Query 035273
Match_columns 69
No_of_seqs 105 out of 570
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 10:34:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035273.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035273hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1603 Copper chaperone [Inor 99.8 3.9E-18 8.4E-23 99.5 7.1 62 1-64 9-71 (73)
2 PF00403 HMA: Heavy-metal-asso 99.4 2.2E-12 4.8E-17 71.7 5.6 55 1-57 2-60 (62)
3 COG2608 CopZ Copper chaperone 98.6 1.3E-07 2.9E-12 54.7 5.7 58 4-61 10-68 (71)
4 KOG4656 Copper chaperone for s 98.6 2.5E-07 5.5E-12 64.5 6.4 62 2-65 12-73 (247)
5 PLN02957 copper, zinc superoxi 98.2 1.4E-05 3E-10 55.3 7.5 66 1-68 10-75 (238)
6 PRK10671 copA copper exporting 97.2 0.00074 1.6E-08 53.4 5.6 57 4-64 11-67 (834)
7 COG2217 ZntA Cation transport 95.2 0.063 1.4E-06 42.8 5.9 55 4-60 10-67 (713)
8 PRK10671 copA copper exporting 94.3 0.13 2.8E-06 40.9 5.7 57 4-62 107-163 (834)
9 KOG0207 Cation transport ATPas 93.4 0.24 5.3E-06 40.8 5.8 62 4-66 2-64 (951)
10 TIGR00003 copper ion binding p 93.2 0.5 1.1E-05 23.0 6.6 50 4-54 10-61 (68)
11 PF02680 DUF211: Uncharacteriz 93.1 0.2 4.3E-06 31.0 3.9 45 14-58 22-72 (95)
12 COG1888 Uncharacterized protei 92.8 0.3 6.5E-06 30.2 4.4 45 14-58 24-74 (97)
13 KOG0207 Cation transport ATPas 87.6 0.68 1.5E-05 38.3 3.4 57 4-61 154-212 (951)
14 PF13732 DUF4162: Domain of un 85.9 3.2 7E-05 23.4 4.8 40 18-58 26-65 (84)
15 PRK11033 zntA zinc/cadmium/mer 85.6 2.8 6E-05 33.4 5.8 51 4-55 61-111 (741)
16 cd06167 LabA_like LabA_like pr 73.9 5.7 0.00012 24.5 3.4 30 36-66 103-132 (149)
17 COG1432 Uncharacterized conser 72.6 5.8 0.00013 26.3 3.4 31 36-67 114-144 (181)
18 cd04888 ACT_PheB-BS C-terminal 71.8 5.1 0.00011 21.8 2.5 20 10-29 55-74 (76)
19 PF01883 DUF59: Domain of unkn 70.1 5.5 0.00012 22.1 2.4 20 10-29 53-72 (72)
20 TIGR00288 conserved hypothetic 69.4 8 0.00017 25.8 3.4 31 36-67 109-139 (160)
21 PF13291 ACT_4: ACT domain; PD 68.2 11 0.00024 21.0 3.5 25 4-28 55-79 (80)
22 PF01936 NYN: NYN domain; Int 67.7 8.6 0.00019 23.2 3.2 29 36-65 99-127 (146)
23 PHA00514 dsDNA binding protein 64.7 12 0.00027 23.0 3.3 33 35-68 32-66 (98)
24 PF09358 UBA_e1_C: Ubiquitin-a 63.0 16 0.00036 23.0 3.8 32 35-67 35-67 (125)
25 PF05922 Inhibitor_I9: Peptida 61.1 11 0.00024 20.7 2.6 19 13-31 59-77 (82)
26 PRK15127 multidrug efflux syst 59.5 21 0.00046 29.6 4.8 43 11-54 159-208 (1049)
27 PF07683 CobW_C: Cobalamin syn 57.6 14 0.00029 21.1 2.6 22 34-55 71-92 (94)
28 PF05193 Peptidase_M16_C: Pept 57.6 13 0.00028 22.4 2.6 23 35-58 20-42 (184)
29 TIGR00915 2A0602 The (Largely 57.3 24 0.00051 29.3 4.7 44 11-55 159-209 (1044)
30 PRK09577 multidrug efflux prot 57.0 24 0.00052 29.2 4.7 45 11-56 158-209 (1032)
31 PRK10503 multidrug efflux syst 56.5 26 0.00057 29.1 4.9 44 11-54 168-218 (1040)
32 PF08478 POTRA_1: POTRA domain 56.3 16 0.00036 19.6 2.7 29 12-40 37-65 (69)
33 cd04877 ACT_TyrR N-terminal AC 56.0 21 0.00046 19.7 3.2 19 11-29 51-69 (74)
34 PRK09579 multidrug efflux prot 55.9 27 0.00059 28.9 4.8 45 11-55 158-209 (1017)
35 PRK10614 multidrug efflux syst 55.9 27 0.00059 28.9 4.8 36 11-49 159-194 (1025)
36 PRK10555 aminoglycoside/multid 54.6 30 0.00064 28.7 4.9 44 11-55 159-209 (1037)
37 cd02643 R3H_NF-X1 R3H domain o 53.7 31 0.00068 19.7 3.7 30 11-40 44-73 (74)
38 PF00873 ACR_tran: AcrB/AcrD/A 53.4 17 0.00037 29.7 3.3 46 10-55 157-209 (1021)
39 PF04972 BON: BON domain; Int 51.2 11 0.00024 20.1 1.4 37 13-52 3-42 (64)
40 PF01424 R3H: R3H domain; Int 50.4 38 0.00082 18.1 3.5 32 9-40 30-61 (63)
41 PRK10553 assembly protein for 50.1 54 0.0012 19.6 5.7 45 9-54 17-61 (87)
42 PF03927 NapD: NapD protein; 49.8 50 0.0011 19.1 6.0 45 9-55 15-59 (79)
43 PF12164 SporV_AA: Stage V spo 49.4 21 0.00045 21.5 2.5 54 4-68 28-81 (93)
44 PHA01634 hypothetical protein 49.1 7.6 0.00016 25.8 0.6 12 4-15 97-108 (156)
45 COG0841 AcrB Cation/multidrug 48.7 42 0.00091 28.2 4.9 45 10-54 156-207 (1009)
46 PF13241 NAD_binding_7: Putati 48.0 44 0.00095 19.7 3.8 37 29-66 3-39 (103)
47 PRK13748 putative mercuric red 47.1 1.1E+02 0.0023 23.1 6.5 51 4-55 8-59 (561)
48 COG2177 FtsX Cell division pro 46.6 42 0.00091 24.2 4.1 22 8-29 71-92 (297)
49 TIGR00489 aEF-1_beta translati 46.5 20 0.00043 21.6 2.1 23 9-31 62-84 (88)
50 smart00833 CobW_C Cobalamin sy 45.9 38 0.00082 19.0 3.2 22 34-55 69-90 (92)
51 PF02107 FlgH: Flagellar L-rin 45.3 19 0.00042 24.0 2.1 29 20-50 110-138 (179)
52 PF00070 Pyr_redox: Pyridine n 44.7 42 0.00091 18.5 3.2 30 37-66 2-31 (80)
53 cd03309 CmuC_like CmuC_like. P 43.4 48 0.001 23.9 4.0 46 3-50 215-270 (321)
54 PRK11023 outer membrane lipopr 43.0 56 0.0012 21.8 4.1 46 7-54 47-95 (191)
55 TIGR03853 matur_matur probable 43.0 25 0.00054 20.9 2.1 24 37-60 38-61 (77)
56 cd04879 ACT_3PGDH-like ACT_3PG 42.7 33 0.00071 17.5 2.4 18 12-29 53-70 (71)
57 PRK00939 translation initiatio 42.2 61 0.0013 19.8 3.8 37 22-58 23-64 (99)
58 TIGR00914 2A0601 heavy metal e 40.7 55 0.0012 27.2 4.4 42 14-55 171-219 (1051)
59 PF07338 DUF1471: Protein of u 40.0 43 0.00094 18.2 2.7 23 35-57 6-28 (56)
60 COG0612 PqqL Predicted Zn-depe 39.3 30 0.00065 25.1 2.5 23 35-58 199-221 (438)
61 cd04887 ACT_MalLac-Enz ACT_Mal 38.1 66 0.0014 17.2 3.3 21 9-29 52-72 (74)
62 TIGR02945 SUF_assoc FeS assemb 37.4 33 0.00072 20.1 2.1 21 11-31 57-77 (99)
63 KOG3411 40S ribosomal protein 36.3 33 0.00071 22.6 2.0 44 8-55 97-140 (143)
64 COG4004 Uncharacterized protei 36.2 62 0.0014 20.0 3.2 25 16-41 34-58 (96)
65 PRK00435 ef1B elongation facto 36.1 35 0.00076 20.5 2.1 23 9-31 62-84 (88)
66 cd04901 ACT_3PGDH C-terminal A 35.9 49 0.0011 17.3 2.5 18 12-29 51-68 (69)
67 cd04878 ACT_AHAS N-terminal AC 35.3 38 0.00083 17.4 2.0 20 9-28 53-72 (72)
68 PRK06719 precorrin-2 dehydroge 34.1 91 0.002 20.0 3.9 39 27-66 7-45 (157)
69 TIGR01470 cysG_Nterm siroheme 33.9 90 0.0019 20.9 4.0 38 29-67 5-42 (205)
70 cd04903 ACT_LSD C-terminal ACT 33.2 53 0.0011 16.8 2.3 18 12-29 53-70 (71)
71 PLN02625 uroporphyrin-III C-me 32.0 63 0.0014 22.3 3.1 32 34-65 14-46 (263)
72 PF15235 GRIN_C: G protein-reg 31.5 82 0.0018 20.7 3.4 35 20-55 40-74 (137)
73 COG2092 EFB1 Translation elong 31.3 42 0.00091 20.4 1.8 23 8-30 61-83 (88)
74 PF08712 Nfu_N: Scaffold prote 31.2 1.1E+02 0.0025 17.9 4.8 41 13-56 38-79 (87)
75 PRK06718 precorrin-2 dehydroge 30.9 1E+02 0.0022 20.6 3.9 37 29-66 6-42 (202)
76 PF13738 Pyr_redox_3: Pyridine 30.7 81 0.0017 19.8 3.2 33 35-67 168-200 (203)
77 cd00141 NT_POLXc Nucleotidyltr 30.6 87 0.0019 22.4 3.7 49 8-57 144-205 (307)
78 cd04876 ACT_RelA-SpoT ACT dom 30.3 63 0.0014 15.7 2.3 20 9-28 51-70 (71)
79 PRK06136 uroporphyrin-III C-me 30.1 73 0.0016 21.4 3.1 31 35-65 3-34 (249)
80 PF15023 DUF4523: Protein of u 30.1 77 0.0017 21.4 3.1 42 12-55 105-147 (166)
81 COG3643 Glutamate formiminotra 29.8 1E+02 0.0022 22.5 3.9 50 11-63 20-73 (302)
82 PF11731 Cdd1: Pathogenicity l 29.8 42 0.00091 20.5 1.7 49 5-58 1-56 (93)
83 cd07422 MPP_ApaH Escherichia c 29.8 1.9E+02 0.004 20.3 5.2 41 9-56 9-53 (257)
84 PRK05576 cobalt-precorrin-2 C( 29.4 78 0.0017 21.2 3.1 31 35-65 2-33 (229)
85 KOG3476 Microtubule-associated 28.9 24 0.00052 21.8 0.5 15 5-19 1-15 (100)
86 PF03811 Zn_Tnp_IS1: InsA N-te 28.9 23 0.00049 17.9 0.3 11 2-12 3-13 (36)
87 smart00653 eIF2B_5 domain pres 28.8 1.2E+02 0.0026 18.8 3.7 29 27-58 50-78 (110)
88 PF15643 Tox-PL-2: Papain fold 28.6 43 0.00094 20.9 1.6 16 4-19 18-33 (100)
89 PF10678 DUF2492: Protein of u 28.4 56 0.0012 19.4 2.0 23 37-59 40-62 (78)
90 PRK04435 hypothetical protein; 28.3 65 0.0014 20.6 2.5 22 9-30 123-144 (147)
91 PRK05096 guanosine 5'-monophos 27.9 1.4E+02 0.0029 22.5 4.3 50 8-64 107-156 (346)
92 PF01253 SUI1: Translation ini 27.7 48 0.001 19.1 1.6 28 36-63 19-51 (83)
93 PF00988 CPSase_sm_chain: Carb 26.8 66 0.0014 20.8 2.3 26 36-62 104-130 (131)
94 PF15174 PRNT: Prion-related p 26.8 11 0.00023 20.7 -1.2 17 1-17 33-49 (51)
95 KOG3166 60S ribosomal protein 26.4 44 0.00095 23.4 1.5 33 21-53 111-144 (209)
96 PRK12788 flgH flagellar basal 26.1 59 0.0013 22.9 2.1 28 21-50 165-192 (234)
97 cd06471 ACD_LpsHSP_like Group 26.0 40 0.00086 19.3 1.1 23 19-42 16-40 (93)
98 PF06727 DUF1207: Protein of u 25.9 61 0.0013 24.1 2.3 20 12-31 30-49 (338)
99 PRK08609 hypothetical protein; 25.5 60 0.0013 25.3 2.2 47 8-55 159-212 (570)
100 PF14106 DUF4279: Domain of un 24.7 41 0.00089 20.0 1.0 16 39-54 1-16 (118)
101 smart00790 AFOR_N Aldehyde fer 24.7 82 0.0018 21.5 2.6 48 21-68 100-160 (199)
102 PRK12698 flgH flagellar basal 24.6 68 0.0015 22.3 2.2 29 20-50 153-181 (224)
103 cd04874 ACT_Af1403 N-terminal 24.5 1E+02 0.0022 15.7 2.5 20 10-29 52-71 (72)
104 PRK00249 flgH flagellar basal 24.5 69 0.0015 22.2 2.2 29 20-50 152-180 (222)
105 TIGR00668 apaH bis(5'-nucleosy 24.0 2.5E+02 0.0055 20.2 5.1 46 8-60 10-59 (279)
106 COG3062 NapD Uncharacterized p 23.7 1.9E+02 0.0041 17.8 5.1 44 9-54 18-61 (94)
107 PRK00166 apaH diadenosine tetr 23.7 2.4E+02 0.0053 19.9 4.9 41 9-56 11-55 (275)
108 cd06472 ACD_ScHsp26_like Alpha 23.5 68 0.0015 18.4 1.8 24 19-42 15-40 (92)
109 PRK00378 nucleoid-associated p 23.3 1E+02 0.0022 22.1 2.9 29 25-57 303-331 (334)
110 PRK12697 flgH flagellar basal 22.8 75 0.0016 22.3 2.1 29 20-50 156-184 (226)
111 PF03958 Secretin_N: Bacterial 22.3 1.5E+02 0.0032 16.2 3.3 23 26-49 47-69 (82)
112 PRK06737 acetolactate synthase 22.0 1.8E+02 0.0038 16.9 3.4 34 23-56 29-67 (76)
113 cd04902 ACT_3PGDH-xct C-termin 22.0 97 0.0021 16.2 2.1 17 13-29 54-70 (73)
114 COG2072 TrkA Predicted flavopr 21.9 2E+02 0.0044 21.5 4.4 30 36-65 177-206 (443)
115 PRK10568 periplasmic protein; 21.8 2.4E+02 0.0052 18.9 4.4 37 7-45 58-96 (203)
116 COG0864 NikR Predicted transcr 21.8 1.7E+02 0.0036 18.9 3.5 31 37-67 103-135 (136)
117 PRK12407 flgH flagellar basal 21.8 81 0.0017 22.0 2.1 29 20-50 150-178 (221)
118 PRK05787 cobalt-precorrin-6Y C 21.7 94 0.002 20.2 2.3 28 37-64 2-30 (210)
119 TIGR01469 cobA_cysG_Cterm urop 21.4 91 0.002 20.6 2.3 30 36-65 1-31 (236)
120 smart00683 DM16 Repeats in sea 21.3 46 0.001 18.4 0.7 25 17-41 3-27 (55)
121 PRK12696 flgH flagellar basal 21.3 81 0.0018 22.1 2.0 29 20-50 166-194 (236)
122 TIGR01467 cobI_cbiL precorrin- 21.3 1.2E+02 0.0026 20.2 2.9 30 35-64 1-31 (230)
123 cd00292 EF1B Elongation factor 21.1 1E+02 0.0022 18.4 2.2 24 9-32 62-85 (88)
124 PRK12701 flgH flagellar basal 20.9 88 0.0019 21.9 2.1 29 20-50 159-187 (230)
125 PF12971 NAGLU_N: Alpha-N-acet 20.8 1.7E+02 0.0037 17.0 3.1 31 21-54 28-59 (86)
126 PF00736 EF1_GNE: EF-1 guanine 20.8 1.3E+02 0.0027 17.9 2.6 23 9-31 62-85 (89)
127 PF09580 Spore_YhcN_YlaJ: Spor 20.6 1.1E+02 0.0024 19.5 2.5 24 9-32 75-98 (177)
128 PF04805 Pox_E10: E10-like pro 20.4 71 0.0015 18.7 1.4 17 5-21 16-32 (70)
129 PRK13674 putative GTP cyclohyd 20.3 1.1E+02 0.0023 21.9 2.6 29 4-32 221-249 (271)
130 PF14492 EFG_II: Elongation Fa 20.3 1.7E+02 0.0036 16.4 2.9 48 13-62 23-73 (75)
131 PF13280 WYL: WYL domain 20.2 1E+02 0.0022 18.6 2.1 33 35-67 127-159 (172)
132 PRK12700 flgH flagellar basal 20.1 94 0.002 21.8 2.2 28 21-50 161-188 (230)
No 1
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.76 E-value=3.9e-18 Score=99.46 Aligned_cols=62 Identities=34% Similarity=0.580 Sum_probs=56.4
Q ss_pred CeeeeechhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccCHHHHHHHHhhccC-ceeEEe
Q 035273 1 MKVQMNCQKCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVDAVELAAGLRKKVG-HTDLIS 64 (69)
Q Consensus 1 lKV~m~c~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~~~lrKk~~-~aelvs 64 (69)
++|+|||++|++++.+.+..++||+++.+|.+ +++|||.|+ +||..|+++|+|.++ .+++|.
T Consensus 9 ~kv~~~C~gc~~kV~~~l~~~~GV~~v~id~~-~~kvtV~g~-~~p~~vl~~l~k~~~k~~~~~~ 71 (73)
T KOG1603|consen 9 LKVNMHCEGCARKVKRVLQKLKGVESVDIDIK-KQKVTVKGN-VDPVKLLKKLKKTGGKRAELWK 71 (73)
T ss_pred EEECcccccHHHHHHHHhhccCCeEEEEecCC-CCEEEEEEe-cCHHHHHHHHHhcCCCceEEec
Confidence 47899999999999999999999999999998 579999999 999999999999774 666653
No 2
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=99.36 E-value=2.2e-12 Score=71.69 Aligned_cols=55 Identities=24% Similarity=0.367 Sum_probs=48.6
Q ss_pred Cee-eeechhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccC---HHHHHHHHhhcc
Q 035273 1 MKV-QMNCQKCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVD---AVELAAGLRKKV 57 (69)
Q Consensus 1 lKV-~m~c~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vD---p~~l~~~lrKk~ 57 (69)
|+| .|+|++|++++.++|.+++||.++.+|.. .++++|.++ -+ +.++.+.|++.+
T Consensus 2 ~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~-~~~v~v~~~-~~~~~~~~i~~~i~~~G 60 (62)
T PF00403_consen 2 FKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLE-TKTVTVTYD-PDKTSIEKIIEAIEKAG 60 (62)
T ss_dssp EEEESTTSHHHHHHHHHHHHTSTTEEEEEEETT-TTEEEEEES-TTTSCHHHHHHHHHHTT
T ss_pred EEECCcccHHHHHHHHHHHhcCCCCcEEEEECC-CCEEEEEEe-cCCCCHHHHHHHHHHhC
Confidence 467 69999999999999999999999999998 579999998 55 499999998643
No 3
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=98.62 E-value=1.3e-07 Score=54.69 Aligned_cols=58 Identities=19% Similarity=0.296 Sum_probs=46.9
Q ss_pred eeechhHHHHHHHHhcCCCceeEEEeCCCCC-CeEEEEeeccCHHHHHHHHhhccCcee
Q 035273 4 QMNCQKCRTQALKHVADADGVDFVGLEGSEK-DKVVVIGEGVDAVELAAGLRKKVGHTD 61 (69)
Q Consensus 4 ~m~c~~C~~kv~k~~~~~~GV~sv~~d~~~k-~~vtV~G~~vDp~~l~~~lrKk~~~ae 61 (69)
.|+|+.|...+.++|.+++||.++.+|.+.+ -.+++.+..++...+...+...+-.+.
T Consensus 10 ~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy~~~ 68 (71)
T COG2608 10 GMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGYKVE 68 (71)
T ss_pred CcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCCCee
Confidence 5999999999999999999999999999841 245555533899999999986544443
No 4
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=98.55 E-value=2.5e-07 Score=64.50 Aligned_cols=62 Identities=21% Similarity=0.288 Sum_probs=54.9
Q ss_pred eeeeechhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccCHHHHHHHHhhccCceeEEec
Q 035273 2 KVQMNCQKCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVDAVELAAGLRKKVGHTDLISV 65 (69)
Q Consensus 2 KV~m~c~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~~~lrKk~~~aelvsv 65 (69)
-|+||||.|...+++.|..++||+++++|.+ ++.|.|-+. +-|..+...|+..+..|-|.-.
