. ...+.++.. +.+|||++..+.|.
T Consensus 259 ~~P~Lii~G~~D~vv~~~~~~~~~~~l~~--------~~~--~~~~~~l~~--~~gagH~~~~E~~~ 313 (330)
T PRK10749 259 TTPLLLLQAEEERVVDNRMHDRFCEARTA--------AGH--PCEGGKPLV--IKGAYHEILFEKDA 313 (330)
T ss_pred CCCEEEEEeCCCeeeCHHHHHHHHHHHhh--------cCC--CCCCceEEE--eCCCcchhhhCCcH
Confidence 4778888887 6666665555331000 000 011235678 99999999988873
No 60
>PLN02652 hydrolase; alpha/beta fold family protein
Probab=42.42 E-value=24 Score=26.82 Aligned_cols=56 Identities=9% Similarity=0.169 Sum_probs=35.8
Q ss_pred CceEEEEecc---eeeecCccccccC-CcEeEEECCEeeeEEEeeCCeeEEEeeecCCcccCCCC-ChHHHHHHHHhhC
Q 044357 20 GIRVLIYAGG---AIEWFGRKDVVAA-PTVLFKVDGEEAWQMKSHGPLTFFKEQLHDACHMVPVD-QPKASLQMLQSWM 93 (93)
Q Consensus 20 girVLiy~Gd---~l~w~g~~~f~~~-~~~~w~~~~~~~G~~k~~~~ltf~~~~V~~AGH~vP~d-qP~~~~~m~~~f~ 93 (93)
.+++||.+|+ .++....+.+.+. .. .+-++.. +.+++|++..+ .|+...+-+..|+
T Consensus 324 ~vPvLIi~G~~D~vvp~~~a~~l~~~~~~----------------~~k~l~~--~~ga~H~l~~e~~~e~v~~~I~~FL 384 (395)
T PLN02652 324 TVPFMVLHGTADRVTDPLASQDLYNEAAS----------------RHKDIKL--YDGFLHDLLFEPEREEVGRDIIDWM 384 (395)
T ss_pred CCCEEEEEeCCCCCCCHHHHHHHHHhcCC----------------CCceEEE--ECCCeEEeccCCCHHHHHHHHHHHH
Confidence 5788888886 4555544444221 10 0113456 89999999776 7888888888775
No 61
>PLN02211 methyl indole-3-acetate methyltransferase
Probab=42.19 E-value=36 Score=24.08 Aligned_cols=26 Identities=15% Similarity=0.181 Sum_probs=21.3
Q ss_pred eEEEeeecCCcccCCCCChHHHHHHHHhh
Q 044357 64 TFFKEQLHDACHMVPVDQPKASLQMLQSW 92 (93)
Q Consensus 64 tf~~~~V~~AGH~vP~dqP~~~~~m~~~f 92 (93)
..+. + .+||+....+|+..-+++.++
T Consensus 241 ~~~~--l-~~gH~p~ls~P~~~~~~i~~~ 266 (273)
T PLN02211 241 QVYE--L-ESDHSPFFSTPFLLFGLLIKA 266 (273)
T ss_pred EEEE--E-CCCCCccccCHHHHHHHHHHH
Confidence 5667 7 499999999999988887653
No 62
>KOG2564 consensus Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]
Probab=38.09 E-value=31 Score=26.16 Aligned_cols=30 Identities=23% Similarity=0.297 Sum_probs=23.5
Q ss_pred CCeeEEEeeecCCcccCCCCChHHHHHHHHhh
Q 044357 61 GPLTFFKEQLHDACHMVPVDQPKASLQMLQSW 92 (93)
Q Consensus 61 ~~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f 92 (93)
|.+.+.. ....||.|..|.|...-..+-.|
T Consensus 294 Gk~Q~~v--L~~~GH~v~ED~P~kva~~~~~f 323 (343)
T KOG2564|consen 294 GKFQLQV--LPLCGHFVHEDSPHKVAECLCVF 323 (343)
T ss_pred cceeeee--ecccCceeccCCcchHHHHHHHH
Confidence 5678888 99999999999997655544433
No 63
>KOG3275 consensus Zinc-binding protein of the histidine triad (HIT) family [Signal transduction mechanisms]
Probab=34.79 E-value=21 Score=23.39 Aligned_cols=12 Identities=50% Similarity=0.722 Sum_probs=10.6
Q ss_pred hcCceEEEEecc
Q 044357 18 EDGIRVLIYAGG 29 (93)
Q Consensus 18 ~~girVLiy~Gd 29 (93)
++||||++=||.
T Consensus 92 ~~gYrvv~NnG~ 103 (127)
T KOG3275|consen 92 EDGYRVVQNNGK 103 (127)
T ss_pred ccceeEEEcCCc
Confidence 468999999998
No 64
>PF05576 Peptidase_S37: PS-10 peptidase S37; InterPro: IPR008761 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. These group of serine peptidases belong to MEROPS peptidase family S37 (clan SC). The members of this group of secreted peptidases are restricted to bacteria. In Streptomyces lividans the peptidase removes tripeptides from the N terminus of extracellular proteins (tripeptidyl aminopeptidase,Tap) [, ].
Probab=34.42 E-value=1.8e+02 Score=23.10 Aligned_cols=66 Identities=17% Similarity=0.229 Sum_probs=40.2
Q ss_pred hhhhHHHHH-hcCceEEEEecceeeecCccccccCCcEeEEECCEeeeEEEeeCCeeEEEeeecCCcccC-----CCCCh
Q 044357 9 LEVGIPALL-EDGIRVLIYAGGAIEWFGRKDVVAAPTVLFKVDGEEAWQMKSHGPLTFFKEQLHDACHMV-----PVDQP 82 (93)
Q Consensus 9 ~~~~l~~Ll-~~girVLiy~Gd~l~w~g~~~f~~~~~~~w~~~~~~~G~~k~~~~ltf~~~~V~~AGH~v-----P~dqP 82 (93)
....|..-+ +++-|+|+.+|++=+|....--.... ..+-...+ ++++.|.+ |.++.
T Consensus 339 am~dI~~Wvr~~~~rmlFVYG~nDPW~A~~f~l~~g----------------~~ds~v~~--~PggnHga~I~~L~~~~r 400 (448)
T PF05576_consen 339 AMRDIDRWVRNNGPRMLFVYGENDPWSAEPFRLGKG----------------KRDSYVFT--APGGNHGARIAGLPEAER 400 (448)
T ss_pred HHHHHHHHHHhCCCeEEEEeCCCCCcccCccccCCC----------------CcceEEEE--cCCCcccccccCCCHHHH
Confidence 344455444 47899999999977776542211111 11223355 78888874 34566
Q ss_pred HHHHHHHHhh
Q 044357 83 KASLQMLQSW 92 (93)
Q Consensus 83 ~~~~~m~~~f 92 (93)
..|..+|++|
T Consensus 401 ~~a~a~l~~W 410 (448)
T PF05576_consen 401 AEATARLRRW 410 (448)
T ss_pred HHHHHHHHHH
Confidence 7888888887
No 65
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=34.03 E-value=41 Score=20.93 Aligned_cols=21 Identities=24% Similarity=0.332 Sum_probs=13.3
Q ss_pred cchhhhHHHHHhcCceEEEEe
Q 044357 7 RHLEVGIPALLEDGIRVLIYA 27 (93)
Q Consensus 7 ~~~~~~l~~Ll~~girVLiy~ 27 (93)
.+..+.+..|-+.|.+|.+..
