Query 045203
Match_columns 154
No_of_seqs 107 out of 717
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 10:50:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045203.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045203hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1603 Copper chaperone [Inor 99.7 2.2E-16 4.9E-21 109.4 8.3 66 46-113 3-70 (73)
2 PF00403 HMA: Heavy-metal-asso 99.3 1.5E-11 3.2E-16 80.9 7.0 56 51-108 1-60 (62)
3 COG2608 CopZ Copper chaperone 98.8 1.3E-08 2.9E-13 70.2 7.4 61 48-108 2-64 (71)
4 KOG4656 Copper chaperone for s 98.4 1.8E-06 3.9E-11 72.6 8.1 67 48-116 7-74 (247)
5 PLN02957 copper, zinc superoxi 98.1 2.9E-05 6.3E-10 64.5 9.4 70 48-119 6-76 (238)
6 PRK10671 copA copper exporting 97.8 9.4E-05 2E-09 70.6 8.2 64 47-114 2-67 (834)
7 TIGR00003 copper ion binding p 96.4 0.05 1.1E-06 31.6 7.7 59 49-108 3-64 (68)
8 COG2217 ZntA Cation transport 95.2 0.06 1.3E-06 51.9 7.0 62 49-112 3-69 (713)
9 PRK10671 copA copper exporting 94.5 0.13 2.8E-06 49.5 7.3 62 49-112 100-163 (834)
10 PF02680 DUF211: Uncharacteriz 91.5 0.69 1.5E-05 34.6 5.8 61 48-108 5-71 (95)
11 KOG0207 Cation transport ATPas 90.9 0.72 1.6E-05 46.0 6.9 67 48-115 146-216 (951)
12 PRK11033 zntA zinc/cadmium/mer 89.3 2.5 5.3E-05 40.7 9.0 59 48-108 53-113 (741)
13 COG1888 Uncharacterized protei 87.6 1.3 2.9E-05 33.2 4.7 60 48-108 6-73 (97)
14 KOG0207 Cation transport ATPas 75.2 6.2 0.00013 39.7 5.6 59 55-115 2-63 (951)
15 PF13291 ACT_4: ACT domain; PD 63.8 21 0.00046 23.9 4.8 32 48-79 48-79 (80)
16 cd04888 ACT_PheB-BS C-terminal 63.3 21 0.00046 23.1 4.6 33 48-80 41-74 (76)
17 PF13732 DUF4162: Domain of un 59.3 23 0.00049 23.9 4.4 40 69-109 26-65 (84)
18 PF01883 DUF59: Domain of unkn 56.4 20 0.00043 23.8 3.6 33 48-80 34-72 (72)
19 PF03927 NapD: NapD protein; 51.0 48 0.001 23.2 5.0 32 49-80 40-71 (79)
20 PRK10553 assembly protein for 44.3 76 0.0017 23.0 5.3 54 60-114 17-76 (87)
21 PF03927 NapD: NapD protein; 43.4 93 0.002 21.8 5.5 45 60-106 15-59 (79)
22 cd04877 ACT_TyrR N-terminal AC 42.6 62 0.0013 21.4 4.4 31 50-80 39-69 (74)
23 TIGR02052 MerP mercuric transp 42.0 90 0.0019 19.8 6.7 57 51-108 26-85 (92)
24 PF04972 BON: BON domain; Int 40.9 17 0.00036 23.3 1.3 32 64-98 3-37 (64)
25 COG4004 Uncharacterized protei 39.6 37 0.0008 25.5 3.1 38 67-105 34-75 (96)
26 PF13241 NAD_binding_7: Putati 38.6 46 0.001 23.7 3.4 38 78-116 1-39 (103)
27 TIGR00489 aEF-1_beta translati 38.6 49 0.0011 24.1 3.5 39 43-81 44-83 (88)
28 PRK13748 putative mercuric red 37.1 1.7E+02 0.0038 26.4 7.6 59 55-114 8-68 (561)
29 PF15023 DUF4523: Protein of u 37.0 92 0.002 25.5 5.2 64 40-105 79-146 (166)
30 PRK00435 ef1B elongation facto 35.6 53 0.0012 23.9 3.3 38 44-81 45-83 (88)
31 COG2092 EFB1 Translation elong 34.9 56 0.0012 24.2 3.3 38 44-81 45-83 (88)
32 cd06167 LabA_like LabA_like pr 33.8 57 0.0012 24.0 3.4 29 87-116 103-132 (149)
33 TIGR03406 FeS_long_SufT probab 31.3 65 0.0014 26.0 3.5 34 49-82 114-153 (174)