T Consensus 12 aV~M~cescvnavk~~L~~V~Gi~~vevdle-~q~v~v~ts-~p~s~i~~~le~tGr~Avl~G~ 73 (247)
T KOG4656|consen 12 AVQMTCESCVNAVKACLKGVPGINSVEVDLE-QQIVSVETS-VPPSEIQNTLENTGRDAVLRGA 73 (247)
T ss_pred EEechhHHHHHHHHHHhccCCCcceEEEEhh-hcEEEEEcc-CChHHHHHHHHhhChheEEecC
Confidence 3799999999999999999999999999998 468889888 9999999999976667776543
No 5
>PLN02957 copper, zinc superoxide dismutase
Probab=98.15 E-value=1.4e-05 Score=55.35 Aligned_cols=66 Identities=23% Similarity=0.380 Sum_probs=56.5
Q ss_pred CeeeeechhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccCHHHHHHHHhhccCceeEEecccC
Q 035273 1 MKVQMNCQKCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVDAVELAAGLRKKVGHTDLISVAEI 68 (69)
Q Consensus 1 lKV~m~c~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~~~lrKk~~~aelvsv~~~ 68 (69)
+.+.|+|+.|..++.+.+.+++||.++.++.. .++++|.+. .++..+...+++.+..+++++.+++
T Consensus 10 ~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~-~~~v~V~~~-~~~~~I~~aIe~~Gy~a~~~~~~~~ 75 (238)
T PLN02957 10 FMVDMKCEGCVAAVKNKLETLEGVKAVEVDLS-NQVVRVLGS-SPVKAMTAALEQTGRKARLIGQGDP 75 (238)
T ss_pred EEECccCHHHHHHHHHHHhcCCCeEEEEEEcC-CCEEEEEec-CCHHHHHHHHHHcCCcEEEecCCCc
Confidence 35679999999999999999999999999987 469999987 8999999999865557888876553
No 6
>PRK10671 copA copper exporting ATPase; Provisional
Probab=97.24 E-value=0.00074 Score=53.42 Aligned_cols=57 Identities=12% Similarity=0.239 Sum_probs=48.8
Q ss_pred eeechhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccCHHHHHHHHhhccCceeEEe
Q 035273 4 QMNCQKCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVDAVELAAGLRKKVGHTDLIS 64 (69)
Q Consensus 4 ~m~c~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~~~lrKk~~~aelvs 64 (69)
.|+|..|.+++.+.+.+++||.++.++.+ +.+|.+. .++..+...++..+-.+++.+
T Consensus 11 gmtC~~C~~~i~~al~~~~gv~~v~v~~~---~~~v~~~-~~~~~i~~~i~~~Gy~~~~~~ 67 (834)
T PRK10671 11 GLSCGHCVKRVKESLEQRPDVEQADVSIT---EAHVTGT-ASAEALIETIKQAGYDASVSH 67 (834)
T ss_pred CcccHHHHHHHHHHHhcCCCcceEEEeee---EEEEEec-CCHHHHHHHHHhcCCcccccc
Confidence 59999999999999999999999999973 5677787 899999999986555777654
No 7
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=95.16 E-value=0.063 Score=42.78 Aligned_cols=55 Identities=18% Similarity=0.345 Sum_probs=45.3
Q ss_pred eeechhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEee--ccC-HHHHHHHHhhccCce
Q 035273 4 QMNCQKCRTQALKHVADADGVDFVGLEGSEKDKVVVIGE--GVD-AVELAAGLRKKVGHT 60 (69)
Q Consensus 4 ~m~c~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~--~vD-p~~l~~~lrKk~~~a 60 (69)
.|||..|.+++. .+.+++||++..++.. .++++|..+ ..+ +..+...+++.+-.+
T Consensus 10 Gm~Ca~C~~~ie-~l~~~~gV~~~~vn~~-t~~~~v~~~~~~~~~~~~~~~~v~~~gy~~ 67 (713)
T COG2217 10 GMTCAACASRIE-ALNKLPGVEEARVNLA-TERATVVYDPEEVDLPADIVAAVEKAGYSA 67 (713)
T ss_pred CcCcHHHHHHHH-HHhcCCCeeEEEeecc-cceEEEEecccccccHHHHHHHHHhcCccc
Confidence 499999999999 9999999999999987 468888865 256 788888887654443
No 8
>PRK10671 copA copper exporting ATPase; Provisional
Probab=94.26 E-value=0.13 Score=40.94 Aligned_cols=57 Identities=16% Similarity=0.320 Sum_probs=46.0
Q ss_pred eeechhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccCHHHHHHHHhhccCceeE
Q 035273 4 QMNCQKCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVDAVELAAGLRKKVGHTDL 62 (69)
Q Consensus 4 ~m~c~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~~~lrKk~~~ael 62 (69)
.|+|..|...+.+.+.+++||.++.++.. .++..+.+. .++..+...++..+-.+.+
T Consensus 107 Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl~-t~~~~V~~~-~s~~~I~~~I~~~Gy~a~~ 163 (834)
T PRK10671 107 GMSCASCVSRVQNALQSVPGVTQARVNLA-ERTALVMGS-ASPQDLVQAVEKAGYGAEA 163 (834)
T ss_pred CcCcHHHHHHHHHHHhcCCCceeeeeecC-CCeEEEEcc-CCHHHHHHHHHhcCCCccc
Confidence 48999999999999999999999999987 467777765 7888888887753334443
No 9
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=93.40 E-value=0.24 Score=40.76 Aligned_cols=62 Identities=18% Similarity=0.232 Sum_probs=52.1
Q ss_pred eeechhHHHHHHHHhcCCCceeEEEeCCCCCC-eEEEEeeccCHHHHHHHHhhccCceeEEecc
Q 035273 4 QMNCQKCRTQALKHVADADGVDFVGLEGSEKD-KVVVIGEGVDAVELAAGLRKKVGHTDLISVA 66 (69)
Q Consensus 4 ~m~c~~C~~kv~k~~~~~~GV~sv~~d~~~k~-~vtV~G~~vDp~~l~~~lrKk~~~aelvsv~ 66 (69)
.|.|..|.+.+.+.+.+.+||.++++...++. ++.-. ..++|..+.+.+.--+..+++++-+
T Consensus 2 gmtc~ac~~si~~~~~~~~g~~~i~vsl~~~~~~v~~~-~~~~~~~i~~~ied~gf~~~~~~~~ 64 (951)
T KOG0207|consen 2 GMTCSACSNSIEKAISRKPGVQKIEVSLAQKRANVSYD-NIVSPESIKETIEDMGFEASLLSDS 64 (951)
T ss_pred CccHHHHhhhHHHHHhcCCCceeEEEEeccccceEEEe-eccCHHHHHHHhhcccceeeecccC
Confidence 48999999999999999999999999987543 56667 5589999999998766688877654
No 10
>TIGR00003 copper ion binding protein. This model describes an apparently copper-specific subfamily of the metal-binding domain HMA (Pfam family pfam00403). Closely related sequences outside this model include mercury resistance proteins and repeated domains of eukaryotic eukaryotic copper transport proteins. Members of this family are strictly prokaryotic. The model identifies both small proteins consisting of just this domain and N-terminal regions of cation (probably copper) transporting ATPases.
Probab=93.23 E-value=0.5 Score=23.01 Aligned_cols=50 Identities=26% Similarity=0.369 Sum_probs=38.2
Q ss_pred eeechhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEee--ccCHHHHHHHHh
Q 035273 4 QMNCQKCRTQALKHVADADGVDFVGLEGSEKDKVVVIGE--GVDAVELAAGLR 54 (69)
Q Consensus 4 ~m~c~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~--~vDp~~l~~~lr 54 (69)
.++|+.|...+.+.+...+|+.+..++.. ...+.+.-+ ..++..+...+.
T Consensus 10 ~~~~~~c~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 61 (68)
T TIGR00003 10 SMTCQHCVDKIEKFVGELEGVSKVQVKLE-KASVKVEFDAPQATEICIAEAIL 61 (68)
T ss_pred CeEcHHHHHHHHHHHhcCCCEEEEEEEcC-CCEEEEEeCCCCCCHHHHHHHHH
Confidence 36799999999999999999999999876 457776632 246666665554
No 11
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=93.14 E-value=0.2 Score=31.01 Aligned_cols=45 Identities=22% Similarity=0.423 Sum_probs=33.1
Q ss_pred HHHHhcCCCceeEEEe-----CCCCCC-eEEEEeeccCHHHHHHHHhhccC
Q 035273 14 ALKHVADADGVDFVGL-----EGSEKD-KVVVIGEGVDAVELAAGLRKKVG 58 (69)
Q Consensus 14 v~k~~~~~~GV~sv~~-----d~~~k~-~vtV~G~~vDp~~l~~~lrKk~~ 58 (69)
.-+.|++++||+.|.+ |.+..+ ++|+-|+.+|...+.+.+.+.++
T Consensus 22 ~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~Gg 72 (95)
T PF02680_consen 22 LAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEELGG 72 (95)
T ss_dssp HHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHTT-
T ss_pred HHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHcCC
Confidence 4467889999988754 444333 69999999999999999997665
No 12
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=92.80 E-value=0.3 Score=30.23 Aligned_cols=45 Identities=18% Similarity=0.309 Sum_probs=34.1
Q ss_pred HHHHhcCCCceeEEE-----eCCCCCC-eEEEEeeccCHHHHHHHHhhccC
Q 035273 14 ALKHVADADGVDFVG-----LEGSEKD-KVVVIGEGVDAVELAAGLRKKVG 58 (69)
Q Consensus 14 v~k~~~~~~GV~sv~-----~d~~~k~-~vtV~G~~vDp~~l~~~lrKk~~ 58 (69)
.-+.+++++||+.|. +|.+.-+ ++|+-|..+|-..+.+.|.+.++
T Consensus 24 ~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~Gg 74 (97)
T COG1888 24 LALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEELGG 74 (97)
T ss_pred HHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHcCC
Confidence 345678888888764 3444333 79999999999999999987665
No 13
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=87.56 E-value=0.68 Score=38.29 Aligned_cols=57 Identities=12% Similarity=0.226 Sum_probs=44.1
Q ss_pred eeechhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEee--ccCHHHHHHHHhhccCcee
Q 035273 4 QMNCQKCRTQALKHVADADGVDFVGLEGSEKDKVVVIGE--GVDAVELAAGLRKKVGHTD 61 (69)
Q Consensus 4 ~m~c~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~--~vDp~~l~~~lrKk~~~ae 61 (69)
.|.|+.|..++.+.+.+++||.+++++.. .+++.|.=+ ..-|.++.+.+...+-.+.
T Consensus 154 g~~c~s~~~~ie~~l~~l~gV~~~sv~~~-t~~~~V~~~~~~~~pr~i~k~ie~~~~~~~ 212 (951)
T KOG0207|consen 154 GMTCASCVSKIESILERLRGVKSFSVSLA-TDTAIVVYDPEITGPRDIIKAIEETGFEAS 212 (951)
T ss_pred cccccchhhhhHHHHhhccCeeEEEEecc-CCceEEEecccccChHHHHHHHHhhcccce
Confidence 48899999999999999999999999987 578777643 3457777777764433433
No 14
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=85.86 E-value=3.2 Score=23.42 Aligned_cols=40 Identities=28% Similarity=0.256 Sum_probs=31.4
Q ss_pred hcCCCceeEEEeCCCCCCeEEEEeeccCHHHHHHHHhhccC
Q 035273 18 VADADGVDFVGLEGSEKDKVVVIGEGVDAVELAAGLRKKVG 58 (69)
Q Consensus 18 ~~~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~~~lrKk~~ 58 (69)
+..++||.++..+.+.+-.+.+... .++..|++.|...+-
T Consensus 26 l~~~~~v~~v~~~~~~~~~i~l~~~-~~~~~ll~~l~~~g~ 65 (84)
T PF13732_consen 26 LEELPGVESVEQDGDGKLRIKLEDE-ETANELLQELIEKGI 65 (84)
T ss_pred HhhCCCeEEEEEeCCcEEEEEECCc-ccHHHHHHHHHhCCC
Confidence 7788999999986543247888876 899999999986544
No 15
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=85.64 E-value=2.8 Score=33.38 Aligned_cols=51 Identities=22% Similarity=0.355 Sum_probs=36.7
Q ss_pred eeechhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccCHHHHHHHHhh
Q 035273 4 QMNCQKCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVDAVELAAGLRK 55 (69)
Q Consensus 4 ~m~c~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~~~lrK 55 (69)
.|+|..|..++.+.+.+.+||.++.++... .++.+.-+.-....+...++.
T Consensus 61 Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at-~k~~V~~d~~~~~~I~~aI~~ 111 (741)
T PRK11033 61 GMDCPSCARKVENAVRQLAGVNQVQVLFAT-EKLVVDADNDIRAQVESAVQK 111 (741)
T ss_pred CCCcHHHHHHHHHHHhcCCCeeeEEEEcCC-CeEEEEecccchHHHHHHHHh
Confidence 489999999999999999999999998763 566665331112444455553
No 16
>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=73.94 E-value=5.7 Score=24.49 Aligned_cols=30 Identities=27% Similarity=0.302 Sum_probs=26.3
Q ss_pred eEEEEeeccCHHHHHHHHhhccCceeEEecc
Q 035273 36 KVVVIGEGVDAVELAAGLRKKVGHTDLISVA 66 (69)
Q Consensus 36 ~vtV~G~~vDp~~l~~~lrKk~~~aelvsv~ 66 (69)
=+.|+|+ -|-.-++++||..+..+.+++++
T Consensus 103 ivLvSgD-~Df~~~i~~lr~~G~~V~v~~~~ 132 (149)
T cd06167 103 IVLVSGD-SDFVPLVERLRELGKRVIVVGFE 132 (149)
T ss_pred EEEEECC-ccHHHHHHHHHHcCCEEEEEccC
Confidence 4778898 89999999999887799998875
No 17
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=72.57 E-value=5.8 Score=26.30 Aligned_cols=31 Identities=19% Similarity=0.293 Sum_probs=27.5
Q ss_pred eEEEEeeccCHHHHHHHHhhccCceeEEeccc
Q 035273 36 KVVVIGEGVDAVELAAGLRKKVGHTDLISVAE 67 (69)
Q Consensus 36 ~vtV~G~~vDp~~l~~~lrKk~~~aelvsv~~ 67 (69)
-+.++|+ -|-.-+++.++.+++.+++++.+|
T Consensus 114 ivl~SgD-~DF~p~v~~~~~~G~rv~v~~~~~ 144 (181)
T COG1432 114 IVLFSGD-GDFIPLVEAARDKGKRVEVAGIEP 144 (181)
T ss_pred EEEEcCC-ccHHHHHHHHHHcCCEEEEEecCC
Confidence 4677899 999999999999999999999876
No 18
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains. This CD includes the C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and other related ACT domains. In B. subtilis, the upstream gene of pheB, pheA encodes prephenate dehydratase (PDT). The presumed product of the pheB gene is chorismate mutase (CM). The deduced product of the B. subtilis pheB gene, however, has no significant homology to the CM portion of the bifunctional CM-PDT of Escherichia coli. The presence of an ACT domain lends support to the prediction that these proteins function as a phenylalanine-binding regulatory protein. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=71.76 E-value=5.1 Score=21.80 Aligned_cols=20 Identities=30% Similarity=0.406 Sum_probs=17.8
Q ss_pred HHHHHHHHhcCCCceeEEEe
Q 035273 10 CRTQALKHVADADGVDFVGL 29 (69)
Q Consensus 10 C~~kv~k~~~~~~GV~sv~~ 29 (69)
--..+++.+.+++||.+|.+
T Consensus 55 ~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 55 DIDELLEELREIDGVEKVEL 74 (76)
T ss_pred HHHHHHHHHhcCCCeEEEEE
Confidence 56789999999999999986
No 19
>PF01883 DUF59: Domain of unknown function DUF59; InterPro: IPR002744 This family includes prokaryotic proteins of unknown function. The family also includes PhaH (O84984 from SWISSPROT) from Pseudomonas putida. PhaH forms a complex with PhaF (O84982 from SWISSPROT), PhaG (O84983 from SWISSPROT) and PhaI (O84985 from SWISSPROT), which hydroxylates phenylacetic acid to 2-hydroxyphenylacetic acid []. So members of this family may all be components of ring hydroxylating complexes.; PDB: 3LNO_C 3CQ3_A 3CQ2_D 2CU6_B 3CQ1_A 3UX3_B 3UX2_A 1WCJ_A 1UWD_A.
Probab=70.08 E-value=5.5 Score=22.08 Aligned_cols=20 Identities=20% Similarity=0.222 Sum_probs=16.2
Q ss_pred HHHHHHHHhcCCCceeEEEe
Q 035273 10 CRTQALKHVADADGVDFVGL 29 (69)
Q Consensus 10 C~~kv~k~~~~~~GV~sv~~ 29 (69)
=+..+.+++..++||.+|++
T Consensus 53 l~~~i~~~l~~l~gv~~V~V 72 (72)
T PF01883_consen 53 LREEIREALKALPGVKSVKV 72 (72)
T ss_dssp HHHHHHHHHHTSTT-SEEEE
T ss_pred HHHHHHHHHHhCCCCceEeC
Confidence 45788999999999999875
No 20
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=69.44 E-value=8 Score=25.75 Aligned_cols=31 Identities=13% Similarity=0.132 Sum_probs=26.7
Q ss_pred eEEEEeeccCHHHHHHHHhhccCceeEEeccc
Q 035273 36 KVVVIGEGVDAVELAAGLRKKVGHTDLISVAE 67 (69)
Q Consensus 36 ~vtV~G~~vDp~~l~~~lrKk~~~aelvsv~~ 67 (69)
=+.|+|+ -|-.-|+.+||..+..+..+++++
T Consensus 109 ~vLvSgD-~DF~~Lv~~lre~G~~V~v~g~~~ 139 (160)
T TIGR00288 109 VALVTRD-ADFLPVINKAKENGKETIVIGAEP 139 (160)
T ss_pred EEEEecc-HhHHHHHHHHHHCCCEEEEEeCCC
Confidence 4788999 999999999998877999988653
No 21
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=68.21 E-value=11 Score=21.01 Aligned_cols=25 Identities=16% Similarity=0.163 Sum_probs=18.5
Q ss_pred eeechhHHHHHHHHhcCCCceeEEE
Q 035273 4 QMNCQKCRTQALKHVADADGVDFVG 28 (69)
Q Consensus 4 ~m~c~~C~~kv~k~~~~~~GV~sv~ 28 (69)
....-.=-..+++.|.+++||.+|.
T Consensus 55 ~V~d~~~L~~ii~~L~~i~~V~~V~ 79 (80)
T PF13291_consen 55 EVKDLEHLNQIIRKLRQIPGVISVE 79 (80)
T ss_dssp EESSHHHHHHHHHHHCTSTTEEEEE
T ss_pred EECCHHHHHHHHHHHHCCCCeeEEE
Confidence 3444455678889999999998874
No 22
>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=67.66 E-value=8.6 Score=23.23 Aligned_cols=29 Identities=24% Similarity=0.321 Sum_probs=20.6
Q ss_pred eEEEEeeccCHHHHHHHHhhccCceeEEec
Q 035273 36 KVVVIGEGVDAVELAAGLRKKVGHTDLISV 65 (69)
Q Consensus 36 ~vtV~G~~vDp~~l~~~lrKk~~~aelvsv 65 (69)
=+.|+|+ -|-..++++||..+.++.++..
T Consensus 99 ivLvSgD-~Df~~~v~~l~~~g~~V~v~~~ 127 (146)
T PF01936_consen 99 IVLVSGD-SDFAPLVRKLRERGKRVIVVGA 127 (146)
T ss_dssp EEEE----GGGHHHHHHHHHH--EEEEEE-
T ss_pred EEEEECc-HHHHHHHHHHHHcCCEEEEEEe
Confidence 4788899 9999999999988778998874
No 23
>PHA00514 dsDNA binding protein
Probab=64.69 E-value=12 Score=23.02 Aligned_cols=33 Identities=18% Similarity=0.337 Sum_probs=27.7
Q ss_pred CeEEEEeeccCHHHHHHHHhhcc--CceeEEecccC
Q 035273 35 DKVVVIGEGVDAVELAAGLRKKV--GHTDLISVAEI 68 (69)
Q Consensus 35 ~~vtV~G~~vDp~~l~~~lrKk~--~~aelvsv~~~ 68 (69)
+..|..|+ +..+.--+++.|+. +.++++|++|.
T Consensus 32 ~~~Tl~GN-LtiEqAQ~e~~k~~k~~pvqVvsVEpn 66 (98)
T PHA00514 32 NEQTLLGN-LTIEQAQKELSKQYKHGPVQVVSVEPN 66 (98)
T ss_pred Ccceeecc-eeHHHHHHHHhhcccCCCeeEEEecCC
Confidence 35689999 99999999998875 48999999884
No 24
>PF09358 UBA_e1_C: Ubiquitin-activating enzyme e1 C-terminal domain; InterPro: IPR018965 This presumed domain found at the C terminus of Ubiquitin-activating enzyme e1 proteins is functionally uncharacterised. ; PDB: 3CMM_A.
Probab=63.02 E-value=16 Score=22.98 Aligned_cols=32 Identities=25% Similarity=0.416 Sum_probs=26.5
Q ss_pred CeEEEEeeccCHHHHHHHHhhccC-ceeEEeccc
Q 035273 35 DKVVVIGEGVDAVELAAGLRKKVG-HTDLISVAE 67 (69)
Q Consensus 35 ~~vtV~G~~vDp~~l~~~lrKk~~-~aelvsv~~ 67 (69)
+++.|.|+ +-..++++.++++++ .+..+|.|.