T Consensus 106 ~Df~~~v~~l~~~g~~V~v~~ 126 (146)
T PF01936_consen 106 SDFAPLVRKLRERGKRVIVVG 126 (146)
T ss_dssp GGGHHHHHHHHHH--EEEEEE
T ss_pred HHHHHHHHHHHHcCCEEEEEE
Confidence 456677777777777777765
No 66
>PRK11460 putative hydrolase; Provisional
Probab=33.99 E-value=42 Score=23.25 Aligned_cols=29 Identities=17% Similarity=0.093 Sum_probs=20.7
Q ss_pred CeeEEEeeecCCcccCCCCChHHHHHHHHhh
Q 044357 62 PLTFFKEQLHDACHMVPVDQPKASLQMLQSW 92 (93)
Q Consensus 62 ~ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f 92 (93)
+.++.. ++++||.++.+.-+.+.+.+.++
T Consensus 180 ~~~~~~--~~~~gH~i~~~~~~~~~~~l~~~ 208 (232)
T PRK11460 180 DVTLDI--VEDLGHAIDPRLMQFALDRLRYT 208 (232)
T ss_pred CeEEEE--ECCCCCCCCHHHHHHHHHHHHHH
Confidence 467788 89999999866656665555544
No 67
>smart00728 ChW Clostridial hydrophobic, with a conserved W residue, domain.
Probab=33.61 E-value=35 Score=18.27 Aligned_cols=25 Identities=16% Similarity=-0.052 Sum_probs=18.4
Q ss_pred cccCCcEeEEECCEeeeEEEeeCCe
Q 044357 39 VVAAPTVLFKVDGEEAWQMKSHGPL 63 (93)
Q Consensus 39 f~~~~~~~w~~~~~~~G~~k~~~~l 63 (93)
..+..|++|..||+++|..-....+
T Consensus 3 Vqn~GW~~~v~~G~~aGT~G~~lri 27 (46)
T smart00728 3 VQNIGWQNWVSDGAIAGTVGQGLRI 27 (46)
T ss_pred CccCcccccccCCeEcccCCCCcee
Confidence 3567899999999999876554443
No 68
>PF09456 RcsC: RcsC Alpha-Beta-Loop (ABL); InterPro: IPR019017 This domain is found in the C terminus of the signal transduction response regulator (phospho-relay) kinase RcsC, between the ATP-binding region (IPR003594 from INTERPRO) and the receiver region (IPR001789 from INTERPRO). This domain forms a discrete alpha/beta/loop structure []. The Rcs signalling pathway controls a variety of physiological functions like capsule synthesis, cell division or motility in prokaryotes. The Rcs regulation cascade, involving a multi-step phosphorelay between the two membrane-bound hybrid sensor kinases RcsC and RcsD and the global regulator RcsB, is, up to now, one of the most complicated regulatory systems in bacteria []. ; GO: 0004673 protein histidine kinase activity, 0004871 signal transducer activity, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent, 0018106 peptidyl-histidine phosphorylation, 0005886 plasma membrane, 0016021 integral to membrane; PDB: 2AYY_A 2AYX_A.
Probab=32.52 E-value=41 Score=20.78 Aligned_cols=21 Identities=38% Similarity=0.558 Sum_probs=15.9
Q ss_pred hhhhHHHHHh-cCceEEEEecc
Q 044357 9 LEVGIPALLE-DGIRVLIYAGG 29 (93)
Q Consensus 9 ~~~~l~~Ll~-~girVLiy~Gd 29 (93)
...+|..||. +|+.|.-|.|+
T Consensus 11 Le~yL~~lL~~~G~~v~~y~~q 32 (92)
T PF09456_consen 11 LESYLQRLLSYHGFQVQRYEGQ 32 (92)
T ss_dssp HHHHHHHHHCTTTEEEEE-SS-
T ss_pred HHHHHHHHHHHCCcEEEEecCC
Confidence 4567888886 79999999998
No 69
>smart00775 LNS2 LNS2 domain. This domain is found in Saccharomyces cerevisiae protein SMP2, proteins with an N-terminal lipin domain and phosphatidylinositol transfer proteins. SMP2 is involved in plasmid maintenance and respiration. Lipin proteins are involved in adipose tissue development and insulin resistance.
Probab=32.41 E-value=68 Score=21.13 Aligned_cols=26 Identities=15% Similarity=0.399 Sum_probs=20.7
Q ss_pred ccccc-hhhhHHHHHhcCceEEEEecc
Q 044357 4 DWMRH-LEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 4 D~~~~-~~~~l~~Ll~~girVLiy~Gd 29 (93)
|+..+ +...+..|-++|++|++-+|-
T Consensus 26 ~~~~~~~~~a~~~l~~~G~~ivy~TGR 52 (157)
T smart00775 26 DWTHPGVAKLYRDIQNNGYKILYLTAR 52 (157)
T ss_pred CcCCHHHHHHHHHHHHcCCeEEEEcCC
Confidence 44443 667888888899999999998
No 70
>KOG2551 consensus Phospholipase/carboxyhydrolase [Amino acid transport and metabolism]
Probab=32.34 E-value=46 Score=24.05 Aligned_cols=16 Identities=25% Similarity=0.289 Sum_probs=12.6
Q ss_pred EEEeeecCCcccCCCCCh
Q 044357 65 FFKEQLHDACHMVPVDQP 82 (93)
Q Consensus 65 f~~~~V~~AGH~vP~dqP 82 (93)
.+. ...+||+||.-.|
T Consensus 193 ~vl--~HpggH~VP~~~~ 208 (230)
T KOG2551|consen 193 TVL--EHPGGHIVPNKAK 208 (230)
T ss_pred eEE--ecCCCccCCCchH
Confidence 455 6789999998665
No 71
>PRK10566 esterase; Provisional
Probab=32.22 E-value=42 Score=22.74 Aligned_cols=27 Identities=15% Similarity=0.166 Sum_probs=17.2
Q ss_pred CeeEEEeeecCCcccCCCCChHHHHHHHH
Q 044357 62 PLTFFKEQLHDACHMVPVDQPKASLQMLQ 90 (93)
Q Consensus 62 ~ltf~~~~V~~AGH~vP~dqP~~~~~m~~ 90 (93)
++++.+ ..++||.+..+.=..+.+.++
T Consensus 220 ~~~~~~--~~~~~H~~~~~~~~~~~~fl~ 246 (249)
T PRK10566 220 NLTCLW--EPGVRHRITPEALDAGVAFFR 246 (249)
T ss_pred ceEEEe--cCCCCCccCHHHHHHHHHHHH
Confidence 478888 999999976333333333333
No 72
>PF14877 mIF3: Mitochondrial translation initiation factor
Probab=31.68 E-value=43 Score=23.28 Aligned_cols=26 Identities=27% Similarity=0.307 Sum_probs=20.4
Q ss_pred ccccchhhhHHHHHhcCceEEEEecc
Q 044357 4 DWMRHLEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 4 D~~~~~~~~l~~Ll~~girVLiy~Gd 29 (93)
|....=...+...|+.|-+|+||-||
T Consensus 141 DL~~QK~~EI~~~LkKG~kv~iyi~d 166 (181)
T PF14877_consen 141 DLKNQKANEIEKRLKKGEKVNIYIDD 166 (181)
T ss_pred HHHHHHHHHHHHHHhCCCeEEEEEcC
Confidence 44444456678888999999999998
No 73
>PF03096 Ndr: Ndr family; InterPro: IPR004142 This family consists of proteins from different gene families: Ndr1/RTP/Drg1, Ndr2, and Ndr3. Their similarity was previously noted []. The precise molecular and cellular function of members of this family is still unknown, yet they are known to be involved in cellular differentiation events. The Ndr1 group was the first to be discovered. Their expression is repressed by the proto-oncogenes N-myc and c-myc, and in line with this observation, Ndr1 protein expression is down-regulated in neoplastic cells, and is reactivated when differentiation is induced by chemicals such as retinoic acid. Ndr2 and Ndr3 expression is not under the control of N-myc or c-myc. Ndr1 expression is also activated by several chemicals: tunicamycin and homocysteine induce Ndr1 in human umbilical endothelial cells; nickel induces Ndr1 in several cell types. Members of this family are found in wide variety of multicellular eukaryotes, including an Ndr1 type protein in Helianthus annuus (Common sunflower), known as Sf21. Interestingly, the highest scoring matches in the noise are all alpha/beta hydrolases (IPR000073 from INTERPRO), suggesting that this family may have an enzymatic function.; PDB: 2QMQ_A 2XMR_B 2XMQ_B 2XMS_A.