34 PRK10553 assembly protein for 30.7 1.2E+02 0.0027 21.9 4.6 32 49-80 43-74 (87)
35 cd02407 PTH2_family Peptidyl-t 29.9 2E+02 0.0044 21.5 5.8 57 47-106 49-110 (115)
36 KOG3411 40S ribosomal protein 29.4 39 0.00086 27.0 1.9 47 56-106 91-140 (143)
37 PF01981 PTH2: Peptidyl-tRNA h 29.1 1.9E+02 0.004 21.3 5.4 55 47-105 50-110 (116)
38 COG3062 NapD Uncharacterized p 28.5 1.6E+02 0.0035 22.1 4.9 45 60-106 18-62 (94)
39 PF00679 EFG_C: Elongation fac 25.9 2.3E+02 0.0049 19.5 5.4 57 53-112 8-71 (89)
40 PF09358 UBA_e1_C: Ubiquitin-a 25.8 1E+02 0.0023 23.4 3.6 31 86-117 35-67 (125)
41 cd00371 HMA Heavy-metal-associ 25.7 98 0.0021 15.3 6.1 50 55-105 6-56 (63)
42 cd04878 ACT_AHAS N-terminal AC 25.6 1.5E+02 0.0032 18.1 3.8 30 49-79 43-72 (72)
43 TIGR01470 cysG_Nterm siroheme 25.6 1.1E+02 0.0024 24.8 4.0 38 78-116 3-41 (205)
44 TIGR00283 arch_pth2 peptidyl-t 25.4 2.9E+02 0.0063 20.8 6.0 55 47-105 49-109 (115)
45 PF01936 NYN: NYN domain; Int 25.2 68 0.0015 23.0 2.4 28 87-115 99-127 (146)
46 PRK11023 outer membrane lipopr 25.2 1.2E+02 0.0025 24.4 4.0 48 56-105 45-95 (191)
47 cd04887 ACT_MalLac-Enz ACT_Mal 24.8 2E+02 0.0042 18.4 4.7 32 49-80 41-72 (74)
48 PRK06719 precorrin-2 dehydroge 24.5 1.2E+02 0.0026 23.5 3.8 37 77-114 6-43 (157)
49 PF00736 EF1_GNE: EF-1 guanine 23.7 2E+02 0.0043 20.7 4.6 38 44-81 45-84 (89)
50 PF00070 Pyr_redox: Pyridine n 23.5 1.1E+02 0.0023 20.4 3.0 33 87-119 1-34 (80)
51 cd06471 ACD_LpsHSP_like Group 23.1 50 0.0011 22.8 1.3 22 71-93 17-40 (93)
52 PRK04322 peptidyl-tRNA hydrola 22.7 3.1E+02 0.0068 20.5 5.7 56 47-106 47-108 (113)
53 TIGR00288 conserved hypothetic 22.5 1.1E+02 0.0024 24.6 3.3 28 87-115 109-137 (160)
54 COG1432 Uncharacterized conser 22.2 1.2E+02 0.0025 24.2 3.4 30 87-117 114-144 (181)
55 PRK06718 precorrin-2 dehydroge 21.9 1.5E+02 0.0033 23.9 4.1 36 78-114 4-40 (202)
56 cd03309 CmuC_like CmuC_like. P 21.3 1.2E+02 0.0025 26.5 3.5 47 52-100 213-269 (321)
57 PF07683 CobW_C: Cobalamin syn 21.0 1.1E+02 0.0023 20.8 2.6 20 87-106 73-92 (94)
No 1
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.68 E-value=2.2e-16 Score=109.35 Aligned_cols=66 Identities=26% Similarity=0.426 Sum_probs=60.8
Q ss_pred cceEEEEEEeccCHHHHHHHHHHhccCCCccEEEecCCCCCeEEEEcccCCHHHHHHHHhhcC--CeeEE
Q 045203 46 NFKKAVFKLEIHDDIAQQAAFSIVSKFKGITDLSVDPKDRTRMTVIGDNFDAISAGTKLKRLC--DTRLV 113 (154)
Q Consensus 46 ~~qkvVLKV~MhCdgC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~G~~VDp~~Lv~kLrK~g--~AeIV 113 (154)
.++..+++|+|||+||..+|.+.+.+++||+++.+|.+++ +|||.|. +||..|+++|+|++ .+.+|
T Consensus 3 ~~~~~v~kv~~~C~gc~~kV~~~l~~~~GV~~v~id~~~~-kvtV~g~-~~p~~vl~~l~k~~~k~~~~~ 70 (73)
T KOG1603|consen 3 PIKTVVLKVNMHCEGCARKVKRVLQKLKGVESVDIDIKKQ-KVTVKGN-VDPVKLLKKLKKTGGKRAELW 70 (73)
T ss_pred CccEEEEEECcccccHHHHHHHHhhccCCeEEEEecCCCC-EEEEEEe-cCHHHHHHHHHhcCCCceEEe
Confidence 3568999999999999999999999999999999999999 9999999 99999999999965 45555
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=99.28 E-value=1.5e-11 Score=80.90 Aligned_cols=56 Identities=20% Similarity=0.230 Sum_probs=51.6