T Consensus 35 Dr~~v~~~-~Tl~~li~~~~~~~~lev~ml~~g~ 67 (125)
T PF09358_consen 35 DRIEVNGD-MTLQELIDYFKEKYGLEVTMLSQGV 67 (125)
T ss_dssp -EEEEES---BHHHHHHHHHHTTS-EEEEEEETT
T ss_pred eEEEEcCC-CCHHHHHHHHHHHhCceEEEEEeCC
Confidence 58999997 999999999999988 999888764
No 25
>PF05922 Inhibitor_I9: Peptidase inhibitor I9; InterPro: IPR010259 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. Limited proteolysis of most large protein precursors is carried out in vivo by the subtilisin-like pro-protein convertases. Many important biological processes such as peptide hormone synthesis, viral protein processing and receptor maturation involve proteolytic processing by these enzymes []. The subtilisin-serine protease (SRSP) family hormone and pro-protein convertases (furin, PC1/3, PC2, PC4, PACE4, PC5/6, and PC7/7/LPC) act within the secretory pathway to cleave polypeptide precursors at specific basic sites, generating their biologically active forms. Serum proteins, pro-hormones, receptors, zymogens, viral surface glycoproteins, bacterial toxins, amongst others, are activated by this route []. The SRSPs share the same domain structure, including a signal peptide, the pro-peptide, the catalytic domain, the P/middle or homo B domain, and the C terminus. Proteinase propeptide inhibitors (sometimes refered to as activation peptides) are responsible for the modulation of folding and activity of the pro-enzyme or zymogen. The pro-segment docks into the enzyme moiety shielding the substrate binding site, thereby promoting inhibition of the enzyme. Several such propeptides share a similar topology [], despite often low sequence identities []. The propeptide region has an open-sandwich antiparallel-alpha/antiparallel-beta fold, with two alpha-helices and four beta-strands with a (beta/alpha/beta)x2 topology. This group of sequences contain the propeptide domain at the N terminus of peptidases belonging to MEROPS family S8A, subtilisins. A number of the members of this group of sequences belong to MEROPS inhibitor family I9, clan I-. The propeptide is removed by proteolytic cleavage; removal activating the enzyme.; GO: 0004252 serine-type endopeptidase activity, 0042802 identical protein binding, 0043086 negative regulation of catalytic activity; PDB: 3CNQ_P 1SPB_P 3CO0_P 1ITP_A 1V5I_B 1SCJ_B 3P5B_P 2XTJ_P 2W2M_P 2P4E_P ....
Probab=61.13 E-value=11 Score=20.72 Aligned_cols=19 Identities=16% Similarity=0.295 Sum_probs=15.9
Q ss_pred HHHHHhcCCCceeEEEeCC
Q 035273 13 QALKHVADADGVDFVGLEG 31 (69)
Q Consensus 13 kv~k~~~~~~GV~sv~~d~ 31 (69)
...+.|.+.|||.+|+.|.
T Consensus 59 ~~i~~L~~~p~V~~Ve~D~ 77 (82)
T PF05922_consen 59 EEIEKLRKDPGVKSVEPDQ 77 (82)
T ss_dssp HHHHHHHTSTTEEEEEEEC
T ss_pred HHHHHHHcCCCeEEEEeCc
Confidence 4457889999999999974
No 26
>PRK15127 multidrug efflux system protein AcrB; Provisional
Probab=59.51 E-value=21 Score=29.62 Aligned_cols=43 Identities=16% Similarity=0.195 Sum_probs=31.0
Q ss_pred HHHHHHHhcCCCceeEEEeCCCCCCeEEEEe-------eccCHHHHHHHHh
Q 035273 11 RTQALKHVADADGVDFVGLEGSEKDKVVVIG-------EGVDAVELAAGLR 54 (69)
Q Consensus 11 ~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G-------~~vDp~~l~~~lr 54 (69)
.+.++..+.+++||.+|++.+. +.++.|.= .|+++.++.+.|+
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G~-~~ei~V~vDp~kl~~~gls~~~V~~~l~ 208 (1049)
T PRK15127 159 AANMKDPISRTSGVGDVQLFGS-QYAMRIWMNPNELNKFQLTPVDVINAIK 208 (1049)
T ss_pred HHHHHHHHhcCCCceEEEEcCC-ceEEEEEeCHHHHHHcCCCHHHHHHHHH
Confidence 3568899999999999999987 44566541 2455556666676
No 27
>PF07683 CobW_C: Cobalamin synthesis protein cobW C-terminal domain; InterPro: IPR011629 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents the C-terminal domain found in CobW, as well as in P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [].; PDB: 1NIJ_A.
Probab=57.64 E-value=14 Score=21.10 Aligned_cols=22 Identities=27% Similarity=0.495 Sum_probs=16.6
Q ss_pred CCeEEEEeeccCHHHHHHHHhh
Q 035273 34 KDKVVVIGEGVDAVELAAGLRK 55 (69)
Q Consensus 34 k~~vtV~G~~vDp~~l~~~lrK 55 (69)
.++++++|.++|...|-+.|..
T Consensus 71 ~~~lV~IG~~ld~~~l~~~l~~ 92 (94)
T PF07683_consen 71 DSRLVFIGKNLDKEALREALDA 92 (94)
T ss_dssp -EEEEEEEES--HHHHHHHHHT
T ss_pred CeEEEEEECCCCHHHHHHHHHc
Confidence 4699999999999999888764
No 28
>PF05193 Peptidase_M16_C: Peptidase M16 inactive domain; InterPro: IPR007863 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. These metallopeptidases belong to MEROPS peptidase family M16 (clan ME). They include proteins, which are classified as non-peptidase homologues either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. The peptidases in this group of sequences include: Insulinase, insulin-degrading enzyme (3.4.24.56 from EC) Mitochondrial processing peptidase alpha subunit, (Alpha-MPP, 3.4.24.64 from EC) Pitrlysin, Protease III precursor (3.4.24.55 from EC) Nardilysin, (3.4.24.61 from EC) Ubiquinol-cytochrome C reductase complex core protein I,mitochondrial precursor (1.10.2.2 from EC) Coenzyme PQQ synthesis protein F (3.4.99 from EC) These proteins do not share many regions of sequence similarity; the most noticeable is in the N-terminal section. This region includes a conserved histidine followed, two residues later by a glutamate and another histidine. In pitrilysin, it has been shown [] that this H-x-x-E-H motif is involved in enzymatic activity; the two histidines bind zinc and the glutamate is necessary for catalytic activity. The mitochondrial processing peptidase consists of two structurally related domains. One is the active peptidase whereas the other, the C-terminal region, is inactive. The two domains hold the substrate like a clamp [].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis; PDB: 1BE3_B 1PP9_B 2A06_B 1SQB_B 1SQP_B 1L0N_B 1SQX_B 1NU1_B 1L0L_B 2FYU_B ....
Probab=57.58 E-value=13 Score=22.39 Aligned_cols=23 Identities=30% Similarity=0.534 Sum_probs=19.6
Q ss_pred CeEEEEeeccCHHHHHHHHhhccC
Q 035273 35 DKVVVIGEGVDAVELAAGLRKKVG 58 (69)
Q Consensus 35 ~~vtV~G~~vDp~~l~~~lrKk~~ 58 (69)
-.+.+.|+ +|+..+.+.+.+.++
T Consensus 20 ~~l~i~Gd-~~~~~~~~~i~~~~~ 42 (184)
T PF05193_consen 20 MTLVIVGD-IDPDELEKLIEKYFG 42 (184)
T ss_dssp EEEEEEES-SGHHHHHHHHHHHHT
T ss_pred eEEEEEcC-ccHHHHHHHHHhhhh
Confidence 37899999 999999999887664
No 29
>TIGR00915 2A0602 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family. This family is one of several subfamilies within the scope of pfam model pfam00873.
Probab=57.28 E-value=24 Score=29.32 Aligned_cols=44 Identities=14% Similarity=0.242 Sum_probs=33.7
Q ss_pred HHHHHHHhcCCCceeEEEeCCCCCCeEEEE-------eeccCHHHHHHHHhh
Q 035273 11 RTQALKHVADADGVDFVGLEGSEKDKVVVI-------GEGVDAVELAAGLRK 55 (69)
Q Consensus 11 ~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~-------G~~vDp~~l~~~lrK 55 (69)
...+...+.+++||.+|++.+. +.++.|. ..|+++.++.+.|+.
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G~-~~ei~V~vD~~kl~~~gls~~dV~~~i~~ 209 (1044)
T TIGR00915 159 ASNMVDPISRLEGVGDVQLFGS-QYAMRIWLDPAKLNSYQLTPADVISAIQA 209 (1044)
T ss_pred HHHHHHHHhCCCCceEEEecCC-ceEEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 4578899999999999999998 5566665 225666777777875
No 30
>PRK09577 multidrug efflux protein; Reviewed
Probab=57.04 E-value=24 Score=29.23 Aligned_cols=45 Identities=22% Similarity=0.366 Sum_probs=33.8
Q ss_pred HHHHHHHhcCCCceeEEEeCCCCCCeEEEE-------eeccCHHHHHHHHhhc
Q 035273 11 RTQALKHVADADGVDFVGLEGSEKDKVVVI-------GEGVDAVELAAGLRKK 56 (69)
Q Consensus 11 ~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~-------G~~vDp~~l~~~lrKk 56 (69)
+.++...+.+++||.+|++.+.+ .++.|. ..|+++.++.+.|+..
T Consensus 158 ~~~l~~~L~~v~GV~~V~~~G~e-~~v~V~vD~~kl~~~Gls~~~V~~~l~~~ 209 (1032)
T PRK09577 158 SANVLQALRRVEGVGKVQFWGAE-YAMRIWPDPVKLAALGLTASDIASAVRAH 209 (1032)
T ss_pred HHHHHHHHhcCCCcEEEEecCCc-eEEEEEeCHHHHHHcCCCHHHHHHHHHHh
Confidence 46788999999999999999863 466663 2356667777888753
No 31
>PRK10503 multidrug efflux system subunit MdtB; Provisional
Probab=56.47 E-value=26 Score=29.07 Aligned_cols=44 Identities=20% Similarity=0.364 Sum_probs=30.3
Q ss_pred HHHHHHHhcCCCceeEEEeCCCCCCeEEEEe-------eccCHHHHHHHHh
Q 035273 11 RTQALKHVADADGVDFVGLEGSEKDKVVVIG-------EGVDAVELAAGLR 54 (69)
Q Consensus 11 ~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G-------~~vDp~~l~~~lr 54 (69)
.+.+...+.+++||.+|++.+....++.|.= .|+++.++.+.|+
T Consensus 168 ~~~l~~~L~~i~gV~~V~~~G~~~~ei~V~vd~~kl~~~gls~~~v~~ai~ 218 (1040)
T PRK10503 168 ETRVAQKISQVSGVGLVTLSGGQRPAVRVKLNAQAIAALGLTSETVRTAIT 218 (1040)
T ss_pred HHHHHHHhcCCCCceEEEecCCCceEEEEEECHHHHHHcCCCHHHHHHHHH
Confidence 3578889999999999999987433555541 1345555556665
No 32
>PF08478 POTRA_1: POTRA domain, FtsQ-type; InterPro: IPR013685 FtsQ/DivIB bacterial division proteins (IPR005548 from INTERPRO) contain an N-terminal POTRA domain (for polypeptide-transport-associated domain). This is found in different types of proteins, usually associated with a transmembrane beta-barrel. FtsQ/DivIB may have chaperone-like roles, which has also been postulated for the POTRA domain in other contexts []. ; PDB: 2ALJ_A 2VH1_B 3J00_Z 2VH2_B.
Probab=56.31 E-value=16 Score=19.61 Aligned_cols=29 Identities=7% Similarity=0.013 Sum_probs=22.5
Q ss_pred HHHHHHhcCCCceeEEEeCCCCCCeEEEE
Q 035273 12 TQALKHVADADGVDFVGLEGSEKDKVVVI 40 (69)
Q Consensus 12 ~kv~k~~~~~~GV~sv~~d~~~k~~vtV~ 40 (69)
.++.+.+.+++.|+++.+...--+++.|.
T Consensus 37 ~~~~~~l~~~p~V~~v~V~r~~P~~l~I~ 65 (69)
T PF08478_consen 37 KKIEQRLEKLPWVKSVSVSRRFPNTLEIK 65 (69)
T ss_dssp HHHHHCCCCTTTEEEEEEEEETTTEEEEE
T ss_pred HHHHHHHHcCCCEEEEEEEEeCCCEEEEE
Confidence 56778888999999999986655666653
No 33
>cd04877 ACT_TyrR N-terminal ACT domain of the TyrR protein. ACT_TyrR: N-terminal ACT domain of the TyrR protein. The TyrR protein of Escherichia coli controls the expression of a group of transcription units (TyrR regulon) whose gene products are involved in the biosynthesis or transport of the aromatic amino acids. Binding to specific DNA sequences known as TyrR boxes, the TyrR protein can either activate or repress transcription at different sigma70 promoters. Its regulatory activity occurs in response to intracellular levels of tyrosine, phenylalanine and tryptophan. The TyrR protein consists of an N-terminal region important for transcription activation with an ATP-independent aromatic amino acid binding site (contained within the ACT domain) and is involved in dimerization; a central region with an ATP binding site, an ATP-dependent aromatic amino acid binding site and is involved in hexamerization; and a helix turn helix DNA binding C-terminal region. In solution, in the absence
Probab=56.01 E-value=21 Score=19.66 Aligned_cols=19 Identities=21% Similarity=0.256 Sum_probs=14.2
Q ss_pred HHHHHHHhcCCCceeEEEe
Q 035273 11 RTQALKHVADADGVDFVGL 29 (69)
Q Consensus 11 ~~kv~k~~~~~~GV~sv~~ 29 (69)
-..+++.+.+++||.+|+-
T Consensus 51 L~~li~~L~~i~gV~~V~R 69 (74)
T cd04877 51 LQTLMPEIRRIDGVEDVKT 69 (74)
T ss_pred HHHHHHHHhCCCCceEEEE
Confidence 4677788888888888753
No 34
>PRK09579 multidrug efflux protein; Reviewed
Probab=55.91 E-value=27 Score=28.92 Aligned_cols=45 Identities=13% Similarity=0.134 Sum_probs=33.0
Q ss_pred HHHHHHHhcCCCceeEEEeCCCCCCeEEEEe-------eccCHHHHHHHHhh
Q 035273 11 RTQALKHVADADGVDFVGLEGSEKDKVVVIG-------EGVDAVELAAGLRK 55 (69)
Q Consensus 11 ~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G-------~~vDp~~l~~~lrK 55 (69)
++.+...+.+++||..|++.+....++.|.= .|+.+.++.+.|+.
T Consensus 158 ~~~i~~~L~~i~GV~~V~~~G~~~~ei~V~vd~~kl~~~gls~~dV~~al~~ 209 (1017)
T PRK09579 158 SRVIQPKLATLPGMAEAEILGNQVFAMRLWLDPVKLAGFGLSAGDVTQAVRR 209 (1017)
T ss_pred HHHHHHHhhcCCCceEEEecCCCceEEEEEeCHHHHHHcCCCHHHHHHHHHH
Confidence 4568899999999999999987444555531 14666777788874
No 35
>PRK10614 multidrug efflux system subunit MdtC; Provisional
Probab=55.87 E-value=27 Score=28.87 Aligned_cols=36 Identities=31% Similarity=0.333 Sum_probs=26.2
Q ss_pred HHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccCHHHH
Q 035273 11 RTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVDAVEL 49 (69)
Q Consensus 11 ~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l 49 (69)
+..++..+.+++||.+|.+.+....++.|. +||.++
T Consensus 159 ~~~l~~~L~~i~GV~~V~~~G~~~~ei~V~---vd~~kl 194 (1025)
T PRK10614 159 STQLAQTISQIDGVGDVDVGGSSLPAVRVG---LNPQAL 194 (1025)
T ss_pred HHHHHHHhcCCCCceEEEecCCCceEEEEE---eCHHHH
Confidence 467889999999999999998643355554 555444
No 36
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=54.57 E-value=30 Score=28.73 Aligned_cols=44 Identities=9% Similarity=0.129 Sum_probs=32.6
Q ss_pred HHHHHHHhcCCCceeEEEeCCCCCCeEEEEe-------eccCHHHHHHHHhh
Q 035273 11 RTQALKHVADADGVDFVGLEGSEKDKVVVIG-------EGVDAVELAAGLRK 55 (69)
Q Consensus 11 ~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G-------~~vDp~~l~~~lrK 55 (69)
++.++..+.+++||.+|++.+. +.++.|.= .|+++.++.+.|+.
T Consensus 159 ~~~l~~~L~~v~GV~~V~~~G~-~~ei~V~vD~~kl~~~gls~~~v~~al~~ 209 (1037)
T PRK10555 159 ASNIQDPLSRVNGVGDIDAYGS-QYSMRIWLDPAKLNSFQMTTKDVTDAIES 209 (1037)
T ss_pred HHHHHHHhhcCCCeEEEEEcCC-ceEEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 4678889999999999999986 44555541 25666777777774
No 37
>cd02643 R3H_NF-X1 R3H domain of the X1 box binding protein (NF-X1) and related proteins. Human NF-X1 is a transcription factor that regulates the expression of class II major histocompatibility complex (MHC) genes. The Drosophila homolog shuttle craft (STC) has been shown to be a DNA- or RNA-binding protein required for proper axon guidance in the central nervous system and, the yeast homolog FAP1 encodes a dosage suppressor of rapamycin toxicity. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=53.73 E-value=31 Score=19.75 Aligned_cols=30 Identities=20% Similarity=0.361 Sum_probs=23.1
Q ss_pred HHHHHHHhcCCCceeEEEeCCCCCCeEEEE
Q 035273 11 RTQALKHVADADGVDFVGLEGSEKDKVVVI 40 (69)
Q Consensus 11 ~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~ 40 (69)
.|++...++...|+.|.+.|.+.+-.|+|+
T Consensus 44 eR~iIH~la~~~~l~S~S~G~ep~R~VvI~ 73 (74)
T cd02643 44 KRRIVHELAEHFGIESVSYDQEPKRNVVAT 73 (74)
T ss_pred HHHHHHHHHhhCCCEEEecCCCCCceEEEe
Confidence 567777788999999999998764455553
No 38
>PF00873 ACR_tran: AcrB/AcrD/AcrF family; InterPro: IPR001036 The Escherichia coli acrA and acrB genes encode a multi-drug efflux system that is believed to protect the bacterium against hydrophobic inhibitors []. The E. coli AcrB protein is a transporter that is energized by proton-motive force and that shows the widest substrate specificity among all known multidrug pumps, ranging from most of the currently used antibiotics, disinfectants, dyes, and detergents to simple solvents. The structure of ligand-free AcrB shows that it is a homotrimer of 110kDa per subunit. Each subunit contains 12 transmembrane helices and two large periplasmic domains (each exceeding 300 residues) between helices 1 and 2, and helices 7 and 8. X-ray analysis of the overexpressed AcrB protein demonstrated that the three periplasmic domains form, in the centre, a funnel-like structure and a connected narrow (or closed) pore. The pore is opened to the periplasm through three vestibules located at subunit interfaces. These vestibules were proposed to allow direct access of drugs from the periplasm as well as the outer leaflet of the cytoplasmic membrane. The three transmembrane domains of AcrB protomers form a large, 30A-wide central cavity that spans the cytoplasmic membrane and extends to the cytoplasm X-ray crystallographic structures of the trimeric AcrB pump from E. coli with four structurally diverse ligands demonstrated that three molecules of ligand bind simultaneously to the extremely large central cavity of 5000 cubic angstroms, primarily by hydrophobic, aromatic stacking and van der Waals interactions. Each ligand uses a slightly different subset of AcrB residues for binding. The bound ligand molecules often interact with each other, stabilising the binding. ; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2V50_B 1T9U_A 2HRT_B 3NOC_A 3NOG_A 4DX7_A 1OYD_A 3AOB_A 1T9V_A 4DX6_B ....
Probab=53.39 E-value=17 Score=29.73 Aligned_cols=46 Identities=17% Similarity=0.267 Sum_probs=29.3
Q ss_pred HHHHHHHHhcCCCceeEEEeCCCCCCeEEEEe-------eccCHHHHHHHHhh
Q 035273 10 CRTQALKHVADADGVDFVGLEGSEKDKVVVIG-------EGVDAVELAAGLRK 55 (69)
Q Consensus 10 C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G-------~~vDp~~l~~~lrK 55 (69)
.+..++..+.+++||.+|++.+....++-|.= .++++.++...|+.