Probab=29.80 E-value=23 Score=26.20 Aligned_cols=28 Identities=21% Similarity=0.328 Sum_probs=20.8
Q ss_pred eeEEEeeecCCcccCCCCChHHHHHHHHhh
Q 044357 63 LTFFKEQLHDACHMVPVDQPKASLQMLQSW 92 (93)
Q Consensus 63 ltf~~~~V~~AGH~vP~dqP~~~~~m~~~f 92 (93)
-+++. |.++|=+|-.+||....+-|.=|
T Consensus 248 ttllk--v~dcGglV~eEqP~klaea~~lF 275 (283)
T PF03096_consen 248 TTLLK--VADCGGLVLEEQPGKLAEAFKLF 275 (283)
T ss_dssp EEEEE--ETT-TT-HHHH-HHHHHHHHHHH
T ss_pred ceEEE--ecccCCcccccCcHHHHHHHHHH
Confidence 46788 99999999999999887777655
No 74
>COG1004 Ugd Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]
Probab=29.59 E-value=59 Score=25.48 Aligned_cols=26 Identities=35% Similarity=0.252 Sum_probs=21.3
Q ss_pred cccc--chhhhHHHHHhcCceEEEEecc
Q 044357 4 DWMR--HLEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 4 D~~~--~~~~~l~~Ll~~girVLiy~Gd 29 (93)
|.+| ++++.++.|++.|.+|.+|-=.
T Consensus 325 DD~ReSpa~~vi~~L~~~Ga~V~aYDP~ 352 (414)
T COG1004 325 DDMRESPALDIIKRLQEKGAEVIAYDPV 352 (414)
T ss_pred ccchhchHHHHHHHHHHCCCEEEEECch
Confidence 5555 4889999999999999999644
No 75
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=28.88 E-value=61 Score=18.27 Aligned_cols=21 Identities=10% Similarity=0.023 Sum_probs=16.1
Q ss_pred hhhhHHHHHhcCceEEEEecc
Q 044357 9 LEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 9 ~~~~l~~Ll~~girVLiy~Gd 29 (93)
++..+..-+...-.|+||||=
T Consensus 17 tl~~lr~~~k~~~DI~I~NGF 37 (57)
T PF14453_consen 17 TLFELRKESKPDADIVILNGF 37 (57)
T ss_pred CHHHHHHhhCCCCCEEEEcCc
Confidence 456667777777889999985
No 76
>PF08645 PNK3P: Polynucleotide kinase 3 phosphatase; InterPro: IPR013954 Polynucleotide kinase 3 phosphatases play a role in the repair of single breaks in DNA induced by DNA-damaging agents such as gamma radiation and camptothecin []. ; PDB: 2FPW_A 2FPR_A 2FPX_A 2FPS_A 2FPU_B 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B 3U7G_A ....
Probab=28.71 E-value=80 Score=20.87 Aligned_cols=22 Identities=14% Similarity=0.314 Sum_probs=18.9
Q ss_pred chhhhHHHHHhcCceEEEEecc
Q 044357 8 HLEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 8 ~~~~~l~~Ll~~girVLiy~Gd 29 (93)
.+.+.|.+|.+.|++|+|.+=|
T Consensus 33 ~v~~~L~~l~~~Gy~IvIvTNQ 54 (159)
T PF08645_consen 33 GVPEALRELHKKGYKIVIVTNQ 54 (159)
T ss_dssp THHHHHHHHHHTTEEEEEEEE-
T ss_pred hHHHHHHHHHhcCCeEEEEeCc
Confidence 4888999999999999999966
No 77
>TIGR01607 PST-A Plasmodium subtelomeric family (PST-A). These genes are preferentially located in the subtelomeric regions of the chromosomes of both P. falciparum and P. yoelii.
Probab=27.96 E-value=93 Score=22.76 Aligned_cols=29 Identities=17% Similarity=0.490 Sum_probs=21.5
Q ss_pred eeEEEeeecCCcccCCCCC-hHHHHHHHHhhC
Q 044357 63 LTFFKEQLHDACHMVPVDQ-PKASLQMLQSWM 93 (93)
Q Consensus 63 ltf~~~~V~~AGH~vP~dq-P~~~~~m~~~f~ 93 (93)
-++.. +.+++|++..+. ++..++-+..|+
T Consensus 301 ~~l~~--~~g~~H~i~~E~~~~~v~~~i~~wL 330 (332)
T TIGR01607 301 KELHT--LEDMDHVITIEPGNEEVLKKIIEWI 330 (332)
T ss_pred cEEEE--ECCCCCCCccCCCHHHHHHHHHHHh
Confidence 45567 889999999875 566777676664
No 78
>PF15237 PTRF_SDPR: PTRF/SDPR family
Probab=27.91 E-value=43 Score=24.38 Aligned_cols=19 Identities=32% Similarity=0.571 Sum_probs=14.9
Q ss_pred HHHHh-cCceEEEEecc-eee
Q 044357 14 PALLE-DGIRVLIYAGG-AIE 32 (93)
Q Consensus 14 ~~Ll~-~girVLiy~Gd-~l~ 32 (93)
.+||. ++++||||.++ .|+
T Consensus 96 ~eLL~Rn~FkVlI~Qee~eiP 116 (246)
T PF15237_consen 96 AELLKRNKFKVLIFQEENEIP 116 (246)
T ss_pred HHHhhccCceEEeccccccCC
Confidence 47775 57999999999 444
No 79
>COG1832 Predicted CoA-binding protein [General function prediction only]
Probab=27.22 E-value=98 Score=20.69 Aligned_cols=39 Identities=21% Similarity=0.005 Sum_probs=26.4
Q ss_pred CCccccchhhhHHHHHhcCceEEEEecc--eeeecCccccc
Q 044357 2 QMDWMRHLEVGIPALLEDGIRVLIYAGG--AIEWFGRKDVV 40 (93)
Q Consensus 2 ~~D~~~~~~~~l~~Ll~~girVLiy~Gd--~l~w~g~~~f~ 40 (93)
+.+-.+++.....+|+++||+|+=.|=. .=.+.|.+.|.