Q ss_pred EEEE-eccCHHHHHHHHHHhccCCCccEEEecCCCCCeEEEEcccCC---HHHHHHHHhhcC
Q 045203 51 VFKL-EIHDDIAQQAAFSIVSKFKGITDLSVDPKDRTRMTVIGDNFD---AISAGTKLKRLC 108 (154)
Q Consensus 51 VLKV-~MhCdgC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~G~~VD---p~~Lv~kLrK~g 108 (154)
+|+| +|+|.+|+++|.++|.+++||.++.+|...+ +|+|.++ .+ +.+|.+.|++.|
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~-~v~v~~~-~~~~~~~~i~~~i~~~G 60 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETK-TVTVTYD-PDKTSIEKIIEAIEKAG 60 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTT-EEEEEES-TTTSCHHHHHHHHHHTT
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCC-EEEEEEe-cCCCCHHHHHHHHHHhC
Confidence 4778 8999999999999999999999999999998 9999997 44 599999999877
No 3
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=98.85 E-value=1.3e-08 Score=70.23 Aligned_cols=61 Identities=13% Similarity=0.159 Sum_probs=53.1
Q ss_pred eEEEEEE-eccCHHHHHHHHHHhccCCCccEEEecCCCCC-eEEEEcccCCHHHHHHHHhhcC
Q 045203 48 KKAVFKL-EIHDDIAQQAAFSIVSKFKGITDLSVDPKDRT-RMTVIGDNFDAISAGTKLKRLC 108 (154)
Q Consensus 48 qkvVLKV-~MhCdgC~~Kv~K~lski~GV~SV~iD~~~~d-kVTV~G~~VDp~~Lv~kLrK~g 108 (154)
.+..|++ +|+|.+|...+.+.|.+++||.++.+|++.+- .|++.+..++...|...+...|
T Consensus 2 ~~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aG 64 (71)
T COG2608 2 MKTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAG 64 (71)
T ss_pred ceEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcC
Confidence 4678899 99999999999999999999999999999940 4555553489999999999988
No 4
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=98.36 E-value=1.8e-06 Score=72.65 Aligned_cols=67 Identities=18% Similarity=0.209 Sum_probs=62.2
Q ss_pred eEEEEEEeccCHHHHHHHHHHhccCCCccEEEecCCCCCeEEEEcccCCHHHHHHHHhhcC-CeeEEecC
Q 045203 48 KKAVFKLEIHDDIAQQAAFSIVSKFKGITDLSVDPKDRTRMTVIGDNFDAISAGTKLKRLC-DTRLVSFG 116 (154)
Q Consensus 48 qkvVLKV~MhCdgC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~G~~VDp~~Lv~kLrK~g-~AeIVSv~ 116 (154)
-++.+-|+|||+.|...+++.|..++||.+|.+|.+++ .|.|-+. +-+..+...|+.+| .|-|.-.+
T Consensus 7 ~~~efaV~M~cescvnavk~~L~~V~Gi~~vevdle~q-~v~v~ts-~p~s~i~~~le~tGr~Avl~G~G 74 (247)
T KOG4656|consen 7 YEAEFAVQMTCESCVNAVKACLKGVPGINSVEVDLEQQ-IVSVETS-VPPSEIQNTLENTGRDAVLRGAG 74 (247)
T ss_pred eeEEEEEechhHHHHHHHHHHhccCCCcceEEEEhhhc-EEEEEcc-CChHHHHHHHHhhChheEEecCC
Confidence 36899999999999999999999999999999999999 9999999 99999999999999 78777554
No 5
>PLN02957 copper, zinc superoxide dismutase
Probab=98.07 E-value=2.9e-05 Score=64.53 Aligned_cols=70 Identities=16% Similarity=0.246 Sum_probs=63.2
Q ss_pred eEEEEEEeccCHHHHHHHHHHhccCCCccEEEecCCCCCeEEEEcccCCHHHHHHHHhhcC-CeeEEecCCCC
Q 045203 48 KKAVFKLEIHDDIAQQAAFSIVSKFKGITDLSVDPKDRTRMTVIGDNFDAISAGTKLKRLC-DTRLVSFGPIK 119 (154)
Q Consensus 48 qkvVLKV~MhCdgC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~G~~VDp~~Lv~kLrK~g-~AeIVSv~P~k 119 (154)
+++.+.+.|+|+.|..++.+.+.+++||.++.+|...+ +++|.+. +++..++..|++.+ .+++++.++..