T Consensus 157 ~~~~l~~~L~~i~gV~~v~~~G~~~~ei~i~~d~~kl~~~gls~~~v~~~l~~ 209 (1021)
T PF00873_consen 157 AEEQLKPRLERIPGVARVDISGGREREIQIELDPEKLAAYGLSLSDVAQALQA 209 (1021)
T ss_dssp HHHCTHHHHHTSTTEEEEEESSS--EEEEEEE-HHHHHHTT--HHHHHHHHHH
T ss_pred HHHHHHHhccceeEEEEEEeccchhhhhhheechhhhhhhCCCHHHHHHHHHH
Confidence 34678889999999999999997544565541 13444455555553
No 39
>PF04972 BON: BON domain; InterPro: IPR007055 The BON domain is typically ~60 residues long and has an alpha/beta predicted fold. There is a conserved glycine residue and several hydrophobic regions. This pattern of conservation is more suggestive of a binding or structural function rather than a catalytic function. Most proteobacteria seem to possess one or two BON-containing proteins, typically of the OsmY-type proteins; outside of this group the distribution is more disparate. The OsmY protein is an Escherichia coli 20 kDa outer membrane or periplasmic protein that is expressed in response to a variety of stress conditions, in particular, helping to provide protection against osmotic shock. One hypothesis is that OsmY prevents shrinkage of the cytoplasmic compartment by contacting the phospholipid interfaces surrounding the periplasmic space. The domain architecture of two BON domains alone suggests that these domains contact the surfaces of phospholipids, with each domain contacting a membrane [].; PDB: 2L26_A 2KGS_A 2KSM_A.
Probab=51.16 E-value=11 Score=20.11 Aligned_cols=37 Identities=14% Similarity=0.113 Sum_probs=17.6
Q ss_pred HHHHHhcC---CCceeEEEeCCCCCCeEEEEeeccCHHHHHHH
Q 035273 13 QALKHVAD---ADGVDFVGLEGSEKDKVVVIGEGVDAVELAAG 52 (69)
Q Consensus 13 kv~k~~~~---~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~~~ 52 (69)
+++..|.. +++- ++.+... .+.|++.|. ++...-.++
T Consensus 3 ~v~~~L~~~~~~~~~-~i~v~v~-~g~v~L~G~-v~s~~~~~~ 42 (64)
T PF04972_consen 3 KVRAALRADPWLPDS-NISVSVE-NGVVTLSGE-VPSQEQRDA 42 (64)
T ss_dssp ----------CTT-T-TEEEEEE-CTEEEEEEE-ESSCHHHHH
T ss_pred ccccccccccccCCC-eEEEEEE-CCEEEEEee-CcHHHHHHh
Confidence 44455554 4444 4566655 479999999 854443333
No 40
>PF01424 R3H: R3H domain; InterPro: IPR001374 The R3H motif: a domain that binds single-stranded nucleic acids. The most prominent feature of the R3H motif is the presence of an invariant arginine residue and a highly conserved histidine residue that are separated by three residues. The motif also displays a conserved pattern of hydrophobic residues, prolines and glycines. The R3H motif is present in proteins from a diverse range of organisms that includes Eubacteria, green plants, fungi and various groups of metazoans. Intriguingly, it has not yet been identified in Archaea and Escherichia coli. The sequences that contain the R3H domain, many of which are hypothetical proteins predicted from genome sequencing projects, can be grouped into eight families on the basis of similarities outside the R3H region. Three of the families contain ATPase domains either upstream (families II and VII) or downstream of the R3H domain (family VIII). The N-terminal part of members of family VII contains an SF1 helicase domain5. The C-terminal part of family VIII contains an SF2 DEAH helicase domain5. The ATPase domain in the members of family II is similar to the stage-III sporulation protein AA (S3AA_BACSU), the proteasome ATPase, bacterial transcription-termination factor r and the mitochondrial F1-ATPase b subunit (the F5 helicase family5). Family VI contains Cys-rich repeats6, as well as a ring-type zinc finger upstream of the R3H domain. JAG bacterial proteins (family I) contain a KH domain N-terminal to the R3H domain. The functions of other domains in R3H proteins support the notion that the R3H domain might be involved in interactions with single-stranded nucleic acids [].; GO: 0003676 nucleic acid binding; PDB: 1WHR_A 1MSZ_A 1UG8_A 3GKU_B 2CPM_A.
Probab=50.40 E-value=38 Score=18.14 Aligned_cols=32 Identities=16% Similarity=0.183 Sum_probs=23.5
Q ss_pred hHHHHHHHHhcCCCceeEEEeCCCCCCeEEEE
Q 035273 9 KCRTQALKHVADADGVDFVGLEGSEKDKVVVI 40 (69)
Q Consensus 9 ~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~ 40 (69)
.=.|++...++...|+.|-+.+.+.+-.|+|.
T Consensus 30 ~~~R~~iH~~a~~~gL~s~S~g~~~~R~vvv~ 61 (63)
T PF01424_consen 30 SFERKLIHELAEYYGLKSKSEGEGPNRRVVVS 61 (63)
T ss_dssp SHHHHHHHHHHHHCTEEEEEESSSSSSEEEEE
T ss_pred HHHHHHHHHHHHHCCCEEEEecCCCCeEEEEE
Confidence 44577777788899999999986644356654
No 41
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=50.12 E-value=54 Score=19.58 Aligned_cols=45 Identities=11% Similarity=0.178 Sum_probs=33.0
Q ss_pred hHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccCHHHHHHHHh
Q 035273 9 KCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVDAVELAAGLR 54 (69)
Q Consensus 9 ~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~~~lr 54 (69)
.=...+.+.|..++|++=-..|.+ .+|++|+=++-+...+++.+.
T Consensus 17 e~~~~V~~~l~~ipg~Evh~~d~~-~GKiVVtiE~~~~~~~~~~i~ 61 (87)
T PRK10553 17 ERISDISTQLNAFPGCEVAVSDAP-SGQLIVVVEAEDSETLLQTIE 61 (87)
T ss_pred HHHHHHHHHHHcCCCcEEEeecCC-CCeEEEEEEeCChHHHHHHHH
Confidence 335678899999999998888765 478777766456666665554
No 42
>PF03927 NapD: NapD protein; InterPro: IPR005623 This entry represents NapD, the twin-arginine signal-peptide-binding chaperone for NapA, functioning as an assembly protein for the periplasmic nitrate reductase NapABC. The periplasmic NapABC enzyme likely functions during growth in nitrate-limited environments [].; PDB: 2JSX_A 2PQ4_A.
Probab=49.81 E-value=50 Score=19.10 Aligned_cols=45 Identities=18% Similarity=0.179 Sum_probs=33.7
Q ss_pred hHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccCHHHHHHHHhh
Q 035273 9 KCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVDAVELAAGLRK 55 (69)
Q Consensus 9 ~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~~~lrK 55 (69)
+=...+.+.|..++|++=-..+.+ +|++|+=+.-+...+.+.+..
T Consensus 15 ~~~~~v~~~l~~~~gvEVh~~~~~--GKiVVtiE~~~~~~~~~~~~~ 59 (79)
T PF03927_consen 15 ERLEEVAEALAAIPGVEVHAVDED--GKIVVTIEAESSEEEVDLIDA 59 (79)
T ss_dssp CCHHHHHHHHCCSTTEEEEEEETT--TEEEEEEEESSHHHHHHHHHH
T ss_pred hhHHHHHHHHHcCCCcEEEeeCCC--CeEEEEEEeCChHHHHHHHHH
Confidence 345678999999999976666643 788887775677777777763
No 43
>PF12164 SporV_AA: Stage V sporulation protein AA; InterPro: IPR021997 This domain family is found in bacteria - primarily Firmicutes, and is approximately 90 amino acids in length. There is a single completely conserved residue G that may be functionally important. Most annotation associated with this domain suggests that it is involved in the fifth stage of sporulation, however there is little publication to back this up. ; PDB: 3G74_B.
Probab=49.36 E-value=21 Score=21.53 Aligned_cols=54 Identities=11% Similarity=0.352 Sum_probs=30.8
Q ss_pred eeechhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccCHHHHHHHHhhccCceeEEecccC
Q 035273 4 QMNCQKCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVDAVELAAGLRKKVGHTDLISVAEI 68 (69)
Q Consensus 4 ~m~c~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~~~lrKk~~~aelvsv~~~ 68 (69)
.+.|+. .+...+..++ + ..++..+++.++ +|.-++++.+++.++++++-++||+
T Consensus 28 ~i~~~~---~~~~klk~l~-i--~~~~~~d~~r~V-----isvm~II~~I~~~~p~l~I~~iGe~ 81 (93)
T PF12164_consen 28 QIYCDD---EIENKLKALP-I--YKIKKKDKNRYV-----ISVMKIIEKIQEEYPNLDIQNIGET 81 (93)
T ss_dssp EEEESS---HHHHHHHTSE-E--EE-BTTT--EEE-----EEHHHHHHHHHHH-SSEEEEE-S-S
T ss_pred EEEeCH---HHHHHhhccE-e--eeecCCCCCEEE-----EEHHHHHHHHHHHCCCcEEEEcCCC
Confidence 345655 4444444442 3 334444444443 4678999999999999999999875
No 44
>PHA01634 hypothetical protein
Probab=49.08 E-value=7.6 Score=25.84 Aligned_cols=12 Identities=25% Similarity=0.728 Sum_probs=9.9
Q ss_pred eeechhHHHHHH
Q 035273 4 QMNCQKCRTQAL 15 (69)
Q Consensus 4 ~m~c~~C~~kv~ 15 (69)
-|.||||.+++.
T Consensus 97 ~iDCeGCE~~l~ 108 (156)
T PHA01634 97 VMDCEGCEEKLN 108 (156)
T ss_pred EEEccchHHhcC
Confidence 489999998864
No 45
>COG0841 AcrB Cation/multidrug efflux pump [Defense mechanisms]
Probab=48.72 E-value=42 Score=28.18 Aligned_cols=45 Identities=16% Similarity=0.297 Sum_probs=30.9
Q ss_pred HHHHHHHHhcCCCceeEEEeCCCCCCeEEEE-------eeccCHHHHHHHHh
Q 035273 10 CRTQALKHVADADGVDFVGLEGSEKDKVVVI-------GEGVDAVELAAGLR 54 (69)
Q Consensus 10 C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~-------G~~vDp~~l~~~lr 54 (69)
-.+.+...+.+++||-+|.+-+.....+.|. +.|++|.++...|+
T Consensus 156 ~~~~l~~~L~~v~GV~~V~~~G~~~~~~rI~ldp~kLa~~gLt~~dV~~ai~ 207 (1009)
T COG0841 156 AASNVRDELSRVPGVGSVQLFGAQEYAMRIWLDPAKLAAYGLTPSDVQSAIR 207 (1009)
T ss_pred HHHHHHHHHhcCCCceEEEEcCCCceeEEEEeCHHHHHHcCCCHHHHHHHHH
Confidence 3567889999999999999999743456553 12344455555555
No 46
>PF13241 NAD_binding_7: Putative NAD(P)-binding; PDB: 3DFZ_B 1PJT_A 1PJS_A 1PJQ_A 1KYQ_B.
Probab=48.00 E-value=44 Score=19.70 Aligned_cols=37 Identities=27% Similarity=0.263 Sum_probs=24.6
Q ss_pred eCCCCCCeEEEEeeccCHHHHHHHHhhccCceeEEecc
Q 035273 29 LEGSEKDKVVVIGEGVDAVELAAGLRKKVGHTDLISVA 66 (69)
Q Consensus 29 ~d~~~k~~vtV~G~~vDp~~l~~~lrKk~~~aelvsv~ 66 (69)
+|.+. .++.|+|.|--...=++.|-+.+.++.++|++
T Consensus 3 l~l~~-~~vlVvGgG~va~~k~~~Ll~~gA~v~vis~~ 39 (103)
T PF13241_consen 3 LDLKG-KRVLVVGGGPVAARKARLLLEAGAKVTVISPE 39 (103)
T ss_dssp E--TT--EEEEEEESHHHHHHHHHHCCCTBEEEEEESS
T ss_pred EEcCC-CEEEEECCCHHHHHHHHHHHhCCCEEEEECCc
Confidence 45553 48999998666666667776655588888875
No 47
>PRK13748 putative mercuric reductase; Provisional
Probab=47.14 E-value=1.1e+02 Score=23.10 Aligned_cols=51 Identities=18% Similarity=0.311 Sum_probs=36.5
Q ss_pred eeechhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEee-ccCHHHHHHHHhh
Q 035273 4 QMNCQKCRTQALKHVADADGVDFVGLEGSEKDKVVVIGE-GVDAVELAAGLRK 55 (69)
Q Consensus 4 ~m~c~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~-~vDp~~l~~~lrK 55 (69)
.++|..|..++...+...+|+.+..++... ....+... ..++..+...+..
T Consensus 8 g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~-~~~~v~~~~~~~~~~i~~~i~~ 59 (561)
T PRK13748 8 GMTCDSCAAHVKDALEKVPGVQSADVSYPK-GSAQLAIEVGTSPDALTAAVAG 59 (561)
T ss_pred CeecHHHHHHHHHHHhcCCCeeEEEEEcCC-CEEEEEECCCCCHHHHHHHHHH
Confidence 478999999999999999999988887764 45555421 1456666555543
No 48
>COG2177 FtsX Cell division protein [Cell division and chromosome partitioning]
Probab=46.60 E-value=42 Score=24.25 Aligned_cols=22 Identities=18% Similarity=0.182 Sum_probs=20.3
Q ss_pred hhHHHHHHHHhcCCCceeEEEe
Q 035273 8 QKCRTQALKHVADADGVDFVGL 29 (69)
Q Consensus 8 ~~C~~kv~k~~~~~~GV~sv~~ 29 (69)
+.|...+...+..++||+|+..
T Consensus 71 ~~~~~~v~~~i~~~~gV~~v~~ 92 (297)
T COG2177 71 QDDAALVREKIEGIPGVKSVRF 92 (297)
T ss_pred hHHHHHHHHHHhcCCCcceEEE
Confidence 7788999999999999999987
No 49
>TIGR00489 aEF-1_beta translation elongation factor aEF-1 beta. This model describes the archaeal translation elongation factor aEF-1 beta. The member from Sulfolobus solfataricus was demonstrated experimentally. It is a dimer that catalyzes the exchange of GDP for GTP on aEF-1 alpha.
Probab=46.49 E-value=20 Score=21.57 Aligned_cols=23 Identities=17% Similarity=0.237 Sum_probs=19.6
Q ss_pred hHHHHHHHHhcCCCceeEEEeCC
Q 035273 9 KCRTQALKHVADADGVDFVGLEG 31 (69)
Q Consensus 9 ~C~~kv~k~~~~~~GV~sv~~d~ 31 (69)
+--..+-..+++++||+|+++..
T Consensus 62 g~td~lee~i~~ve~V~svev~~ 84 (88)
T TIGR00489 62 GGTEAAEESLSGIEGVESVEVTD 84 (88)
T ss_pred cChHHHHHHHhcCCCccEEEEEE
Confidence 55678889999999999999853
No 50
>smart00833 CobW_C Cobalamin synthesis protein cobW C-terminal domain. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis PUBMED:12869542. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents the C-terminal domain found in CobW, as well as in P47K, a Pseudomonas chlororaphis protein needed for nitrile hydratase expression PUBMED:7765511.
Probab=45.94 E-value=38 Score=18.98 Aligned_cols=22 Identities=27% Similarity=0.528 Sum_probs=18.3
Q ss_pred CCeEEEEeeccCHHHHHHHHhh
Q 035273 34 KDKVVVIGEGVDAVELAAGLRK 55 (69)
Q Consensus 34 k~~vtV~G~~vDp~~l~~~lrK 55 (69)
.++++++|.++|...+-+.|..
T Consensus 69 ~~~lV~IG~~l~~~~l~~~l~~ 90 (92)
T smart00833 69 RTRLVFIGRDLDEEAIRAALDA 90 (92)
T ss_pred ceEEEEEeCCCCHHHHHHHHHH
Confidence 3689999999999998888763
No 51
>PF02107 FlgH: Flagellar L-ring protein; InterPro: IPR000527 The flgH, flgI and fliF genes of Salmonella typhimurium encode the major proteins for the L, P and M rings of the flagellar basal body []. In fact, the basal body consists of four rings (L,P,S and M) surrounding the flagellar rod, which is believed to transmit motor rotation to the filament []. The M ring is integral to the inner membrane of the cell, and may be connected to the rod via the S (supramembrane) ring, which lies just distal to it. The L and P rings reside in the outer membrane and periplasmic space, respectively. FlgH and FlgI, which are exported across the cell membrane to their destinations in the outer membrane and periplasmic space, have typical N-terminal cleaved signal-peptide sequences. FlgH is predicted to have an extensive beta-sheet structure, in keeping with other outer membrane proteins [].; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0009427 bacterial-type flagellum basal body, distal rod, L ring
Probab=45.33 E-value=19 Score=23.96 Aligned_cols=29 Identities=14% Similarity=0.288 Sum_probs=25.2
Q ss_pred CCCceeEEEeCCCCCCeEEEEeeccCHHHHH
Q 035273 20 DADGVDFVGLEGSEKDKVVVIGEGVDAVELA 50 (69)
Q Consensus 20 ~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~ 50 (69)
-++|=..+.++.+ ...+.+.|- |.|.++-
T Consensus 110 ~I~G~k~i~vn~e-~~~i~lsGi-VRp~DI~ 138 (179)
T PF02107_consen 110 VIEGEKQIRVNGE-EQYIRLSGI-VRPEDID 138 (179)
T ss_pred EEEEEEEEEECCC-EEEEEEEEE-ECHHHCC
Confidence 4678899999987 579999999 9999885
No 52
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=44.71 E-value=42 Score=18.53 Aligned_cols=30 Identities=40% Similarity=0.477 Sum_probs=16.7
Q ss_pred EEEEeeccCHHHHHHHHhhccCceeEEecc
Q 035273 37 VVVIGEGVDAVELAAGLRKKVGHTDLISVA 66 (69)
Q Consensus 37 vtV~G~~vDp~~l~~~lrKk~~~aelvsv~ 66 (69)
++|.|-|.-..++...|.+.+..+.++...
T Consensus 2 vvViGgG~ig~E~A~~l~~~g~~vtli~~~ 31 (80)
T PF00070_consen 2 VVVIGGGFIGIELAEALAELGKEVTLIERS 31 (80)
T ss_dssp EEEESSSHHHHHHHHHHHHTTSEEEEEESS
T ss_pred EEEECcCHHHHHHHHHHHHhCcEEEEEecc
Confidence 556665555666666665544455555443
No 53
>cd03309 CmuC_like CmuC_like. Proteins similar to the putative corrinoid methyltransferase CmuC. Its function has been inferred from sequence similarity to the methyltransferases CmuA and MtaA. Mutants of Methylobacterium sp. disrupted in cmuC and purU appear deficient in some step of chloromethane metabolism.
Probab=43.42 E-value=48 Score=23.93 Aligned_cols=46 Identities=26% Similarity=0.349 Sum_probs=33.9
Q ss_pred eeeechhHHHHHHHHhcCCCceeEEEeCCCC----------CCeEEEEeeccCHHHHH
Q 035273 3 VQMNCQKCRTQALKHVADADGVDFVGLEGSE----------KDKVVVIGEGVDAVELA 50 (69)
Q Consensus 3 V~m~c~~C~~kv~k~~~~~~GV~sv~~d~~~----------k~~vtV~G~~vDp~~l~ 50 (69)
+-+|..|........+..+ |++.+.+|... .+++++.|. +||.-|.
T Consensus 215 iilH~cG~~~~~l~~~~e~-g~dvl~~d~~~~dl~eak~~~g~k~~l~GN-lDp~~L~ 270 (321)
T cd03309 215 IVHHSCGAAASLVPSMAEM-GVDSWNVVMTANNTAELRRLLGDKVVLAGA-IDDVALD 270 (321)
T ss_pred eEEEeCCCcHHHHHHHHHc-CCCEEEecCCCCCHHHHHHHhCCCeEEEcC-CChHHhc
Confidence 4567777776777777777 88998888652 147899998 9996443
No 54
>PRK11023 outer membrane lipoprotein; Provisional
Probab=43.04 E-value=56 Score=21.76 Aligned_cols=46 Identities=11% Similarity=0.204 Sum_probs=31.3
Q ss_pred chhHHHHHHHHhcCCCcee---EEEeCCCCCCeEEEEeeccCHHHHHHHHh
Q 035273 7 CQKCRTQALKHVADADGVD---FVGLEGSEKDKVVVIGEGVDAVELAAGLR 54 (69)
Q Consensus 7 c~~C~~kv~k~~~~~~GV~---sv~~d~~~k~~vtV~G~~vDp~~l~~~lr 54 (69)
+..-..++...|..-+++. .+.+... .+.|+.+|. ++......+..
T Consensus 47 D~~i~~~V~~aL~~~~~l~~~~~I~V~v~-~G~V~L~G~-V~~~~~k~~A~ 95 (191)
T PRK11023 47 DGTLELRVNNALSKDEQIKKEARINVTAY-QGKVLLTGQ-SPNAELSERAK 95 (191)
T ss_pred hHHHHHHHHHHHhhCcccCcCceEEEEEE-CCEEEEEEE-eCCHHHHHHHH
Confidence 3445677888887777664 4777666 478999998 87665554443
No 55
>TIGR03853 matur_matur probable metal-binding protein. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulfatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulfur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulfatase/maturase systems.
Probab=43.04 E-value=25 Score=20.91 Aligned_cols=24 Identities=33% Similarity=0.170 Sum_probs=19.5
Q ss_pred EEEEeeccCHHHHHHHHhhccCce
Q 035273 37 VVVIGEGVDAVELAAGLRKKVGHT 60 (69)
Q Consensus 37 vtV~G~~vDp~~l~~~lrKk~~~a 60 (69)
=|-..+++|+..|+..|.+|++..