T Consensus 25 S~~P~r~sy~V~kyL~~~GY~ViPVNP~~~~~eiLG~k~y~ 65 (140)
T COG1832 25 SDKPDRPSYRVAKYLQQKGYRVIPVNPKLAGEEILGEKVYP 65 (140)
T ss_pred CCCCCccHHHHHHHHHHCCCEEEeeCcccchHHhcCchhhh
Confidence 3455567777888999999999988753 22455555443
No 80
>COG4185 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.09 E-value=17 Score=25.28 Aligned_cols=14 Identities=21% Similarity=0.404 Sum_probs=11.6
Q ss_pred eecCCcccCCCCCh
Q 044357 69 QLHDACHMVPVDQP 82 (93)
Q Consensus 69 ~V~~AGH~vP~dqP 82 (93)
||...||.+|.|.=
T Consensus 117 RVa~GGH~IpED~I 130 (187)
T COG4185 117 RVAKGGHDIPEDKI 130 (187)
T ss_pred HHhcCCCCCcHHHH
Confidence 57788999999864
No 81
>COG4569 MhpF Acetaldehyde dehydrogenase (acetylating) [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=25.77 E-value=66 Score=23.41 Aligned_cols=26 Identities=15% Similarity=0.250 Sum_probs=19.7
Q ss_pred eEEEeeCCeeEEEeeecCCcccCCCCCh
Q 044357 55 WQMKSHGPLTFFKEQLHDACHMVPVDQP 82 (93)
Q Consensus 55 G~~k~~~~ltf~~~~V~~AGH~vP~dqP 82 (93)
|.++.-..-+|+. |.+|+|..|.+..
T Consensus 258 ~~v~glkt~~~le--v~ga~~ylp~yag 283 (310)
T COG4569 258 GQVSGLKTAVWLE--VEGAAHYLPAYAG 283 (310)
T ss_pred eeeeccceEEEEE--EecccccCccccC
Confidence 4455455568999 9999999997653
No 82
>PF10593 Z1: Z1 domain; InterPro: IPR018310 This entry represents the Z1 domain of unknown function that is found in a group of putative endonucleases. This domain is found associated with a helicase domain of superfamily type II [].
Probab=25.63 E-value=75 Score=22.65 Aligned_cols=31 Identities=19% Similarity=0.559 Sum_probs=22.4
Q ss_pred chhhhHHHHHhcCceEEEEecc----eeeecCccc
Q 044357 8 HLEVGIPALLEDGIRVLIYAGG----AIEWFGRKD 38 (93)
Q Consensus 8 ~~~~~l~~Ll~~girVLiy~Gd----~l~w~g~~~ 38 (93)
.+.+.|..++++|++|.+.|++ .++|.....
T Consensus 98 ei~~~l~~~~~~~~~v~~vNS~~~~~~ldy~~~~~ 132 (239)
T PF10593_consen 98 EIKPELPKAISDGIEVVVVNSGSSDDSLDYDDGEN 132 (239)
T ss_pred HHHHHHHHHHhcCceEEEEeCCCcccccccccccc
Confidence 3556666777667999999965 677776653
No 83
>TIGR01497 kdpB K+-transporting ATPase, B subunit. One sequence is apparently mis-annotated in the primary literature, but properly annotated by TIGR.
Probab=25.57 E-value=75 Score=26.35 Aligned_cols=26 Identities=19% Similarity=0.427 Sum_probs=21.6
Q ss_pred ccccc-hhhhHHHHHhcCceEEEEecc
Q 044357 4 DWMRH-LEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 4 D~~~~-~~~~l~~Ll~~girVLiy~Gd 29 (93)
|-.|+ +.+.+..|-+.|++|.+.+||
T Consensus 445 D~~Rp~a~eaI~~l~~~Gi~v~miTGD 471 (675)
T TIGR01497 445 DIVKGGIKERFAQLRKMGIKTIMITGD 471 (675)
T ss_pred ccchhHHHHHHHHHHHCCCEEEEEcCC
Confidence 55554 677788888899999999999
No 84
>PF13606 Ank_3: Ankyrin repeat
Probab=24.95 E-value=48 Score=15.61 Aligned_cols=15 Identities=33% Similarity=0.204 Sum_probs=11.1
Q ss_pred hhhhHHHHHhcCceE
Q 044357 9 LEVGIPALLEDGIRV 23 (93)
Q Consensus 9 ~~~~l~~Ll~~girV 23 (93)
-.+.++.||++|..|
T Consensus 14 ~~e~v~~Ll~~gadv 28 (30)
T PF13606_consen 14 NIEIVKYLLEHGADV 28 (30)
T ss_pred CHHHHHHHHHcCCCC
Confidence 457788999987654
No 85
>PF06014 DUF910: Bacterial protein of unknown function (DUF910); InterPro: IPR009256 This family consists of several short bacterial proteins of unknown function.; PDB: 2NN4_A.
Probab=24.80 E-value=45 Score=19.20 Aligned_cols=18 Identities=28% Similarity=0.665 Sum_probs=9.2
Q ss_pred hhHHHHHhcCceEEEEecc
Q 044357 11 VGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 11 ~~l~~Ll~~girVLiy~Gd 29 (93)
-.+..||++ +-+.||.||
T Consensus 5 yDVqQLLK~-fG~~IY~gd 22 (62)
T PF06014_consen 5 YDVQQLLKK-FGIIIYVGD 22 (62)
T ss_dssp HHHHHHHHT-TS-----S-
T ss_pred HHHHHHHHH-CCEEEEeCC
Confidence 357788885 899999999
No 86
>TIGR01524 ATPase-IIIB_Mg magnesium-translocating P-type ATPase. The magnesium ATPases have been classified as type IIIB by a phylogenetic analysis.