T Consensus 6 ~~~~~~VgMsC~~Ca~~Iek~L~~~~GV~~v~vn~~~~-~v~V~~~-~~~~~I~~aIe~~Gy~a~~~~~~~~~ 76 (238)
T PLN02957 6 LLTEFMVDMKCEGCVAAVKNKLETLEGVKAVEVDLSNQ-VVRVLGS-SPVKAMTAALEQTGRKARLIGQGDPE 76 (238)
T ss_pred EEEEEEECccCHHHHHHHHHHHhcCCCeEEEEEEcCCC-EEEEEec-CCHHHHHHHHHHcCCcEEEecCCCcc
Confidence 56789999999999999999999999999999999998 9999997 89999999999988 78888775553
No 6
>PRK10671 copA copper exporting ATPase; Provisional
Probab=97.76 E-value=9.4e-05 Score=70.60 Aligned_cols=64 Identities=11% Similarity=0.051 Sum_probs=57.5
Q ss_pred ceEEEEEE-eccCHHHHHHHHHHhccCCCccEEEecCCCCCeEEEEcccCCHHHHHHHHhhcC-CeeEEe
Q 045203 47 FKKAVFKL-EIHDDIAQQAAFSIVSKFKGITDLSVDPKDRTRMTVIGDNFDAISAGTKLKRLC-DTRLVS 114 (154)
Q Consensus 47 ~qkvVLKV-~MhCdgC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~G~~VDp~~Lv~kLrK~g-~AeIVS 114 (154)
++++.|+| +|+|.+|..++.+.+.+++||.++.+|.+ +.+|.+. .++..+...++..| .+++.+
T Consensus 2 ~~~~~l~V~gmtC~~C~~~i~~al~~~~gv~~v~v~~~---~~~v~~~-~~~~~i~~~i~~~Gy~~~~~~ 67 (834)
T PRK10671 2 SQTIDLTLDGLSCGHCVKRVKESLEQRPDVEQADVSIT---EAHVTGT-ASAEALIETIKQAGYDASVSH 67 (834)
T ss_pred CeEEEEEECCcccHHHHHHHHHHHhcCCCcceEEEeee---EEEEEec-CCHHHHHHHHHhcCCcccccc
Confidence 46899999 99999999999999999999999999983 5678888 89999999999988 788765
No 7
>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=96.37 E-value=0.05 Score=31.64 Aligned_cols=59 Identities=12% Similarity=0.134 Sum_probs=46.4
Q ss_pred EEEEEE-eccCHHHHHHHHHHhccCCCccEEEecCCCCCeEEEEcc--cCCHHHHHHHHhhcC
Q 045203 49 KAVFKL-EIHDDIAQQAAFSIVSKFKGITDLSVDPKDRTRMTVIGD--NFDAISAGTKLKRLC 108 (154)
Q Consensus 49 kvVLKV-~MhCdgC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~G~--~VDp~~Lv~kLrK~g 108 (154)
+..+.+ +++|..|...+.+.+....|+.+..++...+ .+++..+ ..+...+...+...|
T Consensus 3 ~~~~~v~~~~~~~c~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~g 64 (68)
T TIGR00003 3 KFTVQVMSMTCQHCVDKIEKFVGELEGVSKVQVKLEKA-SVKVEFDAPQATEICIAEAILDAG 64 (68)
T ss_pred EEEEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEcCCC-EEEEEeCCCCCCHHHHHHHHHHcC
Confidence 456778 7899999999999999999999999999987 8877642 246677766655444
No 8
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=95.18 E-value=0.06 Score=51.87 Aligned_cols=62 Identities=16% Similarity=0.246 Sum_probs=53.8
Q ss_pred EEEEEE-eccCHHHHHHHHHHhccCCCccEEEecCCCCCeEEEEcc--cCC-HHHHHHHHhhcC-CeeE
Q 045203 49 KAVFKL-EIHDDIAQQAAFSIVSKFKGITDLSVDPKDRTRMTVIGD--NFD-AISAGTKLKRLC-DTRL 112 (154)
Q Consensus 49 kvVLKV-~MhCdgC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~G~--~VD-p~~Lv~kLrK~g-~AeI 112 (154)
++.|.+ +|||..|..++. .+.+++||....++...+ +++|..+ ..+ +..+...+++.| .+..