T Consensus 38 hTCSa~~m~a~~Li~FL~~kgKfi 61 (77)
T TIGR03853 38 HTCSAEGMTADELLQFLLKKGKFI 61 (77)
T ss_pred eecccccCCHHHHHHHHHHCCCEe
Confidence 366777899999999999887743
No 56
>cd04879 ACT_3PGDH-like ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). ACT_3PGDH-like: The ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with or without an extended C-terminal (xct) region found in various bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback controlled by the end product L-serine in an allosteric manner. In the Escherichia coli homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active
Probab=42.67 E-value=33 Score=17.52 Aligned_cols=18 Identities=22% Similarity=0.291 Sum_probs=15.0
Q ss_pred HHHHHHhcCCCceeEEEe
Q 035273 12 TQALKHVADADGVDFVGL 29 (69)
Q Consensus 12 ~kv~k~~~~~~GV~sv~~ 29 (69)
..+++.+.+++||.++..
T Consensus 53 ~~l~~~l~~~~~V~~v~~ 70 (71)
T cd04879 53 EEVLEELKALPGIIRVRL 70 (71)
T ss_pred HHHHHHHHcCCCeEEEEE
Confidence 478889999999998863
No 57
>PRK00939 translation initiation factor Sui1; Reviewed
Probab=42.18 E-value=61 Score=19.79 Aligned_cols=37 Identities=22% Similarity=0.275 Sum_probs=23.2
Q ss_pred CceeEEEeCCCCCC-eEEEEee----ccCHHHHHHHHhhccC
Q 035273 22 DGVDFVGLEGSEKD-KVVVIGE----GVDAVELAAGLRKKVG 58 (69)
Q Consensus 22 ~GV~sv~~d~~~k~-~vtV~G~----~vDp~~l~~~lrKk~~ 58 (69)
++.-.+......++ .||++.. ..|+..+++.|+++++
T Consensus 23 ~~~i~I~~ekr~~gK~VTiI~Gl~~~~~~lk~l~k~lKk~~g 64 (99)
T PRK00939 23 QQRIKIKVDKRRYGKEVTIIEGIDPKDIDLKELAKKLKSKLA 64 (99)
T ss_pred CceEEEEEEecCCCceEEEEeCCCCcchhHHHHHHHHHHHhC
Confidence 34444444432223 6888764 2478999999998875
No 58
>TIGR00914 2A0601 heavy metal efflux pump (cobalt-zinc-cadmium). This model represents a family of H+/heavy metal cation antiporters. This family is one of several subfamilies within the scope of pfam model pfam00873.
Probab=40.68 E-value=55 Score=27.16 Aligned_cols=42 Identities=17% Similarity=0.220 Sum_probs=28.0
Q ss_pred HHHHhcCCCceeEEEeCCCCCCeEEEEe-------eccCHHHHHHHHhh
Q 035273 14 ALKHVADADGVDFVGLEGSEKDKVVVIG-------EGVDAVELAAGLRK 55 (69)
Q Consensus 14 v~k~~~~~~GV~sv~~d~~~k~~vtV~G-------~~vDp~~l~~~lrK 55 (69)
+...+.+++||.+|++.+....++.|.= .|+++.++.+.|+.
T Consensus 171 l~~~L~~i~GV~~V~~~G~~~~ei~V~iD~~kl~~~glt~~dV~~~l~~ 219 (1051)
T TIGR00914 171 IRPQLRTVPGVAEVNSIGGYVKQFLVAPDPEKLAAYGLSLADVVNALER 219 (1051)
T ss_pred HHHHHhcCCCceEeeecCCceEEEEEEECHHHHHHcCCCHHHHHHHHHH
Confidence 6678999999999999987444555531 13444555566653
No 59
>PF07338 DUF1471: Protein of unknown function (DUF1471); InterPro: IPR010854 This entry consists of several hypothetical Enterobacterial proteins of around 90 residues in length. Some of the proteins are annotated as ydgH precursors and contain two copies of this region, one at the N terminus and the other at the C terminus. The function of this family is unknown.; PDB: 2NOC_A 2JNA_B 4EVU_B.
Probab=39.99 E-value=43 Score=18.22 Aligned_cols=23 Identities=22% Similarity=0.186 Sum_probs=18.5
Q ss_pred CeEEEEeeccCHHHHHHHHhhcc
Q 035273 35 DKVVVIGEGVDAVELAAGLRKKV 57 (69)
Q Consensus 35 ~~vtV~G~~vDp~~l~~~lrKk~ 57 (69)
+.++|.|..-.|.++.+.|.+|-
T Consensus 6 G~Isvs~~~~s~~d~~~~la~kA 28 (56)
T PF07338_consen 6 GTISVSGNFGSPDDAEEALAKKA 28 (56)
T ss_dssp EEEEEEEECSSHHHHHHHHHHHH
T ss_pred EEEEEccccCCHHHHHHHHHHHH
Confidence 47899998678999999987553
No 60
>COG0612 PqqL Predicted Zn-dependent peptidases [General function prediction only]
Probab=39.32 E-value=30 Score=25.15 Aligned_cols=23 Identities=39% Similarity=0.537 Sum_probs=20.7
Q ss_pred CeEEEEeeccCHHHHHHHHhhccC
Q 035273 35 DKVVVIGEGVDAVELAAGLRKKVG 58 (69)
Q Consensus 35 ~~vtV~G~~vDp~~l~~~lrKk~~ 58 (69)
-.|.|.|+ +|+..+...+.+.++
T Consensus 199 ~~l~vvGd-i~~~~v~~~~~~~f~ 221 (438)
T COG0612 199 MVLVVVGD-VDAEEVVELIEKYFG 221 (438)
T ss_pred eEEEEecC-CCHHHHHHHHHHHHc
Confidence 37999999 999999999998776
No 61
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains. The ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI, a malolactic enzyme (MalLac-Enz) which converts malate to lactate, and other related ACT domains. The yqkJ product is predicted to convert malate directly to lactate, as opposed to related malic enzymes that convert malate to pyruvate. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=38.10 E-value=66 Score=17.15 Aligned_cols=21 Identities=10% Similarity=0.110 Sum_probs=13.5
Q ss_pred hHHHHHHHHhcCCCceeEEEe
Q 035273 9 KCRTQALKHVADADGVDFVGL 29 (69)
Q Consensus 9 ~C~~kv~k~~~~~~GV~sv~~ 29 (69)
.=-..+++.+.+++||...++
T Consensus 52 ~~l~~i~~~L~~i~gV~~~~~ 72 (74)
T cd04887 52 EHAETIVAAVRALPEVKVLSV 72 (74)
T ss_pred HHHHHHHHHHhcCCCeEEEEe
Confidence 344567777777777766554
No 62
>TIGR02945 SUF_assoc FeS assembly SUF system protein. Members of this family belong to the broader Pfam family pfam01883, or Domain of Unknown Function DUF59. Many members of DUF59 are candidate ring hydroxylating complex subunits. However, members of the narrower family defined here all are found in genomes that carry the FeS assembly SUF system. For 70 % of these species, the member of this protein family is found as part of the SUF locus, usually immediately downstream of the sufS gene.
Probab=37.40 E-value=33 Score=20.06 Aligned_cols=21 Identities=24% Similarity=0.153 Sum_probs=17.5
Q ss_pred HHHHHHHhcCCCceeEEEeCC
Q 035273 11 RTQALKHVADADGVDFVGLEG 31 (69)
Q Consensus 11 ~~kv~k~~~~~~GV~sv~~d~ 31 (69)
+..+..++..++|++++.++.
T Consensus 57 ~~~i~~al~~l~gv~~v~v~i 77 (99)
T TIGR02945 57 PGEVENAVRAVPGVGSVTVEL 77 (99)
T ss_pred HHHHHHHHHhCCCCceEEEEE
Confidence 456888899999999999864
No 63
>KOG3411 consensus 40S ribosomal protein S19 [Translation, ribosomal structure and biogenesis]
Probab=36.26 E-value=33 Score=22.64 Aligned_cols=44 Identities=14% Similarity=0.181 Sum_probs=30.9
Q ss_pred hhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccCHHHHHHHHhh
Q 035273 8 QKCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVDAVELAAGLRK 55 (69)
Q Consensus 8 ~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~~~lrK 55 (69)
.+|.+++++.|.++. -|+.+.+.-.++|=.|. =|...++.+++.
T Consensus 97 ~~i~rkvlQ~Le~~~---~ve~hp~gGR~lt~~Gq-rdldrIa~~i~~ 140 (143)
T KOG3411|consen 97 GGIARKVLQALEKMG---IVEKHPKGGRRLTEQGQ-RDLDRIAGQIRE 140 (143)
T ss_pred cHHHHHHHHHHHhCC---ceeeCCCCcceeCcccc-hhHHHHHHHHHh
Confidence 357777777776654 34445443238999999 899899888874
No 64
>COG4004 Uncharacterized protein conserved in archaea [Function unknown]
Probab=36.18 E-value=62 Score=20.02 Aligned_cols=25 Identities=20% Similarity=0.357 Sum_probs=21.7
Q ss_pred HHhcCCCceeEEEeCCCCCCeEEEEe
Q 035273 16 KHVADADGVDFVGLEGSEKDKVVVIG 41 (69)
Q Consensus 16 k~~~~~~GV~sv~~d~~~k~~vtV~G 41 (69)
.+++.++|+.-|++..+ +.++-|.+
T Consensus 34 ~ivas~pgis~ieik~E-~kkL~v~t 58 (96)
T COG4004 34 RIVASSPGISRIEIKPE-NKKLLVNT 58 (96)
T ss_pred EEEEecCCceEEEEecc-cceEEEec
Confidence 45788999999999998 56999988
No 65
>PRK00435 ef1B elongation factor 1-beta; Validated
Probab=36.10 E-value=35 Score=20.49 Aligned_cols=23 Identities=22% Similarity=0.273 Sum_probs=19.5
Q ss_pred hHHHHHHHHhcCCCceeEEEeCC
Q 035273 9 KCRTQALKHVADADGVDFVGLEG 31 (69)
Q Consensus 9 ~C~~kv~k~~~~~~GV~sv~~d~ 31 (69)
+--..+-..+++++||+|+++..
T Consensus 62 ~~td~lee~i~~~e~Vqsvei~~ 84 (88)
T PRK00435 62 GGTEPVEEAFANVEGVESVEVEE 84 (88)
T ss_pred cCcHHHHHHHhccCCCcEEEEEE
Confidence 56677888999999999999853
No 66
>cd04901 ACT_3PGDH C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria. The C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In Escherichia coli, the SerA 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. In the homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active site is postulated to involve the tethering of the regulatory domains together to create a rigid quaternary structure with a solvent-
Probab=35.91 E-value=49 Score=17.34 Aligned_cols=18 Identities=22% Similarity=0.191 Sum_probs=14.1
Q ss_pred HHHHHHhcCCCceeEEEe
Q 035273 12 TQALKHVADADGVDFVGL 29 (69)
Q Consensus 12 ~kv~k~~~~~~GV~sv~~ 29 (69)
..+++.+.+++||.+|..
T Consensus 51 ~~li~~l~~~~~V~~v~~ 68 (69)
T cd04901 51 EELLEALRAIPGTIRVRL 68 (69)
T ss_pred HHHHHHHHcCCCeEEEEE
Confidence 367788889999988864
No 67
>cd04878 ACT_AHAS N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). ACT_AHAS: N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). AHAS catalyses the first common step in the biosynthesis of the three branched-chain amino acids. The first step involves the condensation of either pyruvate or 2-ketobutyrate with the two-carbon hydroxyethyl fragment derived from another pyruvate molecule, covalently bound to the coenzyme thiamine diphosphate. Bacterial AHASs generally consist of regulatory and catalytic subunits. The effector (valine) binding sites are proposed to be located in two symmetrically related positions in the interface between a pair of N-terminal ACT domains with the C-terminal domain of IlvH contacting the catalytic dimer. Plants Arabidopsis and Oryza have tandem IlvH subunits; both the first and second ACT domain sequences are present in this CD. Members of
Probab=35.28 E-value=38 Score=17.35 Aligned_cols=20 Identities=20% Similarity=0.069 Sum_probs=15.2
Q ss_pred hHHHHHHHHhcCCCceeEEE
Q 035273 9 KCRTQALKHVADADGVDFVG 28 (69)
Q Consensus 9 ~C~~kv~k~~~~~~GV~sv~ 28 (69)
.=-..+++.+.+++||.+|+
T Consensus 53 ~~~~~l~~~l~~~~~v~~v~ 72 (72)
T cd04878 53 DVIEQIVKQLNKLVDVLKVS 72 (72)
T ss_pred HHHHHHHHHHhCCccEEEeC
Confidence 33566788889999998874
No 68
>PRK06719 precorrin-2 dehydrogenase; Validated
Probab=34.13 E-value=91 Score=20.00 Aligned_cols=39 Identities=26% Similarity=0.313 Sum_probs=27.9
Q ss_pred EEeCCCCCCeEEEEeeccCHHHHHHHHhhccCceeEEecc
Q 035273 27 VGLEGSEKDKVVVIGEGVDAVELAAGLRKKVGHTDLISVA 66 (69)
Q Consensus 27 v~~d~~~k~~vtV~G~~vDp~~l~~~lrKk~~~aelvsv~ 66 (69)
+-+|.+. .++.|.|.|-=....++.|-+.+..+.+|+++
T Consensus 7 ~~l~l~~-~~vlVvGGG~va~rka~~Ll~~ga~V~VIsp~ 45 (157)
T PRK06719 7 LMFNLHN-KVVVIIGGGKIAYRKASGLKDTGAFVTVVSPE 45 (157)
T ss_pred eEEEcCC-CEEEEECCCHHHHHHHHHHHhCCCEEEEEcCc
Confidence 3455654 48999998666777778887666688888754
No 69
>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain. This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.
Probab=33.90 E-value=90 Score=20.93 Aligned_cols=38 Identities=24% Similarity=0.167 Sum_probs=27.2
Q ss_pred eCCCCCCeEEEEeeccCHHHHHHHHhhccCceeEEeccc
Q 035273 29 LEGSEKDKVVVIGEGVDAVELAAGLRKKVGHTDLISVAE 67 (69)
Q Consensus 29 ~d~~~k~~vtV~G~~vDp~~l~~~lrKk~~~aelvsv~~ 67 (69)
++.+.+ ++.|.|-|--...-++.|-+.+.++.++++.+
T Consensus 5 l~l~gk-~vlVvGgG~va~rk~~~Ll~~ga~VtVvsp~~ 42 (205)
T TIGR01470 5 ANLEGR-AVLVVGGGDVALRKARLLLKAGAQLRVIAEEL 42 (205)
T ss_pred EEcCCC-eEEEECcCHHHHHHHHHHHHCCCEEEEEcCCC
Confidence 344433 88999887766777777776666888888754
No 70
>cd04903 ACT_LSD C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit. The C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit, found in various bacterial anaerobes such as Clostridium, Bacillis, and Treponema species. These enzymes catalyze the deamination of L-serine, producing pyruvate and ammonia. Unlike the eukaryotic L-serine dehydratase, which requires the pyridoxal-5'-phosphate (PLP) cofactor, the prokaryotic L-serine dehydratase contains an [4Fe-4S] cluster instead of a PLP active site. The LSD alpha and beta subunits of the 'clostridial' enzyme are encoded by the sdhA and sdhB genes. The single subunit bacterial homologs of L-serine dehydratase (LSD1, LSD2, TdcG) present in Escherichia coli, and other enterobacterials, lack the ACT domain described here. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=33.22 E-value=53 Score=16.80 Aligned_cols=18 Identities=11% Similarity=0.224 Sum_probs=14.0
Q ss_pred HHHHHHhcCCCceeEEEe
Q 035273 12 TQALKHVADADGVDFVGL 29 (69)
Q Consensus 12 ~kv~k~~~~~~GV~sv~~ 29 (69)
..+++.+.+++||.++..
T Consensus 53 ~~~i~~l~~~~~v~~v~~ 70 (71)
T cd04903 53 EEVIEEIKKIPNIHQVIL 70 (71)
T ss_pred HHHHHHHHcCCCceEEEE
Confidence 467888888899888763
No 71
>PLN02625 uroporphyrin-III C-methyltransferase
Probab=31.97 E-value=63 Score=22.28 Aligned_cols=32 Identities=19% Similarity=0.276 Sum_probs=27.6
Q ss_pred CCeEEEEeecc-CHHHHHHHHhhccCceeEEec
Q 035273 34 KDKVVVIGEGV-DAVELAAGLRKKVGHTDLISV 65 (69)
Q Consensus 34 k~~vtV~G~~v-Dp~~l~~~lrKk~~~aelvsv 65 (69)
.++++++|-|. ||..|+-+-.+...+|++|-.
T Consensus 14 ~g~l~vVG~GpGdp~~LTl~a~~~l~~ADvI~~ 46 (263)
T PLN02625 14 PGNVFLVGTGPGDPDLLTLKALRLLQTADVVLY 46 (263)
T ss_pred CCEEEEEEeCCCChHHhHHHHHHHHhcCCEEEE
Confidence 47999999998 899999888888888888864
No 72
>PF15235 GRIN_C: G protein-regulated inducer of neurite outgrowth C-terminus
Probab=31.54 E-value=82 Score=20.66 Aligned_cols=35 Identities=23% Similarity=0.207 Sum_probs=27.8
Q ss_pred CCCceeEEEeCCCCCCeEEEEeeccCHHHHHHHHhh
Q 035273 20 DADGVDFVGLEGSEKDKVVVIGEGVDAVELAAGLRK 55 (69)
Q Consensus 20 ~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~~~lrK 55 (69)
.-.=|..|..|-+.. +--|.|-.+||+.|=-.++|
T Consensus 40 ~~spVrdV~WDe~GM-TWEVYGAs~DpEvLG~AIQk 74 (137)
T PF15235_consen 40 AKSPVRDVSWDEQGM-TWEVYGASVDPEVLGMAIQK 74 (137)
T ss_pred cCCccccceecCCCc-eEEEeccccCHHHHHHHHHH
Confidence 344588899986643 89999999999998877775
No 73
>COG2092 EFB1 Translation elongation factor EF-1beta [Translation, ribosomal structure and biogenesis]
Probab=31.27 E-value=42 Score=20.44 Aligned_cols=23 Identities=17% Similarity=0.289 Sum_probs=18.7
Q ss_pred hhHHHHHHHHhcCCCceeEEEeC
Q 035273 8 QKCRTQALKHVADADGVDFVGLE 30 (69)
Q Consensus 8 ~~C~~kv~k~~~~~~GV~sv~~d 30 (69)
++---.+-..+..++||+|+++.
T Consensus 61 Eg~td~~ee~l~~vegV~sveve 83 (88)
T COG2092 61 EGGTDALEEALEEVEGVESVEVE 83 (88)
T ss_pred ccCcHHHHHHHhhccCcceEEEE
Confidence 34456788899999999999984
No 74
>PF08712 Nfu_N: Scaffold protein Nfu/NifU N terminal; InterPro: IPR014824 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This domain is found at the N terminus of NifU (from NIF system) and NifU related proteins, and in the human Nfu protein. Both of these proteins are thought to be involved in the assembly of iron-sulphur clusters, functioning as scaffolds [, ]. ; GO: 0005506 iron ion binding; PDB: 2FFM_A 1PQX_A 2K1H_A.
Probab=31.23 E-value=1.1e+02 Score=17.86 Aligned_cols=41 Identities=20% Similarity=0.190 Sum_probs=28.7
Q ss_pred HHHHHhcCCCceeEEEeCCCCCCeEEEEee-ccCHHHHHHHHhhc
Q 035273 13 QALKHVADADGVDFVGLEGSEKDKVVVIGE-GVDAVELAAGLRKK 56 (69)
Q Consensus 13 kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~-~vDp~~l~~~lrKk 56 (69)
-.-+.|-.++||.||-+.. |=|||+-+ .+|-..|...++..
T Consensus 38 pLA~~Lf~i~gV~~Vf~~~---dfItVtK~~~~~W~~l~~~I~~~ 79 (87)
T PF08712_consen 38 PLAQALFAIPGVKSVFIGD---DFITVTKNPDADWEDLKPEIREV 79 (87)
T ss_dssp HHHHHHHTSTTEEEEEEET---TEEEEEE-TTS-HHHHHHHHHHH
T ss_pred HHHHHhcCCCCEeEEEEEC---CEEEEeeCCCCCHHHHHHHHHHH
Confidence 3445566999999999964 47777764 37888888887643
No 75
>PRK06718 precorrin-2 dehydrogenase; Reviewed
Probab=30.90 E-value=1e+02 Score=20.55 Aligned_cols=37 Identities=35% Similarity=0.339 Sum_probs=26.4
Q ss_pred eCCCCCCeEEEEeeccCHHHHHHHHhhccCceeEEecc
Q 035273 29 LEGSEKDKVVVIGEGVDAVELAAGLRKKVGHTDLISVA 66 (69)
Q Consensus 29 ~d~~~k~~vtV~G~~vDp~~l~~~lrKk~~~aelvsv~ 66 (69)
+|.+++ ++.|+|.|==....++.|.+.+.++.++++.
T Consensus 6 l~l~~k-~vLVIGgG~va~~ka~~Ll~~ga~V~VIs~~ 42 (202)
T PRK06718 6 IDLSNK-RVVIVGGGKVAGRRAITLLKYGAHIVVISPE 42 (202)
T ss_pred EEcCCC-EEEEECCCHHHHHHHHHHHHCCCeEEEEcCC
Confidence 455543 8999998666677778888766688888764
No 76
>PF13738 Pyr_redox_3: Pyridine nucleotide-disulphide oxidoreductase; PDB: 3D1C_A 4A9W_B 2YLX_A 2YM2_A 2YLW_A 2YLR_A 2YM1_A 2YLS_A 1W4X_A 2YLT_A ....