Probab=24.61 E-value=84 Score=26.59 Aligned_cols=26 Identities=31% Similarity=0.483 Sum_probs=21.3
Q ss_pred ccccc-hhhhHHHHHhcCceEEEEecc
Q 044357 4 DWMRH-LEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 4 D~~~~-~~~~l~~Ll~~girVLiy~Gd 29 (93)
|-.|+ +.+.+..+-++|++|.+.+||
T Consensus 514 Dp~R~~~~~aI~~l~~aGI~vvmiTGD 540 (867)
T TIGR01524 514 DPPKESTKEAIAALFKNGINVKVLTGD 540 (867)
T ss_pred CCCchhHHHHHHHHHHCCCEEEEEcCC
Confidence 44453 777888888899999999999
No 87
>PRK10517 magnesium-transporting ATPase MgtA; Provisional
Probab=24.53 E-value=80 Score=26.91 Aligned_cols=26 Identities=27% Similarity=0.346 Sum_probs=21.1
Q ss_pred ccccc-hhhhHHHHHhcCceEEEEecc
Q 044357 4 DWMRH-LEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 4 D~~~~-~~~~l~~Ll~~girVLiy~Gd 29 (93)
|-.|+ +.+.+..|-++|++|.+.+||
T Consensus 549 Dp~R~~a~~aI~~l~~aGI~v~miTGD 575 (902)
T PRK10517 549 DPPKETTAPALKALKASGVTVKILTGD 575 (902)
T ss_pred CcchhhHHHHHHHHHHCCCEEEEEcCC
Confidence 44443 777788888899999999999
No 88
>COG3208 GrsT Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=24.00 E-value=36 Score=24.75 Aligned_cols=23 Identities=22% Similarity=0.266 Sum_probs=18.1
Q ss_pred ecCCcccCCCCChHHHHHHHHhh
Q 044357 70 LHDACHMVPVDQPKASLQMLQSW 92 (93)
Q Consensus 70 V~~AGH~vP~dqP~~~~~m~~~f 92 (93)
+...|||-+.++.+.....+.+.
T Consensus 210 ~fdGgHFfl~~~~~~v~~~i~~~ 232 (244)
T COG3208 210 VFDGGHFFLNQQREEVLARLEQH 232 (244)
T ss_pred EecCcceehhhhHHHHHHHHHHH
Confidence 67789999999997777666543
No 89
>PF07532 Big_4: Bacterial Ig-like domain (group 4); InterPro: IPR011081 This entry represents bacterial domains with an Ig-like fold. These domains are found in a variety of bacterial surface proteins.
Probab=23.84 E-value=1.3e+02 Score=16.20 Aligned_cols=27 Identities=11% Similarity=0.081 Sum_probs=14.3
Q ss_pred eeeecCccccccCCcEeEEECCEeeeE
Q 044357 30 AIEWFGRKDVVAAPTVLFKVDGEEAWQ 56 (93)
Q Consensus 30 ~l~w~g~~~f~~~~~~~w~~~~~~~G~ 56 (93)
.+.|........+.--.+.+.|.+.||
T Consensus 33 ~V~W~~~~~~~~~~~G~y~v~G~v~G~ 59 (59)
T PF07532_consen 33 PVTWDPIDPYDYNKPGTYTVTGTVEGT 59 (59)
T ss_pred EeEeCCCChhhccCCEEEEEEEEEecC
Confidence 667875434433333345556666553
No 90
>TIGR01675 plant-AP plant acid phosphatase. This model explicitly excludes the VSPs which lack the nucleophilc aspartate. The possibility exists, however, that some members of this family may, while containing all of the conserved HAD-superfamily catalytic residues, lack activity and have a function related to the function of the VSPs rather than the acid phosphatases.
Probab=23.65 E-value=88 Score=22.38 Aligned_cols=23 Identities=17% Similarity=0.262 Sum_probs=19.8
Q ss_pred cchhhhHHHHHhcCceEEEEecc
Q 044357 7 RHLEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 7 ~~~~~~l~~Ll~~girVLiy~Gd 29 (93)
.+++..+..|.++|++|.+.+|-
T Consensus 123 p~al~l~~~l~~~G~~Vf~lTGR 145 (229)
T TIGR01675 123 PEGLKLYQKIIELGIKIFLLSGR 145 (229)
T ss_pred HHHHHHHHHHHHCCCEEEEEcCC
Confidence 34677888888999999999998
No 91
>PF02702 KdpD: Osmosensitive K+ channel His kinase sensor domain; InterPro: IPR003852 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents the N-terminal domain found in KdpD sensor kinase proteins, which regulate the kdpFABC operon responsible for potassium transport []. The N-terminal domain forms part of the cytoplasmic region of the protein, which may be the sensor domain responsible for sensing turgor pressure [].; GO: 0000155 two-component sensor activity, 0004673 protein histidine kinase activity, 0000160 two-component signal transduction system (phosphorelay), 0016020 membrane; PDB: 2R8R_B.
Probab=23.18 E-value=70 Score=22.80 Aligned_cols=15 Identities=33% Similarity=0.503 Sum_probs=11.7
Q ss_pred hhhHHHHHhcCceEE
Q 044357 10 EVGIPALLEDGIRVL 24 (93)
Q Consensus 10 ~~~l~~Ll~~girVL 24 (93)
-..+.+||++||.|.
T Consensus 106 ~qDVeeLL~aGIdV~ 120 (211)
T PF02702_consen 106 YQDVEELLDAGIDVY 120 (211)
T ss_dssp HHHHHHHHHTT-EEE
T ss_pred HHhHHHHHHCCCeEE
Confidence 467899999999984
No 92
>TIGR01652 ATPase-Plipid phospholipid-translocating P-type ATPase, flippase. This model describes the P-type ATPase responsible for transporting phospholipids from one leaflet of bilayer membranes to the other. These ATPases are found only in eukaryotes.
Probab=23.03 E-value=77 Score=27.35 Aligned_cols=22 Identities=23% Similarity=0.433 Sum_probs=19.6
Q ss_pred chhhhHHHHHhcCceEEEEecc
Q 044357 8 HLEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 8 ~~~~~l~~Ll~~girVLiy~Gd 29 (93)
.+.+-+..|.++||||.+..||
T Consensus 635 ~v~etI~~L~~AGIkv~mlTGD 656 (1057)
T TIGR01652 635 GVPETIELLRQAGIKIWVLTGD 656 (1057)
T ss_pred ccHHHHHHHHHCCCeEEEEcCC
Confidence 3777888888999999999999
No 93
>TIGR01691 enolase-ppase 2,3-diketo-5-methylthio-1-phosphopentane phosphatase. This enzyme is the enolase-phosphatase of methionine salvage, a pathway that regenerates methionine from methylthioadenosine (MTA). Adenosylmethionine (AdoMet) is a donor of different moieties for various processes, including methylation reactions. Use of AdoMet for spermidine biosynthesis, which leads to polyamine biosynthesis, leaves MTA as a by-product that must be cleared. In Bacillus subtilis and related species, this single protein is replaced by separate enzymes with enolase and phosphatase activities.
Probab=22.73 E-value=1.3e+02 Score=21.02 Aligned_cols=25 Identities=24% Similarity=0.508 Sum_probs=19.9
Q ss_pred cccchhhhHHHHHhcCceEEEEecc
Q 044357 5 WMRHLEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 5 ~~~~~~~~l~~Ll~~girVLiy~Gd 29 (93)
....+.+.|.+|-++|+++.||+-.
T Consensus 96 lypgv~e~L~~Lk~~G~~l~I~Sn~ 120 (220)
T TIGR01691 96 LYPDVPPALEAWLQLGLRLAVYSSG 120 (220)
T ss_pred cCcCHHHHHHHHHHCCCEEEEEeCC
Confidence 3445778888888899999999855
No 94
>PRK12353 putative amino acid kinase; Reviewed
Probab=22.54 E-value=64 Score=23.94 Aligned_cols=24 Identities=25% Similarity=0.479 Sum_probs=19.4
Q ss_pred ccchhhhHHHHHhcCceEEEEecc
Q 044357 6 MRHLEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 6 ~~~~~~~l~~Ll~~girVLiy~Gd 29 (93)
.+.....+..|.+.|++|+|.+|.