T Consensus 3 ~~~l~v~Gm~Ca~C~~~ie-~l~~~~gV~~~~vn~~t~-~~~v~~~~~~~~~~~~~~~~v~~~gy~~~~ 69 (713)
T COG2217 3 ETSLSVEGMTCAACASRIE-ALNKLPGVEEARVNLATE-RATVVYDPEEVDLPADIVAAVEKAGYSARL 69 (713)
T ss_pred eeEEeecCcCcHHHHHHHH-HHhcCCCeeEEEeecccc-eEEEEecccccccHHHHHHHHHhcCccccc
Confidence 567778 899999999999 999999999999999998 9999865 256 789999999988 5555
No 9
>PRK10671 copA copper exporting ATPase; Provisional
Probab=94.48 E-value=0.13 Score=49.54 Aligned_cols=62 Identities=11% Similarity=0.130 Sum_probs=53.5
Q ss_pred EEEEEE-eccCHHHHHHHHHHhccCCCccEEEecCCCCCeEEEEcccCCHHHHHHHHhhcC-CeeE
Q 045203 49 KAVFKL-EIHDDIAQQAAFSIVSKFKGITDLSVDPKDRTRMTVIGDNFDAISAGTKLKRLC-DTRL 112 (154)
Q Consensus 49 kvVLKV-~MhCdgC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~G~~VDp~~Lv~kLrK~g-~AeI 112 (154)
.+.+.+ +|||..|...+.+.+.+++||.++.++...+ ++.|.+. .++..+...++..| .+.+
T Consensus 100 ~~~l~V~Gm~Ca~Ca~~Ie~~L~~~~GV~~a~vnl~t~-~~~V~~~-~s~~~I~~~I~~~Gy~a~~ 163 (834)
T PRK10671 100 SQQLLLSGMSCASCVSRVQNALQSVPGVTQARVNLAER-TALVMGS-ASPQDLVQAVEKAGYGAEA 163 (834)
T ss_pred eEEEEeCCcCcHHHHHHHHHHHhcCCCceeeeeecCCC-eEEEEcc-CCHHHHHHHHHhcCCCccc
Confidence 456767 9999999999999999999999999999987 8888876 88999888888877 5543
No 10
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=91.47 E-value=0.69 Score=34.60 Aligned_cols=61 Identities=15% Similarity=0.298 Sum_probs=43.5
Q ss_pred eEEEEEEeccCHHHHHHHHHHhccCCCccEEEe-----cCCCCC-eEEEEcccCCHHHHHHHHhhcC
Q 045203 48 KKAVFKLEIHDDIAQQAAFSIVSKFKGITDLSV-----DPKDRT-RMTVIGDNFDAISAGTKLKRLC 108 (154)
Q Consensus 48 qkvVLKV~MhCdgC~~Kv~K~lski~GV~SV~i-----D~~~~d-kVTV~G~~VDp~~Lv~kLrK~g 108 (154)
+.+||-|----+=-.-.+-+.|++++||+.|.+ |.+..+ ++||.|+++|...+.+.|.+.|
T Consensus 5 rRlVLDVlKP~~p~i~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~G 71 (95)
T PF02680_consen 5 RRLVLDVLKPHEPSIVELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEELG 71 (95)
T ss_dssp EEEEEEEEEESSS-HHHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHTT
T ss_pred eEEEEEeecCCCCCHHHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHcC
Confidence 456666644434445566788999999988765 444332 7889999999999999999977
No 11
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=90.87 E-value=0.72 Score=46.01 Aligned_cols=67 Identities=12% Similarity=0.158 Sum_probs=55.8
Q ss_pred eEEEEEE-eccCHHHHHHHHHHhccCCCccEEEecCCCCCeEEEEcc--cCCHHHHHHHHhhcC-CeeEEec
Q 045203 48 KKAVFKL-EIHDDIAQQAAFSIVSKFKGITDLSVDPKDRTRMTVIGD--NFDAISAGTKLKRLC-DTRLVSF 115 (154)
Q Consensus 48 qkvVLKV-~MhCdgC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~G~--~VDp~~Lv~kLrK~g-~AeIVSv 115 (154)
++++|.| +|.|..|..++.+++.+++||.++.+|...+ ++.|.=+ ..-|..+.+.|...+ .+.+...