Probab=30.67 E-value=81 Score=19.81 Aligned_cols=33 Identities=33% Similarity=0.486 Sum_probs=25.6
Q ss_pred CeEEEEeeccCHHHHHHHHhhccCceeEEeccc
Q 035273 35 DKVVVIGEGVDAVELAAGLRKKVGHTDLISVAE 67 (69)
Q Consensus 35 ~~vtV~G~~vDp~~l~~~lrKk~~~aelvsv~~ 67 (69)
.+|.|+|.|--+.+++..|.+...++.++.=.|
T Consensus 168 k~V~VVG~G~SA~d~a~~l~~~g~~V~~~~R~~ 200 (203)
T PF13738_consen 168 KRVVVVGGGNSAVDIAYALAKAGKSVTLVTRSP 200 (203)
T ss_dssp SEEEEE--SHHHHHHHHHHTTTCSEEEEEESS-
T ss_pred CcEEEEcChHHHHHHHHHHHhhCCEEEEEecCC
Confidence 489999999999999999987777888877555
No 77
>cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases. X family polymerases fill in short gaps during DNA repair. They are relatively inaccurate enzymes and play roles in base excision repair, in non-homologous end joining (NHEJ) which acts mainly to repair damage due to ionizing radiation, and in V(D)J recombination. This family includes eukaryotic Pol beta, Pol lambda, Pol mu, and terminal deoxyribonucleotidyl transferase (TdT). Pol beta and Pol lambda are primarily DNA template-dependent polymerases. TdT is a DNA template-independent polymerase. Pol mu has both template dependent and template independent activities. This subgroup belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These three carboxylate residues are fairly well conserved in this
Probab=30.59 E-value=87 Score=22.37 Aligned_cols=49 Identities=16% Similarity=0.159 Sum_probs=34.3
Q ss_pred hhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccC-------------HHHHHHHHhhcc
Q 035273 8 QKCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVD-------------AVELAAGLRKKV 57 (69)
Q Consensus 8 ~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vD-------------p~~l~~~lrKk~ 57 (69)
+.-...+...+..++++..+++-+.-+-.-...|+ +| +..|+..|++..
T Consensus 144 ~~~a~~i~~~l~~~~~~~~v~i~GS~RRg~et~gD-iDilv~~~~~~~~~~~~~v~~~l~~~~ 205 (307)
T cd00141 144 LAIAEIIKEALREVDPVLQVEIAGSYRRGKETVGD-IDILVTHPDATSRGLLEKVVDALVELG 205 (307)
T ss_pred HHHHHHHHHHHHhCCCceEEEEcccccCCCCccCC-EEEEEecCCccccccHHHHHHHHHhCC
Confidence 44466788888899999999887754333445555 55 778898887543
No 78
>cd04876 ACT_RelA-SpoT ACT domain found C-terminal of the RelA/SpoT domains. ACT_RelA-SpoT: the ACT domain found C-terminal of the RelA/SpoT domains. Enzymes of the Rel/Spo family enable bacteria to survive prolonged periods of nutrient limitation by controlling guanosine-3'-diphosphate-5'-(tri)diphosphate ((p)ppGpp) production and subsequent rRNA repression (stringent response). Both the synthesis of (p)ppGpp from ATP and GDP(GTP), and its hydrolysis to GDP(GTP) and pyrophosphate, are catalyzed by Rel/Spo proteins. In Escherichia coli and its close relatives, the metabolism of (p)ppGpp is governed by two homologous proteins, RelA and SpoT. The RelA protein catalyzes (p)ppGpp synthesis in a reaction requiring its binding to ribosomes bearing codon-specified uncharged tRNA. The major role of the SpoT protein is the breakdown of (p)ppGpp by a manganese-dependent (p)ppGpp pyrophosphohydrolase activity. Although the stringent response appears to be tightly regulated by these two enzymes i
Probab=30.34 E-value=63 Score=15.68 Aligned_cols=20 Identities=15% Similarity=0.165 Sum_probs=15.4
Q ss_pred hHHHHHHHHhcCCCceeEEE
Q 035273 9 KCRTQALKHVADADGVDFVG 28 (69)
Q Consensus 9 ~C~~kv~k~~~~~~GV~sv~ 28 (69)
.=-..+.+.+..++||..++
T Consensus 51 ~~~~~~~~~l~~~~~v~~v~ 70 (71)
T cd04876 51 EHLARIMRKLRQIPGVIDVR 70 (71)
T ss_pred HHHHHHHHHHhCCCCcEEEE
Confidence 34567888899999998764
No 79
>PRK06136 uroporphyrin-III C-methyltransferase; Reviewed
Probab=30.12 E-value=73 Score=21.37 Aligned_cols=31 Identities=19% Similarity=0.278 Sum_probs=26.6
Q ss_pred CeEEEEeecc-CHHHHHHHHhhccCceeEEec
Q 035273 35 DKVVVIGEGV-DAVELAAGLRKKVGHTDLISV 65 (69)
Q Consensus 35 ~~vtV~G~~v-Dp~~l~~~lrKk~~~aelvsv 65 (69)
+++.++|-|. ||.-|+-+-.+...+|++|-.
T Consensus 3 g~l~iVGvGpGdp~~lT~~A~~~L~~advI~~ 34 (249)
T PRK06136 3 GKVYLVGAGPGDPDLITLKGVRLLEQADVVLY 34 (249)
T ss_pred cEEEEEEECCCChHHHHHHHHHHHhcCCEEEE
Confidence 5899999988 899999988888888888764
No 80
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=30.10 E-value=77 Score=21.37 Aligned_cols=42 Identities=14% Similarity=0.257 Sum_probs=31.7
Q ss_pred HHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccCHHH-HHHHHhh
Q 035273 12 TQALKHVADADGVDFVGLEGSEKDKVVVIGEGVDAVE-LAAGLRK 55 (69)
Q Consensus 12 ~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vDp~~-l~~~lrK 55 (69)
+.+...|+.+--++||+.-+. ++-++|-++ ++.++ -++.++.
T Consensus 105 ~sV~~~Ls~fGpI~SVT~cGr-qsavVvF~d-~~SAC~Av~Af~s 147 (166)
T PF15023_consen 105 KSVIQRLSVFGPIQSVTLCGR-QSAVVVFKD-ITSACKAVSAFQS 147 (166)
T ss_pred HHHHHHHHhcCCcceeeecCC-ceEEEEehh-hHHHHHHHHhhcC
Confidence 567888999999999999997 567888888 65443 4444443
No 81
>COG3643 Glutamate formiminotransferase [Amino acid transport and metabolism]
Probab=29.81 E-value=1e+02 Score=22.54 Aligned_cols=50 Identities=12% Similarity=0.248 Sum_probs=34.0
Q ss_pred HHHHHHHhcCCCceeEEEeCCCCCC-e--EEEEeeccCHHHHHHHHhhccC-ceeEE
Q 035273 11 RTQALKHVADADGVDFVGLEGSEKD-K--VVVIGEGVDAVELAAGLRKKVG-HTDLI 63 (69)
Q Consensus 11 ~~kv~k~~~~~~GV~sv~~d~~~k~-~--vtV~G~~vDp~~l~~~lrKk~~-~aelv 63 (69)
-.++.+.+.+.++|.-++++++... + +|+.| ||..+++..-.-.+ .+|++
T Consensus 20 ie~i~a~~~~~~~v~ildve~danhNRsViT~vg---dp~~~~~A~f~~ik~AaelI 73 (302)
T COG3643 20 IEKIVAAAKSIPTVKILDVEMDANHNRSVITLVG---DPSKVVNAAFALIKKAAELI 73 (302)
T ss_pred HHHHHHHHhcCCceEEEEeccCCCCCceEEEEec---ChHHHHHHHHHHHHHHHHhh
Confidence 3577888899999998777766433 2 55555 48888887765444 44544
No 82
>PF11731 Cdd1: Pathogenicity locus; InterPro: IPR021725 Cdd1 is expressed as part of the pathogenicity locus operon in several different orders of bacteria []. Many members of the family are annotated as being putative mitomycin resistance proteins but this could not be confirmed.
Probab=29.81 E-value=42 Score=20.49 Aligned_cols=49 Identities=27% Similarity=0.364 Sum_probs=33.7
Q ss_pred eechhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEe-------eccCHHHHHHHHhhccC
Q 035273 5 MNCQKCRTQALKHVADADGVDFVGLEGSEKDKVVVIG-------EGVDAVELAAGLRKKVG 58 (69)
Q Consensus 5 m~c~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G-------~~vDp~~l~~~lrKk~~ 58 (69)
||=.++.++..+.+..+|||---... -+.-.| .+-||.+|..+|....+
T Consensus 1 m~p~k~~~~~~~~L~~iP~IG~a~a~-----DL~~LGi~s~~~L~g~dP~~Ly~~lc~~~G 56 (93)
T PF11731_consen 1 MNPAKVKRAGLSDLTDIPNIGKATAE-----DLRLLGIRSPADLKGRDPEELYERLCALTG 56 (93)
T ss_pred CChHHHHHHHHHHHhcCCCccHHHHH-----HHHHcCCCCHHHHhCCCHHHHHHHHHHHcC
Confidence 67788999999999999998532210 111122 13699999999987665
No 83
>cd07422 MPP_ApaH Escherichia coli ApaH and related proteins, metallophosphatase domain. ApaH (also known as symmetrically cleaving Ap4A hydrolase and bis(5'nucleosyl)-tetraphosphatase) is a bacterial member of the PPP (phosphoprotein phosphatase) family of serine/threonine phosphatases that hydrolyzes the nucleotide-signaling molecule diadenosine tetraphosphate (Ap(4)A) into two ADP and also hydrolyzes Ap(5)A, Gp(4)G, and other extending compounds. Null mutations in apaH result in high intracellular levels of Ap(4)A which correlate with multiple phenotypes, including a decreased expression of catabolite-repressible genes, a reduction in the expression of flagellar operons, and an increased sensitivity to UV and heat. Ap4A hydrolase is important in responding to heat shock and oxidative stress via regulating the concentration of Ap4A in bacteria. Ap4A hydrolase is also thought to play a role in siderophore production, but the mechanism by which ApaH interacts with siderophore pathwa
Probab=29.78 E-value=1.9e+02 Score=20.29 Aligned_cols=41 Identities=15% Similarity=0.344 Sum_probs=29.1
Q ss_pred hHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccC----HHHHHHHHhhc
Q 035273 9 KCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVD----AVELAAGLRKK 56 (69)
Q Consensus 9 ~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vD----p~~l~~~lrKk 56 (69)
||-....+.+.++. .+.. .+++...||-|| +.++++.|++.
T Consensus 9 G~~~~L~~LL~~i~------~~~~-~D~Li~lGDlVdRGp~s~evl~~l~~l 53 (257)
T cd07422 9 GCYDELQRLLEKIN------FDPA-KDRLWLVGDLVNRGPDSLETLRFVKSL 53 (257)
T ss_pred CCHHHHHHHHHhcC------CCCC-CCEEEEecCcCCCCcCHHHHHHHHHhc
Confidence 56666666666542 3333 479999999666 99999999864
No 84
>PRK05576 cobalt-precorrin-2 C(20)-methyltransferase; Validated
Probab=29.43 E-value=78 Score=21.23 Aligned_cols=31 Identities=23% Similarity=0.279 Sum_probs=24.8
Q ss_pred CeEEEEeecc-CHHHHHHHHhhccCceeEEec
Q 035273 35 DKVVVIGEGV-DAVELAAGLRKKVGHTDLISV 65 (69)
Q Consensus 35 ~~vtV~G~~v-Dp~~l~~~lrKk~~~aelvsv 65 (69)
+++.++|-|. ||..|+-+..+...+|++|-.
T Consensus 2 ~~l~vVG~GpG~~~~lT~~a~~~l~~advV~~ 33 (229)
T PRK05576 2 GKLYGIGLGPGDPELLTVKAARILEEADVVYA 33 (229)
T ss_pred CEEEEEEeCCCChHHHHHHHHHHHhcCCEEEE
Confidence 4788999888 788888888877888887754
No 85
>KOG3476 consensus Microtubule-associated protein CRIPT [Cytoskeleton]
Probab=28.88 E-value=24 Score=21.78 Aligned_cols=15 Identities=33% Similarity=0.744 Sum_probs=11.9
Q ss_pred eechhHHHHHHHHhc
Q 035273 5 MNCQKCRTQALKHVA 19 (69)
Q Consensus 5 m~c~~C~~kv~k~~~ 19 (69)
|-|++|+.|.-+++.
T Consensus 1 MVC~kCEkKLskvi~ 15 (100)
T KOG3476|consen 1 MVCEKCEKKLSKVIG 15 (100)
T ss_pred CchhHHHHHhccccc
Confidence 679999999776653
No 86
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=28.87 E-value=23 Score=17.92 Aligned_cols=11 Identities=27% Similarity=1.165 Sum_probs=8.7
Q ss_pred eeeeechhHHH
Q 035273 2 KVQMNCQKCRT 12 (69)
Q Consensus 2 KV~m~c~~C~~ 12 (69)
+|+++|..|.+
T Consensus 3 ~i~v~CP~C~s 13 (36)
T PF03811_consen 3 KIDVHCPRCQS 13 (36)
T ss_pred cEeeeCCCCCC
Confidence 57889988864
No 87
>smart00653 eIF2B_5 domain present in translation initiation factor eIF2B and eIF5.
Probab=28.78 E-value=1.2e+02 Score=18.80 Aligned_cols=29 Identities=21% Similarity=0.402 Sum_probs=23.1
Q ss_pred EEeCCCCCCeEEEEeeccCHHHHHHHHhhccC
Q 035273 27 VGLEGSEKDKVVVIGEGVDAVELAAGLRKKVG 58 (69)
Q Consensus 27 v~~d~~~k~~vtV~G~~vDp~~l~~~lrKk~~ 58 (69)
..+|++ +++++.|. .++..+-+.|++...
T Consensus 50 g~id~~--~rlii~G~-~~~~~i~~~l~~yI~ 78 (110)
T smart00653 50 GSIDGK--GRLIVNGR-FTPKKLQDLLRRYIK 78 (110)
T ss_pred eeECCC--CeEEEEEe-eCHHHHHHHHHHHHH
Confidence 355643 79999999 999999999986553
No 88
>PF15643 Tox-PL-2: Papain fold toxin 2
Probab=28.63 E-value=43 Score=20.86 Aligned_cols=16 Identities=13% Similarity=0.486 Sum_probs=13.7
Q ss_pred eeechhHHHHHHHHhc
Q 035273 4 QMNCQKCRTQALKHVA 19 (69)
Q Consensus 4 ~m~c~~C~~kv~k~~~ 19 (69)
.++|..|++.+++.|.
T Consensus 18 ~~qC~~cA~Al~~~L~ 33 (100)
T PF15643_consen 18 IFQCVECASALKQFLK 33 (100)
T ss_pred ceehHHHHHHHHHHHH
Confidence 3689999999999874
No 89
>PF10678 DUF2492: Protein of unknown function (DUF2492); InterPro: IPR019620 This entry describes a family of small cytosolic proteins, about 80 amino acids in length, in which the eight invariant residues include three His residues and two Cys residues. Two pairs of these invariant residues occur in motifs HxH (where x is A or G) and CxH, both of which suggest metal-binding activity. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulphatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulphur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulphatase/maturase systems.
Probab=28.43 E-value=56 Score=19.37 Aligned_cols=23 Identities=26% Similarity=0.205 Sum_probs=19.2
Q ss_pred EEEEeeccCHHHHHHHHhhccCc
Q 035273 37 VVVIGEGVDAVELAAGLRKKVGH 59 (69)
Q Consensus 37 vtV~G~~vDp~~l~~~lrKk~~~ 59 (69)
-|-.++++|+..|+..|.++++.
T Consensus 40 hTCSae~m~a~eLv~FL~~rgKf 62 (78)
T PF10678_consen 40 HTCSAEGMTADELVDFLEERGKF 62 (78)
T ss_pred EecCCCCCCHHHHHHHHHHcCCE
Confidence 57778889999999999877763
No 90
>PRK04435 hypothetical protein; Provisional
Probab=28.35 E-value=65 Score=20.63 Aligned_cols=22 Identities=27% Similarity=0.302 Sum_probs=18.8
Q ss_pred hHHHHHHHHhcCCCceeEEEeC
Q 035273 9 KCRTQALKHVADADGVDFVGLE 30 (69)
Q Consensus 9 ~C~~kv~k~~~~~~GV~sv~~d 30 (69)
..-..++..|..++||.+|++=
T Consensus 123 ~~L~~Li~~L~~i~gV~~V~i~ 144 (147)
T PRK04435 123 GDIDELLEKLRNLDGVEKVELI 144 (147)
T ss_pred HHHHHHHHHHHcCCCcEEEEEE
Confidence 3667899999999999999874
No 91
>PRK05096 guanosine 5'-monophosphate oxidoreductase; Provisional
Probab=27.95 E-value=1.4e+02 Score=22.46 Aligned_cols=50 Identities=12% Similarity=0.156 Sum_probs=37.7
Q ss_pred hhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccCHHHHHHHHhhccCceeEEe
Q 035273 8 QKCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVDAVELAAGLRKKVGHTDLIS 64 (69)
Q Consensus 8 ~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~~~lrKk~~~aelvs 64 (69)
+....++.+.+....|++-+.+|..+ |...-..+.++++|+.+++.+|+.
T Consensus 107 ~~d~er~~~L~~~~~g~D~iviD~Ah-------Ghs~~~i~~ik~ik~~~P~~~vIa 156 (346)
T PRK05096 107 DADFEKTKQILALSPALNFICIDVAN-------GYSEHFVQFVAKAREAWPDKTICA 156 (346)
T ss_pred HHHHHHHHHHHhcCCCCCEEEEECCC-------CcHHHHHHHHHHHHHhCCCCcEEE
Confidence 35567777777778999999999863 554557778888888888777653
No 92
>PF01253 SUI1: Translation initiation factor SUI1; InterPro: IPR001950 In Saccharomyces cerevisiae (Baker's yeast), SUI1 is a translation initiation factor that functions in concert with eIF-2 and the initiator tRNA-Met in directing the ribosome to the proper start site of translation []. SUI1 is a protein of 108 residues. Close homologs of SUI1 have been found [] in mammals, insects and plants. SUI1 is also evolutionary related to hypothetical proteins from Escherichia coli (yciH), Haemophilus influenzae (HI1225) and Methanococcus vannielii.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2OGH_A 1D1R_A 2IF1_A 2XZN_F 2XZM_F.
Probab=27.69 E-value=48 Score=19.08 Aligned_cols=28 Identities=32% Similarity=0.466 Sum_probs=19.9
Q ss_pred eEEEEee----ccCHHHHHHHHhhccC-ceeEE
Q 035273 36 KVVVIGE----GVDAVELAAGLRKKVG-HTDLI 63 (69)
Q Consensus 36 ~vtV~G~----~vDp~~l~~~lrKk~~-~aelv 63 (69)
.||++.. ++|+.++++.|++++. .+.+.
T Consensus 19 ~vT~V~gl~~~~~d~~~lak~lkk~~ac~~sv~ 51 (83)
T PF01253_consen 19 FVTIVSGLELFGIDLKELAKELKKKFACGGSVT 51 (83)
T ss_dssp EEEEEES--STTSHHHHHHHHHHHHHTS-EEEE
T ss_pred EEEEEECCcccccCHHHHHHHHHHhccCceEEe
Confidence 4665542 5789999999998887 55553
No 93
>PF00988 CPSase_sm_chain: Carbamoyl-phosphate synthase small chain, CPSase domain; InterPro: IPR002474 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the N-terminal domain of the small subunit of carbamoyl phosphate synthase. The small subunit has a 3-layer beta/beta/alpha structure, and is thought to be mobile in most proteins that carry it. The C-terminal domain of the small subunit of CPSase has glutamine amidotransferase activity.; GO: 0006807 nitrogen compound metabolic process; PDB: 1CE8_B 1KEE_B 1CS0_D 1T36_D 1M6V_H 1A9X_F 1JDB_I 1BXR_F 1C3O_B 1C30_F ....