T Consensus 28 i~~la~~Ia~l~~~G~~vvlV~Gg 51 (314)
T PRK12353 28 VKKTAKSLVDLIEEGHEVVITHGN 51 (314)
T ss_pred HHHHHHHHHHHHHCCCEEEEEeCC
Confidence 345667777888889999999998
No 95
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=22.54 E-value=1.1e+02 Score=19.31 Aligned_cols=20 Identities=25% Similarity=0.262 Sum_probs=17.3
Q ss_pred chhhhHHHHHhcCceEEEEe
Q 044357 8 HLEVGIPALLEDGIRVLIYA 27 (93)
Q Consensus 8 ~~~~~l~~Ll~~girVLiy~ 27 (93)
+..+.+..|-+.|.+|.++.
T Consensus 111 Df~~~i~~lr~~G~~V~v~~ 130 (149)
T cd06167 111 DFVPLVERLRELGKRVIVVG 130 (149)
T ss_pred cHHHHHHHHHHcCCEEEEEc
Confidence 57788888989999999886
No 96
>PRK01122 potassium-transporting ATPase subunit B; Provisional
Probab=22.46 E-value=99 Score=25.67 Aligned_cols=26 Identities=19% Similarity=0.420 Sum_probs=21.5
Q ss_pred ccccc-hhhhHHHHHhcCceEEEEecc
Q 044357 4 DWMRH-LEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 4 D~~~~-~~~~l~~Ll~~girVLiy~Gd 29 (93)
|-.|+ +.+.+.+|-+.|++|.+.+||
T Consensus 444 D~~R~~~~eai~~Lr~~GI~vvMiTGD 470 (679)
T PRK01122 444 DIVKPGIKERFAELRKMGIKTVMITGD 470 (679)
T ss_pred ccCchhHHHHHHHHHHCCCeEEEECCC
Confidence 55554 777788888899999999999
No 97
>TIGR01647 ATPase-IIIA_H plasma-membrane proton-efflux P-type ATPase. This model describes the plasma membrane proton efflux P-type ATPase found in plants, fungi, protozoa, slime molds and archaea. The best studied representative is from yeast.
Probab=22.44 E-value=95 Score=25.80 Aligned_cols=26 Identities=27% Similarity=0.270 Sum_probs=21.2
Q ss_pred ccccc-hhhhHHHHHhcCceEEEEecc
Q 044357 4 DWMRH-LEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 4 D~~~~-~~~~l~~Ll~~girVLiy~Gd 29 (93)
|-.|+ +.+.+..|-+.|++|.+.+||
T Consensus 441 Dp~R~~a~~aI~~l~~aGI~v~miTGD 467 (755)
T TIGR01647 441 DPPRHDTKETIERARHLGVEVKMVTGD 467 (755)
T ss_pred CCChhhHHHHHHHHHHCCCeEEEECCC
Confidence 44454 777788888899999999999
No 98
>PF03959 FSH1: Serine hydrolase (FSH1); InterPro: IPR005645 This entry represents proteins belonging to the AB hydrolase family. It consists of serine hydrolases of unknown specificity [, ] and includes uncharacterised proteins.; PDB: 1YCD_A.
Probab=22.36 E-value=55 Score=22.38 Aligned_cols=18 Identities=28% Similarity=0.325 Sum_probs=10.6
Q ss_pred eEEEeeecCCcccCCCCChH
Q 044357 64 TFFKEQLHDACHMVPVDQPK 83 (93)
Q Consensus 64 tf~~~~V~~AGH~vP~dqP~ 83 (93)
..+. ...+||.||...+.
T Consensus 191 ~~v~--~h~gGH~vP~~~~~ 208 (212)
T PF03959_consen 191 ARVI--EHDGGHHVPRKKED 208 (212)
T ss_dssp EEEE--EESSSSS----HHH
T ss_pred cEEE--EECCCCcCcCChhh
Confidence 5566 78999999987654
No 99
>PF08386 Abhydrolase_4: TAP-like protein; InterPro: IPR013595 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This entry represents a C-terminal domain associated with putative hydrolases and bacterial peptidases that belong to MEROPS peptidase family S33 (clan SC). They are related to a tripeptidyl aminopeptidase from Streptomyces lividans (Q54410 from SWISSPROT). A member of this family (Q6E3K7 from SWISSPROT) is thought to be involved in the C-terminal processing of propionicin F, a bacteriocidin characterised from Propionibacterium freudenreichii []. ; GO: 0008233 peptidase activity
Probab=22.22 E-value=87 Score=19.02 Aligned_cols=28 Identities=11% Similarity=0.156 Sum_probs=19.4
Q ss_pred eEEEeeecCCcccCCCCChHHHHHHHHhhC
Q 044357 64 TFFKEQLHDACHMVPVDQPKASLQMLQSWM 93 (93)
Q Consensus 64 tf~~~~V~~AGH~vP~dqP~~~~~m~~~f~ 93 (93)
..++ +.++||-+-...-.-+.+++++|+
T Consensus 64 ~lvt--~~g~gHg~~~~~s~C~~~~v~~yl 91 (103)
T PF08386_consen 64 RLVT--VDGAGHGVYAGGSPCVDKAVDDYL 91 (103)
T ss_pred eEEE--EeccCcceecCCChHHHHHHHHHH
Confidence 5688 999999987544455556666653
No 100
>PRK14010 potassium-transporting ATPase subunit B; Provisional
Probab=21.91 E-value=1e+02 Score=25.55 Aligned_cols=26 Identities=27% Similarity=0.405 Sum_probs=21.6
Q ss_pred ccccc-hhhhHHHHHhcCceEEEEecc
Q 044357 4 DWMRH-LEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 4 D~~~~-~~~~l~~Ll~~girVLiy~Gd 29 (93)
|-.|+ +.+.+.+|-+.|++|.+.+||
T Consensus 440 Dp~R~~a~e~I~~Lr~~GI~vvMiTGD 466 (673)
T PRK14010 440 DVIKDGLVERFRELREMGIETVMCTGD 466 (673)
T ss_pred cCCcHHHHHHHHHHHHCCCeEEEECCC
Confidence 55554 777888888899999999999
No 101
>TIGR01517 ATPase-IIB_Ca plasma-membrane calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIB based on a phylogenetic analysis which distinguishes this group from the Type IIA SERCA calcium pump. A separate analysis divides Type IIA into sub-types (SERCA and PMR1), which are modelled by the corresponding TIGR01116 and TIGR01522. This model is well separated from the two others.
Probab=21.79 E-value=1.1e+02 Score=26.14 Aligned_cols=26 Identities=23% Similarity=0.345 Sum_probs=21.3
Q ss_pred cccc-chhhhHHHHHhcCceEEEEecc
Q 044357 4 DWMR-HLEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 4 D~~~-~~~~~l~~Ll~~girVLiy~Gd 29 (93)
|-.+ .+.+.+..|-++|++|.+.+||
T Consensus 578 Dplr~~~~~aI~~l~~aGI~v~miTGD 604 (941)
T TIGR01517 578 DPLRPGVREAVQECQRAGITVRMVTGD 604 (941)
T ss_pred CCCchhHHHHHHHHHHCCCEEEEECCC
Confidence 4445 3777888888899999999999
No 102
>TIGR01657 P-ATPase-V P-type ATPase of unknown pump specificity (type V). These P-type ATPases form a distinct clade but the substrate of their pumping activity has yet to be determined. This clade has been designated type V in.