Probab=26.81 E-value=66 Score=20.77 Aligned_cols=26 Identities=27% Similarity=0.254 Sum_probs=16.1
Q ss_pred eEEEEeeccCHHHHHHHHhhccC-ceeE
Q 035273 36 KVVVIGEGVDAVELAAGLRKKVG-HTDL 62 (69)
Q Consensus 36 ~vtV~G~~vDp~~l~~~lrKk~~-~ael 62 (69)
.+-..-. +|.-.|+++||+++- ++-|
T Consensus 104 ~ipgi~g-vDTRaLt~~lR~~G~m~g~I 130 (131)
T PF00988_consen 104 GIPGISG-VDTRALTRKLREKGSMKGVI 130 (131)
T ss_dssp T-EEEES-S-HHHHHHHHHHH--EEEEE
T ss_pred CCeeeeC-CcHHHHHHHHHhcCCceEEE
Confidence 4444444 999999999998765 5544
No 94
>PF15174 PRNT: Prion-related protein testis-specific
Probab=26.81 E-value=11 Score=20.66 Aligned_cols=17 Identities=24% Similarity=0.743 Sum_probs=12.5
Q ss_pred CeeeeechhHHHHHHHH
Q 035273 1 MKVQMNCQKCRTQALKH 17 (69)
Q Consensus 1 lKV~m~c~~C~~kv~k~ 17 (69)
|..+..|+.|.|+..|+
T Consensus 33 LqiPvDcQACnRkskki 49 (51)
T PF15174_consen 33 LQIPVDCQACNRKSKKI 49 (51)
T ss_pred hcCCcchhhhcccccee
Confidence 34577899999887654
No 95
>KOG3166 consensus 60S ribosomal protein L7A [Translation, ribosomal structure and biogenesis]
Probab=26.43 E-value=44 Score=23.35 Aligned_cols=33 Identities=33% Similarity=0.371 Sum_probs=23.4
Q ss_pred CCceeEEEeCCCCC-CeEEEEeeccCHHHHHHHH
Q 035273 21 ADGVDFVGLEGSEK-DKVVVIGEGVDAVELAAGL 53 (69)
Q Consensus 21 ~~GV~sv~~d~~~k-~~vtV~G~~vDp~~l~~~l 53 (69)
-.||..|+.=.+.+ .+++|+...+||.+|+-.|
T Consensus 111 ~~gvnTVttLVenKKAQLVV~ahDvDPIELVvFL 144 (209)
T KOG3166|consen 111 RAGVNTVTTLVENKKAQLVVTAHDVDPIELVVFL 144 (209)
T ss_pred ccCcceEeehhhccccceeEEecccCchhheeec
Confidence 35777776544433 5788888779999997655
No 96
>PRK12788 flgH flagellar basal body L-ring protein; Reviewed
Probab=26.12 E-value=59 Score=22.89 Aligned_cols=28 Identities=18% Similarity=0.167 Sum_probs=24.1
Q ss_pred CCceeEEEeCCCCCCeEEEEeeccCHHHHH
Q 035273 21 ADGVDFVGLEGSEKDKVVVIGEGVDAVELA 50 (69)
Q Consensus 21 ~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~ 50 (69)
++|=..|.++.+ ...+.|.|- |.|.++-
T Consensus 165 I~G~kev~vN~e-~~~i~vsGv-VRP~DI~ 192 (234)
T PRK12788 165 ISGSQEVRVNYE-MRVLNVGGI-VRPLDIT 192 (234)
T ss_pred EEEEEEEEECCC-EEEEEEEEE-ECHHHCC
Confidence 678899999987 569999999 9998874
No 97
>cd06471 ACD_LpsHSP_like Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. Transcription of the genes encoding Lp HSP 18.5, 18.55 and 19.3 is regulated by a variety of stresses including heat, cold and ethanol. Early growing L. plantarum cells contain elevated levels of these mRNAs which rapidly fall of as the cells enter stationary phase. Also belonging to this group is Bifidobacterium breve (Bb) HSP20 and Oenococcus oenis (syn. Leuconostoc oenos) (Oo) HSP18. Transcription of the gene encoding BbHSP20 is strongly induced following heat or osmotic shock, and that of the gene encoding OoHSP18 following heat, ethanol or acid shock. OoHSP18 is peripherally associated with the cytoplasmic me
Probab=25.98 E-value=40 Score=19.34 Aligned_cols=23 Identities=17% Similarity=0.265 Sum_probs=16.6
Q ss_pred cCCCce--eEEEeCCCCCCeEEEEee
Q 035273 19 ADADGV--DFVGLEGSEKDKVVVIGE 42 (69)
Q Consensus 19 ~~~~GV--~sv~~d~~~k~~vtV~G~ 42 (69)
..+||+ +.+++..+ .+.|+|.|+
T Consensus 16 ~~lPGv~~edi~v~~~-~~~L~I~g~ 40 (93)
T cd06471 16 ADLPGFKKEDIKLDYK-DGYLTISAK 40 (93)
T ss_pred EECCCCCHHHeEEEEE-CCEEEEEEE
Confidence 457787 45666665 479999998
No 98
>PF06727 DUF1207: Protein of unknown function (DUF1207); InterPro: IPR009599 This family consists of a number of hypothetical bacterial proteins of around 410 residues in length, which seem to be specific to Chlamydia species. The function of this family is unknown.
Probab=25.91 E-value=61 Score=24.10 Aligned_cols=20 Identities=15% Similarity=0.267 Sum_probs=18.4
Q ss_pred HHHHHHhcCCCceeEEEeCC
Q 035273 12 TQALKHVADADGVDFVGLEG 31 (69)
Q Consensus 12 ~kv~k~~~~~~GV~sv~~d~ 31 (69)
.++-+.+..++||++|++..
T Consensus 30 ~~~~~~~~~~p~~~~v~~~~ 49 (338)
T PF06727_consen 30 AKIVQFLKEIPGVTSVEICE 49 (338)
T ss_pred HHHHHHHHhCCCcceEEeee
Confidence 78899999999999999965
No 99
>PRK08609 hypothetical protein; Provisional
Probab=25.45 E-value=60 Score=25.32 Aligned_cols=47 Identities=13% Similarity=0.088 Sum_probs=32.9
Q ss_pred hhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccC-------HHHHHHHHhh
Q 035273 8 QKCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVD-------AVELAAGLRK 55 (69)
Q Consensus 8 ~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vD-------p~~l~~~lrK 55 (69)
..-+..+...+..++++..+++-+.-+-.-...|+ +| |..+...|.+
T Consensus 159 ~~~a~~i~~~l~~~~~~~~v~~~GS~RR~~et~gD-iDili~~~~~~~~~~~l~~ 212 (570)
T PRK08609 159 LPIAQEIEEYLATIDEIIRFSRAGSLRRARETVKD-LDFIIATDEPEAVREQLLQ 212 (570)
T ss_pred HHHHHHHHHHHHhCCCccEEEeccchhccccccCC-eeEEEecCCHHHHHHHHHc
Confidence 34456777888999999999998754433444555 54 7788877763
No 100
>PF14106 DUF4279: Domain of unknown function (DUF4279)
Probab=24.70 E-value=41 Score=19.96 Aligned_cols=16 Identities=25% Similarity=0.397 Sum_probs=13.2
Q ss_pred EEeeccCHHHHHHHHh
Q 035273 39 VIGEGVDAVELAAGLR 54 (69)
Q Consensus 39 V~G~~vDp~~l~~~lr 54 (69)
+.|+.+||..+++.|-
T Consensus 1 i~g~~~~p~eiT~~Lg 16 (118)
T PF14106_consen 1 IYGDDFDPDEITRLLG 16 (118)
T ss_pred CCCCCCCHHHHHHHHC
Confidence 3577799999999885
No 101
>smart00790 AFOR_N Aldehyde ferredoxin oxidoreductase, N-terminal domain. Enzymes of the aldehyde ferredoxin oxidoreductase (AOR) family PUBMED:9242907 contain a tungsten cofactor and an 4Fe4S cluster and catalyse the interconversion of aldehydes to carboxylates PUBMED:8672295. This family includes AOR, formaldehyde ferredoxin oxidoreductase (FOR), glyceraldehyde-3-phosphate ferredoxin oxidoreductase (GAPOR), all isolated from hyperthermophilic archea PUBMED:9242907; carboxylic acid reductase found in clostridia PUBMED:2550230; and hydroxycarboxylate viologen oxidoreductase from Proteus vulgaris, the sole member of the AOR family containing molybdenum PUBMED:8026480. GAPOR may be involved in glycolysis PUBMED:7721730, but the functions of the other proteins are not yet clear. AOR has been proposed to be the primary enzyme responsible for oxidising the aldehydes that are produced by the 2-keto acid oxidoreductases PUBMED:9275170.
Probab=24.69 E-value=82 Score=21.51 Aligned_cols=48 Identities=21% Similarity=0.370 Sum_probs=32.1
Q ss_pred CCceeEEEeCCCCCC--eEEEEee-----------ccCHHHHHHHHhhccCceeEEecccC
Q 035273 21 ADGVDFVGLEGSEKD--KVVVIGE-----------GVDAVELAAGLRKKVGHTDLISVAEI 68 (69)
Q Consensus 21 ~~GV~sv~~d~~~k~--~vtV~G~-----------~vDp~~l~~~lrKk~~~aelvsv~~~ 68 (69)
.-|.+.+.+.+.... -+.|..+ +.|..+..++|++.++++.+++++|+
T Consensus 100 ~aG~daivi~G~a~~pv~l~I~~d~V~~~~A~~lwG~~~~~t~~~l~~~~g~~~v~~IGpA 160 (199)
T smart00790 100 RAGYDALVIEGKAEKPVYLVIEDDEVEIRDASELWGKGVYETTRALKKEHGKASVAVIGPA 160 (199)
T ss_pred HCCCCEEEEEecCCCCEEEEEECCEEEEEEchHhcCCCHHHHHHHHHHHhCCeEEEEEchH
Confidence 346667776665322 1333332 35777888999988888999999885
No 102
>PRK12698 flgH flagellar basal body L-ring protein; Reviewed
Probab=24.59 E-value=68 Score=22.33 Aligned_cols=29 Identities=10% Similarity=0.320 Sum_probs=24.2
Q ss_pred CCCceeEEEeCCCCCCeEEEEeeccCHHHHH
Q 035273 20 DADGVDFVGLEGSEKDKVVVIGEGVDAVELA 50 (69)
Q Consensus 20 ~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~ 50 (69)
-++|-..+.++.+ .+.+.+.|- |.|.++-
T Consensus 153 ~I~GeK~i~vN~~-~e~I~lsGv-VRP~DI~ 181 (224)
T PRK12698 153 VIRGEKWISINNG-DEFIRLTGI-VRSQDIT 181 (224)
T ss_pred EEEEEEEEEECCC-EEEEEEEEE-ECHHHCC
Confidence 3678899999987 569999998 9998874
No 103
>cd04874 ACT_Af1403 N-terminal ACT domain of the yet uncharacterized, small (~133 a.a.), putative amino acid binding protein, Af1403, and related domains. This CD includes the N-terminal ACT domain of the yet uncharacterized, small (~133 a.a.), putative amino acid binding protein, Af1403, from Archaeoglobus fulgidus and other related archeal ACT domains. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.54 E-value=1e+02 Score=15.74 Aligned_cols=20 Identities=10% Similarity=-0.029 Sum_probs=15.6
Q ss_pred HHHHHHHHhcCCCceeEEEe
Q 035273 10 CRTQALKHVADADGVDFVGL 29 (69)
Q Consensus 10 C~~kv~k~~~~~~GV~sv~~ 29 (69)
-...+++.+.+++||..+.+
T Consensus 52 ~~~~~~~~L~~~~~v~~v~~ 71 (72)
T cd04874 52 DIEELVEELRSLPIVREVEI 71 (72)
T ss_pred cHHHHHHHHhCCCCeEEEEe
Confidence 34577888999999988765
No 104
>PRK00249 flgH flagellar basal body L-ring protein; Reviewed
Probab=24.47 E-value=69 Score=22.19 Aligned_cols=29 Identities=17% Similarity=0.179 Sum_probs=24.5
Q ss_pred CCCceeEEEeCCCCCCeEEEEeeccCHHHHH
Q 035273 20 DADGVDFVGLEGSEKDKVVVIGEGVDAVELA 50 (69)
Q Consensus 20 ~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~ 50 (69)
-++|=..+.++.+ ...+.+.|- |.|.++-
T Consensus 152 vI~G~K~i~vN~e-~~~i~lsGi-VRP~DI~ 180 (222)
T PRK00249 152 VIRGEKEVRVNQG-TEFLRVSGV-VRPRDIS 180 (222)
T ss_pred EEEEEEEEEECCC-EEEEEEEEE-ECHHHCC
Confidence 3678899999987 569999999 9999874
No 105
>TIGR00668 apaH bis(5'-nucleosyl)-tetraphosphatase (symmetrical). Alternate names include diadenosine-tetraphosphatase and Ap4A hydrolase.
Probab=24.01 E-value=2.5e+02 Score=20.16 Aligned_cols=46 Identities=11% Similarity=0.219 Sum_probs=31.9
Q ss_pred hhHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccC----HHHHHHHHhhccCce
Q 035273 8 QKCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVD----AVELAAGLRKKVGHT 60 (69)
Q Consensus 8 ~~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vD----p~~l~~~lrKk~~~a 60 (69)
.||-....+.+.++. .+.. .+++...||-+| +.++++.++.-...+
T Consensus 10 HGc~daL~~LL~~i~------f~~~-~D~l~~lGDlVdRGP~slevL~~l~~l~~~~ 59 (279)
T TIGR00668 10 HGCYDELQALLERVE------FDPG-QDTLWLTGDLVARGPGSLEVLRYVKSLGDAV 59 (279)
T ss_pred cCCHHHHHHHHHHhC------cCCC-CCEEEEeCCccCCCCCHHHHHHHHHhcCCCe
Confidence 367777777777653 3333 478999998554 899999998543333
No 106
>COG3062 NapD Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]
Probab=23.72 E-value=1.9e+02 Score=17.84 Aligned_cols=44 Identities=18% Similarity=0.237 Sum_probs=33.6
Q ss_pred hHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccCHHHHHHHHh
Q 035273 9 KCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVDAVELAAGLR 54 (69)
Q Consensus 9 ~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~~~lr 54 (69)
.=...++..|+.+||++=..-|.+ +|++|+=+.=|...|+..+.
T Consensus 18 e~l~av~~~L~~ip~~EV~~~d~~--GKlVVVie~~~~~~l~~tie 61 (94)
T COG3062 18 ERLSAVKTALLAIPGCEVYGEDAE--GKLVVVIEAEDSETLLETIE 61 (94)
T ss_pred HHHHHHHHHHhcCCCcEeeccCCC--ceEEEEEEcCchHHHHHHHH
Confidence 335678899999999998877764 68777766567888877765
No 107
>PRK00166 apaH diadenosine tetraphosphatase; Reviewed
Probab=23.65 E-value=2.4e+02 Score=19.89 Aligned_cols=41 Identities=17% Similarity=0.368 Sum_probs=29.5
Q ss_pred hHHHHHHHHhcCCCceeEEEeCCCCCCeEEEEeeccC----HHHHHHHHhhc
Q 035273 9 KCRTQALKHVADADGVDFVGLEGSEKDKVVVIGEGVD----AVELAAGLRKK 56 (69)
Q Consensus 9 ~C~~kv~k~~~~~~GV~sv~~d~~~k~~vtV~G~~vD----p~~l~~~lrKk 56 (69)
||-....+.+.++. .+.. .+++.+.||-+| +..+++.|++.
T Consensus 11 G~~~~l~~ll~~~~------~~~~-~D~li~lGDlVdrGp~s~~vl~~l~~l 55 (275)
T PRK00166 11 GCYDELQRLLEKID------FDPA-KDTLWLVGDLVNRGPDSLEVLRFVKSL 55 (275)
T ss_pred CCHHHHHHHHHhcC------CCCC-CCEEEEeCCccCCCcCHHHHHHHHHhc
Confidence 67777777777641 2222 368999999665 99999999854
No 108
>cd06472 ACD_ScHsp26_like Alpha crystallin domain (ACD) found in Saccharomyces cerevisiae (Sc) small heat shock protein (Hsp)26 and similar proteins. sHsps are molecular chaperones that suppress protein aggregation and protect against cell stress, and are generally active as large oligomers consisting of multiple subunits. ScHsp26 is temperature-regulated, it switches from an inactive to a chaperone-active form upon elevation in temperature. It associates into large 24-mers storage forms which upon heat shock disassociate into dimers. These dimers initiate the interaction with non-native substrate proteins and re-assemble into large globular assemblies having one monomer of substrate bound per dimer. This group also contains Arabidopsis thaliana (Ath) Hsp15.7, a peroxisomal matrix protein which can complement the morphological phenotype of S. cerevisiae mutants deficient in Hsps26. AthHsp15.7 is minimally expressed under normal conditions and is strongly induced by heat and oxidative st
Probab=23.46 E-value=68 Score=18.43 Aligned_cols=24 Identities=33% Similarity=0.390 Sum_probs=15.8
Q ss_pred cCCCcee--EEEeCCCCCCeEEEEee
Q 035273 19 ADADGVD--FVGLEGSEKDKVVVIGE 42 (69)
Q Consensus 19 ~~~~GV~--sv~~d~~~k~~vtV~G~ 42 (69)
..+||+. .+.++..+.+.|+|.|+
T Consensus 15 ~~lPGv~~edi~i~v~~~~~L~I~g~ 40 (92)
T cd06472 15 ADVPGVKKEDVKVEVEDGRVLRISGE 40 (92)
T ss_pred EECCCCChHhEEEEEeCCCEEEEEEE
Confidence 4678885 45555442248999997
No 109
>PRK00378 nucleoid-associated protein NdpA; Validated
Probab=23.34 E-value=1e+02 Score=22.05 Aligned_cols=29 Identities=14% Similarity=0.323 Sum_probs=23.2
Q ss_pred eEEEeCCCCCCeEEEEeeccCHHHHHHHHhhcc
Q 035273 25 DFVGLEGSEKDKVVVIGEGVDAVELAAGLRKKV 57 (69)
Q Consensus 25 ~sv~~d~~~k~~vtV~G~~vDp~~l~~~lrKk~ 57 (69)
+.|..|.+ .+++|+.|- |..|.+.|++..
T Consensus 303 ~~i~yd~~-~~~ltI~~~---p~~l~~ql~r~~ 331 (334)
T PRK00378 303 ERIFYDPA-TDTLTIKGT---PPNLRDQLQRRL 331 (334)
T ss_pred CceEEcCC-CCEEEEeCC---CHHHHHHHHHHh
Confidence 47888876 689999997 888888886543
No 110
>PRK12697 flgH flagellar basal body L-ring protein; Reviewed
Probab=22.82 E-value=75 Score=22.27 Aligned_cols=29 Identities=14% Similarity=0.148 Sum_probs=24.2
Q ss_pred CCCceeEEEeCCCCCCeEEEEeeccCHHHHH
Q 035273 20 DADGVDFVGLEGSEKDKVVVIGEGVDAVELA 50 (69)
Q Consensus 20 ~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~ 50 (69)
-++|=..+.++.+ ...+.+.|- |.|.++-
T Consensus 156 ~I~GeK~i~vN~e-~e~IrlsGv-VRP~DI~ 184 (226)
T PRK12697 156 VVSGEKQMLINQG-NEFVRFSGV-VNPNTIS 184 (226)
T ss_pred EEEEEEEEEECCC-EEEEEEEEE-ECHHHCC
Confidence 3678889999987 568999998 9998874
No 111
>PF03958 Secretin_N: Bacterial type II/III secretion system short domain; InterPro: IPR005644 This is a group of NolW-like proteins, which are closely related to bacterial type II and III secretion system protein (IPR004846 from INTERPRO).; PDB: 3EZJ_C 2Y3M_A 3OSS_D.
Probab=22.31 E-value=1.5e+02 Score=16.17 Aligned_cols=23 Identities=13% Similarity=0.212 Sum_probs=16.5
Q ss_pred EEEeCCCCCCeEEEEeeccCHHHH
Q 035273 26 FVGLEGSEKDKVVVIGEGVDAVEL 49 (69)
Q Consensus 26 sv~~d~~~k~~vtV~G~~vDp~~l 49 (69)
+|..|.. .|.|.|.|..-+-..+
T Consensus 47 ~i~~d~~-tNsliv~g~~~~~~~i 69 (82)
T PF03958_consen 47 RIVADER-TNSLIVRGTPEDLEQI 69 (82)
T ss_dssp EEEEECT-TTEEEEEEEHHHHHHH
T ss_pred EEEEECC-CCEEEEEeCHHHHHHH
Confidence 8888876 5899999983333333
No 112
>PRK06737 acetolactate synthase 1 regulatory subunit; Validated
Probab=22.00 E-value=1.8e+02 Score=16.89 Aligned_cols=34 Identities=18% Similarity=0.229 Sum_probs=19.6
Q ss_pred ceeEEEeCCCCC-C----eEEEEeeccCHHHHHHHHhhc
Q 035273 23 GVDFVGLEGSEK-D----KVVVIGEGVDAVELAAGLRKK 56 (69)
Q Consensus 23 GV~sv~~d~~~k-~----~vtV~G~~vDp~~l~~~lrKk 56 (69)
-++|+++..-+. + ++++.|+.-....+.++|.|.