Probab=21.33 E-value=1.1e+02 Score=26.54 Aligned_cols=26 Identities=19% Similarity=0.299 Sum_probs=21.5
Q ss_pred cccc-chhhhHHHHHhcCceEEEEecc
Q 044357 4 DWMR-HLEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 4 D~~~-~~~~~l~~Ll~~girVLiy~Gd 29 (93)
|-.+ .+.+.+..|-++|+||.+..||
T Consensus 655 d~lr~~~~~~I~~l~~agi~v~miTGD 681 (1054)
T TIGR01657 655 NPLKPDTKEVIKELKRASIRTVMITGD 681 (1054)
T ss_pred cCCCccHHHHHHHHHHCCCeEEEECCC
Confidence 3344 4778888888999999999999
No 103
>PF04256 DUF434: Protein of unknown function (DUF434); InterPro: IPR007368 This is a family of uncharacterised proteins.
Probab=21.06 E-value=59 Score=18.35 Aligned_cols=17 Identities=24% Similarity=0.270 Sum_probs=13.2
Q ss_pred cchhhhHHHHHhcCceE
Q 044357 7 RHLEVGIPALLEDGIRV 23 (93)
Q Consensus 7 ~~~~~~l~~Ll~~girV 23 (93)
+....++..||+.||+.
T Consensus 4 ~~A~~Dl~yLLnRGY~~ 20 (58)
T PF04256_consen 4 REAAEDLRYLLNRGYPK 20 (58)
T ss_pred HHHHHHHHHHHhCCCCc
Confidence 34567888999999875
No 104
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=20.77 E-value=75 Score=27.33 Aligned_cols=19 Identities=42% Similarity=0.571 Sum_probs=15.9
Q ss_pred hhHHHHHhcCceEEEEecc
Q 044357 11 VGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 11 ~~l~~Ll~~girVLiy~Gd 29 (93)
..|+.|-+.|-|||||+=-
T Consensus 478 kLL~~Lk~~GhRVLIFSQm 496 (971)
T KOG0385|consen 478 KLLPKLKEQGHRVLIFSQM 496 (971)
T ss_pred HHHHHHHhCCCeEEEeHHH
Confidence 4567888899999999966
No 105
>PLN03190 aminophospholipid translocase; Provisional
Probab=20.71 E-value=1.1e+02 Score=27.13 Aligned_cols=26 Identities=27% Similarity=0.501 Sum_probs=21.1
Q ss_pred ccccc-hhhhHHHHHhcCceEEEEecc
Q 044357 4 DWMRH-LEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 4 D~~~~-~~~~l~~Ll~~girVLiy~Gd 29 (93)
|-.++ +.+.+..|.++|++|.+.+||
T Consensus 725 D~lr~~v~~~I~~l~~agi~v~mlTGD 751 (1178)
T PLN03190 725 DKLQQGVPEAIESLRTAGIKVWVLTGD 751 (1178)
T ss_pred cCCchhHHHHHHHHHHCCCEEEEECCC
Confidence 34443 667788888999999999999
No 106
>TIGR01662 HAD-SF-IIIA HAD-superfamily hydrolase, subfamily IIIA. In the case of histidinol phosphatase and PNK-3'-phosphatase, this model represents a domain of a bifunctional system. In the histidinol phosphatase HisB, a C-terminal domain is an imidazoleglycerol-phosphate dehydratase which catalyzes a related step in histidine biosynthesis. In PNK-3'-phosphatase, N- and C-terminal domains constitute the polynucleotide kinase and DNA-binding components of the enzyme.
Probab=20.66 E-value=1.6e+02 Score=17.98 Aligned_cols=23 Identities=22% Similarity=0.340 Sum_probs=18.5
Q ss_pred cchhhhHHHHHhcCceEEEEecc
Q 044357 7 RHLEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 7 ~~~~~~l~~Ll~~girVLiy~Gd 29 (93)
..+.+.|..|.++|+++.|.++.
T Consensus 28 ~~v~~~l~~L~~~g~~l~i~Sn~ 50 (132)
T TIGR01662 28 PEVPDALAELKEAGYKVVIVTNQ 50 (132)
T ss_pred CCHHHHHHHHHHCCCEEEEEECC
Confidence 34667788888899999999865
No 107
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=20.62 E-value=1.2e+02 Score=25.46 Aligned_cols=27 Identities=33% Similarity=0.465 Sum_probs=23.1
Q ss_pred Cccccc-hhhhHHHHHhcCceEEEEecc
Q 044357 3 MDWMRH-LEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 3 ~D~~~~-~~~~l~~Ll~~girVLiy~Gd 29 (93)
.|-.|+ +.+.+..|-+.|+++.+-+||
T Consensus 535 ~D~~R~~a~~aI~~L~~~Gi~~~mLTGD 562 (713)
T COG2217 535 ADELRPDAKEAIAALKALGIKVVMLTGD 562 (713)
T ss_pred eCCCChhHHHHHHHHHHCCCeEEEEcCC
Confidence 356664 788889999999999999999
No 108
>COG1407 Predicted ICC-like phosphoesterases [General function prediction only]
Probab=20.55 E-value=1.8e+02 Score=20.98 Aligned_cols=32 Identities=19% Similarity=0.191 Sum_probs=20.4
Q ss_pred hhhHHHHHh-cCceEEEEecc---------eeeecCcccccc
Q 044357 10 EVGIPALLE-DGIRVLIYAGG---------AIEWFGRKDVVA 41 (93)
Q Consensus 10 ~~~l~~Ll~-~girVLiy~Gd---------~l~w~g~~~f~~ 41 (93)
...+..+++ .+.+.+|.+|| ..+|.....|.+
T Consensus 52 ~~~l~~ii~~~~p~~lIilGD~KH~~~~~~~~e~~~~~~f~~ 93 (235)
T COG1407 52 LKRLDRIIERYGPKRLIILGDLKHEFGKSLRQEKEEVREFLE 93 (235)
T ss_pred HHHHHHHHHhcCCCEEEEcCccccccCccccccHHHHHHHHH
Confidence 344454554 58999999999 344555555543
No 109
>COG3769 Predicted hydrolase (HAD superfamily) [General function prediction only]
Probab=20.49 E-value=1e+02 Score=22.59 Aligned_cols=23 Identities=13% Similarity=0.242 Sum_probs=20.4
Q ss_pred cchhhhHHHHHhcCceEEEEecc
Q 044357 7 RHLEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 7 ~~~~~~l~~Ll~~girVLiy~Gd 29 (93)
.+..|.+.+|.+.|++|++-+--
T Consensus 26 ~pA~pv~~el~d~G~~Vi~~SSK 48 (274)
T COG3769 26 QPAAPVLLELKDAGVPVILCSSK 48 (274)
T ss_pred CccchHHHHHHHcCCeEEEeccc
Confidence 57889999999999999888766
No 110
>PRK14558 pyrH uridylate kinase; Provisional
Probab=20.34 E-value=82 Score=21.93 Aligned_cols=23 Identities=26% Similarity=0.353 Sum_probs=16.4
Q ss_pred cchhhhHHHHHhcCceEEEEecc
Q 044357 7 RHLEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 7 ~~~~~~l~~Ll~~girVLiy~Gd 29 (93)
+.....+.++.++|.+|+|.+|-
T Consensus 26 ~~la~~i~~~~~~g~~viiV~Gg 48 (231)
T PRK14558 26 NYLVNEIKSVVEYGFKIGIVIGA 48 (231)
T ss_pred HHHHHHHHHHHHCCCeEEEEECc
Confidence 34556666677789999999744
No 111
>TIGR02461 osmo_MPG_phos mannosyl-3-phosphoglycerate phosphatase. Members of this family are mannosyl-3-phosphoglycerate phosphatase (EC 3.1.3.70). It acts sequentially after mannosyl-3-phosphoglycerate synthase (EC 2.4.1.217) in a two-step pathway of biosynthesis of the compatible solute mannosylglycerate, a typical osmolyte of thermophiles.