T Consensus 29 NI~Sl~vg~te~~~~sriti~~~~~~~~i~qi~kQL~KL 67 (76)
T PRK06737 29 YISSLNLNERDTSGVSEMKLTAVCTENEATLLVSQLKKL 67 (76)
T ss_pred ceEEEEecccCCCCeeEEEEEEECCHHHHHHHHHHHhCC
Confidence 367777764322 2 456667644456667777654
No 113
>cd04902 ACT_3PGDH-xct C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). The C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with an extended C-terminal (xct) region from bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. Some 3PGDH enzymes have an additional domain formed by an extended C-terminal region. This additional domain introduces significant asymmetry to the homotetramer. Adjacent ACT (regulatory) domains interact, creating two serine-binding sites, however, this asymmetric arrangement results in the formation of two different and distinct domain interfaces between iden
Probab=21.95 E-value=97 Score=16.20 Aligned_cols=17 Identities=12% Similarity=0.200 Sum_probs=14.2
Q ss_pred HHHHHhcCCCceeEEEe
Q 035273 13 QALKHVADADGVDFVGL 29 (69)
Q Consensus 13 kv~k~~~~~~GV~sv~~ 29 (69)
.+.+.+..++||.++.+
T Consensus 54 ~~~~~l~~~~~v~~v~~ 70 (73)
T cd04902 54 EVLEELRALPGILSAKV 70 (73)
T ss_pred HHHHHHHcCCCccEEEE
Confidence 67888999999988765
No 114
>COG2072 TrkA Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]
Probab=21.93 E-value=2e+02 Score=21.45 Aligned_cols=30 Identities=33% Similarity=0.474 Sum_probs=25.6
Q ss_pred eEEEEeeccCHHHHHHHHhhccCceeEEec
Q 035273 36 KVVVIGEGVDAVELAAGLRKKVGHTDLISV 65 (69)
Q Consensus 36 ~vtV~G~~vDp~~l~~~lrKk~~~aelvsv 65 (69)
+|.|+|.|-...+++..|.+.+.++.+..=
T Consensus 177 rV~VIG~GaSA~di~~~l~~~ga~vt~~qR 206 (443)
T COG2072 177 RVLVIGAGASAVDIAPELAEVGASVTLSQR 206 (443)
T ss_pred eEEEECCCccHHHHHHHHHhcCCeeEEEec
Confidence 899999999999999999977667776653
No 115
>PRK10568 periplasmic protein; Provisional
Probab=21.83 E-value=2.4e+02 Score=18.89 Aligned_cols=37 Identities=14% Similarity=0.199 Sum_probs=21.9
Q ss_pred chhHHHHHHHHhcCCCcee--EEEeCCCCCCeEEEEeeccC
Q 035273 7 CQKCRTQALKHVADADGVD--FVGLEGSEKDKVVVIGEGVD 45 (69)
Q Consensus 7 c~~C~~kv~k~~~~~~GV~--sv~~d~~~k~~vtV~G~~vD 45 (69)
+..-..++...|..-+++. .|.+..+ .+.|+..|. ++
T Consensus 58 D~~I~~~v~~~L~~~~~i~~~~I~V~v~-~G~V~L~G~-V~ 96 (203)
T PRK10568 58 DSAITAKVKAALVDHDNIKSTDISVKTH-QKVVTLSGF-VE 96 (203)
T ss_pred HHHHHHHHHHHHHhCCCCCCCceEEEEE-CCEEEEEEE-eC
Confidence 3445566666666655554 3444444 367777777 65
No 116
>COG0864 NikR Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]
Probab=21.81 E-value=1.7e+02 Score=18.93 Aligned_cols=31 Identities=35% Similarity=0.460 Sum_probs=22.3
Q ss_pred EEEEeeccCHHHHHHHHhhc--cCceeEEeccc
Q 035273 37 VVVIGEGVDAVELAAGLRKK--VGHTDLISVAE 67 (69)
Q Consensus 37 vtV~G~~vDp~~l~~~lrKk--~~~aelvsv~~ 67 (69)
..|.|++-+...++.+|+.- ..++.+....+
T Consensus 103 ~vv~G~~~~i~~l~~~i~~~~gv~~~kl~~~~~ 135 (136)
T COG0864 103 IVVKGDSERIRELADKLRALRGVKHIKLTTLPS 135 (136)
T ss_pred EEEecCchhHHHHHHHHHhhcCeeEEEEEeccC
Confidence 45559988999999999843 33777766543
No 117
>PRK12407 flgH flagellar basal body L-ring protein; Reviewed
Probab=21.79 E-value=81 Score=21.96 Aligned_cols=29 Identities=24% Similarity=0.319 Sum_probs=24.0
Q ss_pred CCCceeEEEeCCCCCCeEEEEeeccCHHHHH
Q 035273 20 DADGVDFVGLEGSEKDKVVVIGEGVDAVELA 50 (69)
Q Consensus 20 ~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~ 50 (69)
-++|=..+.++.+ ...+.+.|- |.|.++-
T Consensus 150 ~I~GeK~i~vN~e-~e~i~~sGv-VRP~DI~ 178 (221)
T PRK12407 150 VIRGEKWLTLNQG-DEYMRVTGL-VRADDIA 178 (221)
T ss_pred EEEEEEEEEECCC-EEEEEEEEE-ECHHHCC
Confidence 3678889999987 468999998 9998864
No 118
>PRK05787 cobalt-precorrin-6Y C(5)-methyltransferase; Validated
Probab=21.68 E-value=94 Score=20.17 Aligned_cols=28 Identities=18% Similarity=0.345 Sum_probs=21.7
Q ss_pred EEEEeecc-CHHHHHHHHhhccCceeEEe
Q 035273 37 VVVIGEGV-DAVELAAGLRKKVGHTDLIS 64 (69)
Q Consensus 37 vtV~G~~v-Dp~~l~~~lrKk~~~aelvs 64 (69)
+.++|-|. ||.-|+-+..+...+|+++-
T Consensus 2 l~vVG~GpG~~~~lT~~a~~~l~~advv~ 30 (210)
T PRK05787 2 IYIVGIGPGDPEYLTLKALEAIRKADVVV 30 (210)
T ss_pred EEEEEeCCCChHHhhHHHHHHHHhCCEEE
Confidence 67888777 78888888777777777775
No 119
>TIGR01469 cobA_cysG_Cterm uroporphyrin-III C-methyltransferase. This model represents enzymes, or enzyme domains, with uroporphyrin-III C-methyltransferase activity. This enzyme catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). Cobalamin contains cobalt while siroheme contains iron. Siroheme is a cofactor for nitrite and sulfite reductases and therefore plays a role in cysteine biosynthesis; many members of this family are CysG, siroheme synthase, with an additional N-terminal domain and with additional oxidation and iron insertion activities.
Probab=21.40 E-value=91 Score=20.64 Aligned_cols=30 Identities=23% Similarity=0.333 Sum_probs=22.5
Q ss_pred eEEEEeecc-CHHHHHHHHhhccCceeEEec
Q 035273 36 KVVVIGEGV-DAVELAAGLRKKVGHTDLISV 65 (69)
Q Consensus 36 ~vtV~G~~v-Dp~~l~~~lrKk~~~aelvsv 65 (69)
++.++|-|. ||..|+-+-.+...+|++|-.
T Consensus 1 ~i~iVG~GpG~~~~lT~~a~~~l~~advI~~ 31 (236)
T TIGR01469 1 KVYLVGAGPGDPELLTLKALRLLQEADVVLY 31 (236)
T ss_pred CEEEEecCCCChHHhHHHHHHHHHhCCEEEE
Confidence 467788777 788888777777777777754
No 120
>smart00683 DM16 Repeats in sea squirt COS41.4, worm R01H10.6, fly CG1126 etc.
Probab=21.30 E-value=46 Score=18.45 Aligned_cols=25 Identities=12% Similarity=0.113 Sum_probs=18.8
Q ss_pred HhcCCCceeEEEeCCCCCCeEEEEe
Q 035273 17 HVADADGVDFVGLEGSEKDKVVVIG 41 (69)
Q Consensus 17 ~~~~~~GV~sv~~d~~~k~~vtV~G 41 (69)
.+..++||++..=|..+.+++.|+-
T Consensus 3 v~~~~~~Ved~kgn~G~~G~l~VTN 27 (55)
T smart00683 3 VLTRINGVEDTKGNNGDLGVFFVTN 27 (55)
T ss_pred EEeeecCeEecCCCCCCeeEEEEEe
Confidence 4567899999988876666777763
No 121
>PRK12696 flgH flagellar basal body L-ring protein; Reviewed
Probab=21.29 E-value=81 Score=22.14 Aligned_cols=29 Identities=17% Similarity=0.305 Sum_probs=24.2
Q ss_pred CCCceeEEEeCCCCCCeEEEEeeccCHHHHH
Q 035273 20 DADGVDFVGLEGSEKDKVVVIGEGVDAVELA 50 (69)
Q Consensus 20 ~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~ 50 (69)
-++|-..|.++.+ ...+.+.|- |-|.++-
T Consensus 166 vI~G~k~v~vN~e-~~~i~lsGv-VRP~DI~ 194 (236)
T PRK12696 166 QVEGARETRVNDE-TQYIVVSGL-VRPRDIG 194 (236)
T ss_pred EEEEEEEEEECCC-EEEEEEEEE-ECHHHCC
Confidence 3678899999987 569999998 9998874
No 122
>TIGR01467 cobI_cbiL precorrin-2 C20-methyltransferase. This model represents precorrin-2 C20-methyltransferase, one of several closely related S-adenosylmethionine-dependent methyltransferases involved in cobalamin (vitamin B12) biosynthesis.
Probab=21.26 E-value=1.2e+02 Score=20.16 Aligned_cols=30 Identities=20% Similarity=0.293 Sum_probs=23.4
Q ss_pred CeEEEEeecc-CHHHHHHHHhhccCceeEEe
Q 035273 35 DKVVVIGEGV-DAVELAAGLRKKVGHTDLIS 64 (69)
Q Consensus 35 ~~vtV~G~~v-Dp~~l~~~lrKk~~~aelvs 64 (69)
++++++|-|. ||.-|+-+-.+...+|++|-
T Consensus 1 ~~i~iVG~GpG~~~~lT~~a~~~l~~advV~ 31 (230)
T TIGR01467 1 GKLYGVGVGPGDPELITVKALEALRSADVIA 31 (230)
T ss_pred CEEEEEEecCCCcHHHHHHHHHHHhhCCEEE
Confidence 3678888887 78888888777777777775
No 123
>cd00292 EF1B Elongation factor 1 beta (EF1B) guanine nucleotide exchange domain. EF1B catalyzes the exchange of GDP bound to the G-protein, EF1A, for GTP, an important step in the elongation cycle of the protein biosynthesis. EF1A binds to and delivers the aminoacyl tRNA to the ribosome. The guanine nucleotide exchange domain of EF1B, which is the alpha subunit in yeast, is responsible for the catalysis of this exchange reaction.
Probab=21.10 E-value=1e+02 Score=18.37 Aligned_cols=24 Identities=21% Similarity=0.295 Sum_probs=18.9
Q ss_pred hHHHHHHHHhcCCCceeEEEeCCC
Q 035273 9 KCRTQALKHVADADGVDFVGLEGS 32 (69)
Q Consensus 9 ~C~~kv~k~~~~~~GV~sv~~d~~ 32 (69)
+--..+-..+.+.+||+|+++...
T Consensus 62 ~~td~lee~i~~~d~VqsveI~~~ 85 (88)
T cd00292 62 GGTDELEEAISEEDGVQSVDVEAF 85 (88)
T ss_pred cCcHHHHHHHhccCCceEEEEEEE
Confidence 444677788899999999999643
No 124
>PRK12701 flgH flagellar basal body L-ring protein; Reviewed
Probab=20.89 E-value=88 Score=21.92 Aligned_cols=29 Identities=17% Similarity=0.288 Sum_probs=23.9
Q ss_pred CCCceeEEEeCCCCCCeEEEEeeccCHHHHH
Q 035273 20 DADGVDFVGLEGSEKDKVVVIGEGVDAVELA 50 (69)
Q Consensus 20 ~~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~ 50 (69)
-++|-..+.++.+ ...+.+.|- |.|.++-
T Consensus 159 ~I~GeK~v~vN~e-~e~i~lsGv-VRP~DI~ 187 (230)
T PRK12701 159 VVQGEKWVRINQG-NEFVRLSGI-VRPQDIK 187 (230)
T ss_pred EEEEEEEEEECCC-eEEEEEEEE-ECHHHCC
Confidence 3678899999987 568999998 9888864
No 125
>PF12971 NAGLU_N: Alpha-N-acetylglucosaminidase (NAGLU) N-terminal domain; InterPro: IPR024240 Alpha-N-acetylglucosaminidase, is a lysosomal enzyme required for the stepwise degradation of heparan sulphate []. Mutations on the alpha-N-acetylglucosaminidase (NAGLU) gene can lead to Mucopolysaccharidosis type IIIB (MPS IIIB; or Sanfilippo syndrome type B) characterised by neurological dysfunction but relatively mild somatic manifestations []. The structure shows that the enzyme is composed of three domains. This entry represents the N-terminal domain of Alpha-N-acetylglucosaminidase which has an alpha-beta fold [].; PDB: 4A4A_A 2VC9_A 2VCC_A 2VCB_A 2VCA_A.
Probab=20.84 E-value=1.7e+02 Score=16.97 Aligned_cols=31 Identities=35% Similarity=0.635 Sum_probs=23.3
Q ss_pred CCceeEEEeCC-CCCCeEEEEeeccCHHHHHHHHh
Q 035273 21 ADGVDFVGLEG-SEKDKVVVIGEGVDAVELAAGLR 54 (69)
Q Consensus 21 ~~GV~sv~~d~-~~k~~vtV~G~~vDp~~l~~~lr 54 (69)
..|-+.+++.. . .++++|.|. +++.++.-|.
T Consensus 28 ~~~~d~F~l~~~~-~gki~I~G~--s~vala~Gl~ 59 (86)
T PF12971_consen 28 SNGKDVFELSSAD-NGKIVIRGN--SGVALASGLN 59 (86)
T ss_dssp BTTBEEEEEEE-S-SS-EEEEES--SHHHHHHHHH
T ss_pred CCCCCEEEEEeCC-CCeEEEEeC--CHHHHHHHHH
Confidence 34788888876 5 579999997 7888887765
No 126
>PF00736 EF1_GNE: EF-1 guanine nucleotide exchange domain; InterPro: IPR014038 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. Elongation factor EF1B (also known as EF-Ts or EF-1beta/gamma/delta) is a nucleotide exchange factor that is required to regenerate EF1A from its inactive form (EF1A-GDP) to its active form (EF1A-GTP). EF1A is then ready to interact with a new aminoacyl-tRNA to begin the cycle again. EF1B is more complex in eukaryotes than in bacteria, and can consist of three subunits: EF1B-alpha (or EF-1beta), EF1B-gamma (or EF-1gamma) and EF1B-beta (or EF-1delta) []. This entry represents the guanine nucleotide exchange domain of the beta (EF-1beta, also known as EF1B-alpha) and delta (EF-1delta, also known as EF1B-beta) chains of EF1B proteins from eukaryotes and archaea. The beta and delta chains have exchange activity, which mainly resides in their homologous guanine nucleotide exchange domains, found in the C-terminal region of the peptides. Their N-terminal regions may be involved in interactions with the gamma chain (EF-1gamma). More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0003746 translation elongation factor activity, 0006414 translational elongation, 0005853 eukaryotic translation elongation factor 1 complex; PDB: 2YY3_B 1GH8_A 1B64_A 1IJE_B 1IJF_B 1F60_B 1G7C_B 2B7B_B 2B7C_B.
Probab=20.84 E-value=1.3e+02 Score=17.93 Aligned_cols=23 Identities=17% Similarity=0.234 Sum_probs=19.0
Q ss_pred hHHHHHHHHh-cCCCceeEEEeCC
Q 035273 9 KCRTQALKHV-ADADGVDFVGLEG 31 (69)
Q Consensus 9 ~C~~kv~k~~-~~~~GV~sv~~d~ 31 (69)
+--..+-..+ +..+||+|+++..
T Consensus 62 ~~~d~lee~i~~~~e~Vqsvei~~ 85 (89)
T PF00736_consen 62 GSTDDLEEAIESFEEGVQSVEIES 85 (89)
T ss_dssp CGHHHHHHHHTTCTTTEEEEEEEE
T ss_pred cChHHHHHHHHhcCCCccEEEEEE
Confidence 5566777888 9999999999864
No 127
>PF09580 Spore_YhcN_YlaJ: Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); InterPro: IPR019076 This entry contains YhcN and YlaJ, which are predicted lipoproteins that have been detected as spore proteins but not vegetative proteins in Bacillus subtilis. Both appear to be expressed under control of the RNA polymerase sigma-G factor. The YlaJ-like members of this family have a low-complexity, strongly acidic, 40-residue C-terminal domain.
Probab=20.64 E-value=1.1e+02 Score=19.51 Aligned_cols=24 Identities=13% Similarity=0.120 Sum_probs=18.7
Q ss_pred hHHHHHHHHhcCCCceeEEEeCCC
Q 035273 9 KCRTQALKHVADADGVDFVGLEGS 32 (69)
Q Consensus 9 ~C~~kv~k~~~~~~GV~sv~~d~~ 32 (69)
.=+.++.+.+.+++||+++.+=--
T Consensus 75 ~~a~~i~~~v~~~~~V~~A~vvv~ 98 (177)
T PF09580_consen 75 QLADRIANRVKKVPGVEDATVVVT 98 (177)
T ss_pred HHHHHHHHHHhcCCCceEEEEEEE
Confidence 346788899999999998776543
No 128
>PF04805 Pox_E10: E10-like protein conserved region; InterPro: IPR006890 This entry represents a family of probable FAD-linked sulphydryl oxidases found in poxviruses.; GO: 0016972 thiol oxidase activity, 0055114 oxidation-reduction process
Probab=20.37 E-value=71 Score=18.68 Aligned_cols=17 Identities=24% Similarity=0.686 Sum_probs=13.9
Q ss_pred eechhHHHHHHHHhcCC
Q 035273 5 MNCQKCRTQALKHVADA 21 (69)
Q Consensus 5 m~c~~C~~kv~k~~~~~ 21 (69)
+-|..|+.-|++++.+-
T Consensus 16 LPC~~Cr~HA~~ai~kN 32 (70)
T PF04805_consen 16 LPCPECRIHAKEAIQKN 32 (70)
T ss_pred CCCHHHHHHHHHHHHhc
Confidence 56999999999988653
No 129
>PRK13674 putative GTP cyclohydrolase; Provisional
Probab=20.32 E-value=1.1e+02 Score=21.93 Aligned_cols=29 Identities=7% Similarity=0.052 Sum_probs=24.6
Q ss_pred eeechhHHHHHHHHhcCCCceeEEEeCCC
Q 035273 4 QMNCQKCRTQALKHVADADGVDFVGLEGS 32 (69)
Q Consensus 4 ~m~c~~C~~kv~k~~~~~~GV~sv~~d~~ 32 (69)
+|.||.|.|.+...|...+++..+.+..+
T Consensus 221 p~FVED~vR~ia~~L~~~~~~~~f~V~~e 249 (271)
T PRK13674 221 PMFVEDAARRVAAALEADPRISAFRVEVE 249 (271)
T ss_pred CccHHHHHHHHHHHHhcCCCcceEEEEEE
Confidence 47899999999999999999888777543
No 130
>PF14492 EFG_II: Elongation Factor G, domain II; PDB: 1WDT_A 2DY1_A 2XEX_A 1ELO_A 2XSY_Y 2WRK_Y 1DAR_A 2WRI_Y 2XUY_Y 3J0E_H ....
Probab=20.26 E-value=1.7e+02 Score=16.41 Aligned_cols=48 Identities=19% Similarity=0.367 Sum_probs=30.0
Q ss_pred HHHHHhcCCCceeEEEeCCCCCCeEEEEe--eccCHHHHHHHHhhccC-ceeE
Q 035273 13 QALKHVADADGVDFVGLEGSEKDKVVVIG--EGVDAVELAAGLRKKVG-HTDL 62 (69)
Q Consensus 13 kv~k~~~~~~GV~sv~~d~~~k~~vtV~G--~~vDp~~l~~~lrKk~~-~ael 62 (69)
.+++.+..-+=--.+..|.+ .+++.+.| + +=-.-++.+|+..++ .+++
T Consensus 23 ~aL~~l~~eDP~l~~~~d~e-t~e~~l~g~Ge-lhlev~~~~L~~~~~v~v~~ 73 (75)
T PF14492_consen 23 EALQKLSEEDPSLRVERDEE-TGELILSGMGE-LHLEVLLERLKRRFGVEVEF 73 (75)
T ss_dssp HHHHHHHHH-TTSEEEEETT-TSEEEEEESSH-HHHHHHHHHHHHTTCEBEEE
T ss_pred HHHHHHHhcCCeEEEEEcch-hceEEEEECCH-HHHHHHHHHHHHHHCCeeEe
Confidence 44444444444446777765 35666655 5 677888999998876 5543
No 131
>PF13280 WYL: WYL domain
Probab=20.23 E-value=1e+02 Score=18.64 Aligned_cols=33 Identities=18% Similarity=0.113 Sum_probs=25.1
Q ss_pred CeEEEEeeccCHHHHHHHHhhccCceeEEeccc
Q 035273 35 DKVVVIGEGVDAVELAAGLRKKVGHTDLISVAE 67 (69)
Q Consensus 35 ~~vtV~G~~vDp~~l~~~lrKk~~~aelvsv~~ 67 (69)
+.+.+.=.--|+..+...|...+.++++++|..
T Consensus 127 ~~~~~~~~~~~~~~~~~~l~~~g~~v~Vl~P~~ 159 (172)
T PF13280_consen 127 GSIIVTFPVNDSEELLRWLLSFGDHVEVLEPES 159 (172)
T ss_pred eEEEEEEEEechHHHHHHHHHhCCCEEEECCHH
Confidence 455555552468899999997777999999864
No 132
>PRK12700 flgH flagellar basal body L-ring protein; Reviewed
Probab=20.14 E-value=94 Score=21.76 Aligned_cols=28 Identities=18% Similarity=0.279 Sum_probs=23.8
Q ss_pred CCceeEEEeCCCCCCeEEEEeeccCHHHHH
Q 035273 21 ADGVDFVGLEGSEKDKVVVIGEGVDAVELA 50 (69)
Q Consensus 21 ~~GV~sv~~d~~~k~~vtV~G~~vDp~~l~ 50 (69)
++|=..|.++.+ ...+.+.|- |.|.++-
T Consensus 161 I~GeK~i~vN~~-~e~irlsGi-VRP~DI~ 188 (230)
T PRK12700 161 IAGEKQIAINRG-SEYVRFSGV-VDPRSIT 188 (230)
T ss_pred EEEEEEEEECCC-EEEEEEEEE-ECHHHCC
Confidence 578889999987 568999998 9998874
Done!