Probab=20.28 E-value=1.5e+02 Score=20.58 Aligned_cols=22 Identities=9% Similarity=0.176 Sum_probs=19.3
Q ss_pred chhhhHHHHHhcCceEEEEecc
Q 044357 8 HLEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 8 ~~~~~l~~Ll~~girVLiy~Gd 29 (93)
...+.+.+|.++|+++.+.+|-
T Consensus 19 ~~~~ai~~l~~~G~~~vi~TgR 40 (225)
T TIGR02461 19 PAREALEELKDLGFPIVFVSSK 40 (225)
T ss_pred HHHHHHHHHHHCCCEEEEEeCC
Confidence 3678888899999999999998
No 112
>PF07519 Tannase: Tannase and feruloyl esterase; InterPro: IPR011118 This family includes fungal tannase [] and feruloyl esterase [, ]. It also includes several bacterial homologues of unknown function.
Probab=20.28 E-value=1e+02 Score=24.20 Aligned_cols=78 Identities=17% Similarity=0.161 Sum_probs=46.3
Q ss_pred cchhhhHHHHHhcCceEEEEecc---eeeecCccccccCCcEeEEE-CCEeeeEEEeeCCeeEEEeeecCCcccCCC--C
Q 044357 7 RHLEVGIPALLEDGIRVLIYAGG---AIEWFGRKDVVAAPTVLFKV-DGEEAWQMKSHGPLTFFKEQLHDACHMVPV--D 80 (93)
Q Consensus 7 ~~~~~~l~~Ll~~girVLiy~Gd---~l~w~g~~~f~~~~~~~w~~-~~~~~G~~k~~~~ltf~~~~V~~AGH~vP~--d 80 (93)
...-+.|...-++|=|+|+|+|- .++=.++-.|-++-.....- ..++..| +.|.. |+|.||-..- .
T Consensus 340 ~a~~pDLsaF~~~GGKLI~~HG~aD~~I~p~~ti~YY~~V~~~~g~~~~~v~dF------~RlF~--vPGm~HC~gG~g~ 411 (474)
T PF07519_consen 340 DATDPDLSAFRARGGKLILYHGWADPLIPPQGTIDYYERVVARMGGALADVDDF------YRLFM--VPGMGHCGGGPGP 411 (474)
T ss_pred CCCCcCHHHHHhcCCeEEEEecCCCCccCCCcHHHHHHHHHHhcccccccccce------eEEEe--cCCCcccCCCCCC
Confidence 34557788888899999999998 55555555553321111000 0123333 45677 9999998543 3
Q ss_pred ChHHHHHHHHhh
Q 044357 81 QPKASLQMLQSW 92 (93)
Q Consensus 81 qP~~~~~m~~~f 92 (93)
.|-.++.-+.+|
T Consensus 412 ~~~d~l~aL~~W 423 (474)
T PF07519_consen 412 DPFDALTALVDW 423 (474)
T ss_pred CCCCHHHHHHHH
Confidence 445556555555
No 113
>cd08588 PI-PLCc_At5g67130_like Catalytic domain of Arabidopsis thaliana PI-PLC X domain-containing protein At5g67130 and its uncharacterized homologs. This subfamily corresponds to the catalytic domain present in Arabidopsis thaliana PI-PLC X domain-containing protein At5g67130 and its uncharacterized homologs. Members in this family show high sequence similarity to bacterial phosphatidylinositol-specific phospholipase C (PI-PLC, EC 4.6.1.13), which participates in Ca2+-independent PI metabolism, hydrolyzing the membrane lipid phosphatidylinositol (PI) to produce phosphorylated myo-inositol and diacylglycerol (DAG).
Probab=20.24 E-value=91 Score=22.65 Aligned_cols=20 Identities=10% Similarity=0.337 Sum_probs=16.4
Q ss_pred hhhHHHHHhcCceEEEEecc
Q 044357 10 EVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 10 ~~~l~~Ll~~girVLiy~Gd 29 (93)
-|-|.+|+++|.||+|+.-.
T Consensus 138 WPTL~emi~~gkRlvvf~~~ 157 (270)
T cd08588 138 WPTLGEMIDANKRLLVFTDN 157 (270)
T ss_pred CCCHHHHHhcCCEEEEEEec
Confidence 35789999999999998644
No 114
>TIGR03026 NDP-sugDHase nucleotide sugar dehydrogenase. All of these enzymes contain three Pfam domains, pfam03721, pfam00984, and pfam03720 for the N-terminal, central, and C-terminal regions respectively.
Probab=20.08 E-value=1.3e+02 Score=22.75 Aligned_cols=21 Identities=29% Similarity=0.172 Sum_probs=18.4
Q ss_pred chhhhHHHHHhcCceEEEEec
Q 044357 8 HLEVGIPALLEDGIRVLIYAG 28 (93)
Q Consensus 8 ~~~~~l~~Ll~~girVLiy~G 28 (93)
+++..++.|+++|.+|.+|-=
T Consensus 334 p~~~~~~~L~~~g~~v~~~DP 354 (411)
T TIGR03026 334 PALDIIELLKEKGAKVKAYDP 354 (411)
T ss_pred hHHHHHHHHHhCCCEEEEECC
Confidence 588899999999999999863
No 115
>PRK15122 magnesium-transporting ATPase; Provisional
Probab=20.04 E-value=1.1e+02 Score=26.18 Aligned_cols=26 Identities=31% Similarity=0.424 Sum_probs=20.6
Q ss_pred ccccc-hhhhHHHHHhcCceEEEEecc
Q 044357 4 DWMRH-LEVGIPALLEDGIRVLIYAGG 29 (93)
Q Consensus 4 D~~~~-~~~~l~~Ll~~girVLiy~Gd 29 (93)
|-.|+ +.+.+..+-++|++|.+.+||
T Consensus 549 Dp~R~~a~~aI~~l~~aGI~v~miTGD 575 (903)
T PRK15122 549 DPPKESAAPAIAALRENGVAVKVLTGD 575 (903)
T ss_pred CccHHHHHHHHHHHHHCCCeEEEECCC
Confidence 34443 667777888899999999999
Done!