T Consensus 146 ~~i~L~v~g~~c~s~~~~ie~~l~~l~gV~~~sv~~~t~-~~~V~~~~~~~~pr~i~k~ie~~~~~~~~~~~ 216 (951)
T KOG0207|consen 146 QKIYLDVLGMTCASCVSKIESILERLRGVKSFSVSLATD-TAIVVYDPEITGPRDIIKAIEETGFEASVRPY 216 (951)
T ss_pred CcEEEEeecccccchhhhhHHHHhhccCeeEEEEeccCC-ceEEEecccccChHHHHHHHHhhcccceeeec
Confidence 5788888 8999999999999999999999999999997 8887542 356778888888777 6666653
No 12
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=89.32 E-value=2.5 Score=40.66 Aligned_cols=59 Identities=12% Similarity=0.198 Sum_probs=45.7
Q ss_pred eEEEEEE-eccCHHHHHHHHHHhccCCCccEEEecCCCCCeEEEEccc-CCHHHHHHHHhhcC
Q 045203 48 KKAVFKL-EIHDDIAQQAAFSIVSKFKGITDLSVDPKDRTRMTVIGDN-FDAISAGTKLKRLC 108 (154)
Q Consensus 48 qkvVLKV-~MhCdgC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~G~~-VDp~~Lv~kLrK~g 108 (154)
+++.+.+ +|||..|..++.+.+.+++||.++.++...+ ++.|..+. .+ ..+...++..|
T Consensus 53 ~r~~l~V~Gm~C~sCa~~Ie~aL~~~~GV~~v~Vn~at~-k~~V~~d~~~~-~~I~~aI~~~G 113 (741)
T PRK11033 53 TRYSWKVSGMDCPSCARKVENAVRQLAGVNQVQVLFATE-KLVVDADNDIR-AQVESAVQKAG 113 (741)
T ss_pred ceEEEEECCCCcHHHHHHHHHHHhcCCCeeeEEEEcCCC-eEEEEecccch-HHHHHHHHhcc
Confidence 3566777 8999999999999999999999999998887 77776431 22 45555566666
No 13
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=87.58 E-value=1.3 Score=33.18 Aligned_cols=60 Identities=18% Similarity=0.288 Sum_probs=42.5
Q ss_pred eEEEEEEec-cCHHHHHHHHHHhccCCCccEEEe-----cC--CCCCeEEEEcccCCHHHHHHHHhhcC
Q 045203 48 KKAVFKLEI-HDDIAQQAAFSIVSKFKGITDLSV-----DP--KDRTRMTVIGDNFDAISAGTKLKRLC 108 (154)
Q Consensus 48 qkvVLKV~M-hCdgC~~Kv~K~lski~GV~SV~i-----D~--~~~dkVTV~G~~VDp~~Lv~kLrK~g 108 (154)
+.+||-|.- |-.-----.-+.|++++||+.|.+ |. .+= ++||.|.++|-..+.+.|..+|
T Consensus 6 RRlVLDvlKP~~~p~ive~A~~lskl~gVegVNItv~eiD~et~~~-~itIeG~~ldydei~~~iE~~G 73 (97)
T COG1888 6 RRLVLDVLKPHRGPTIVELALELSKLEGVEGVNITVTEIDVETENL-KITIEGTNLDYDEIEEVIEELG 73 (97)
T ss_pred eeeeeeecCCcCCCcHHHHHHHHhhcCCcceEEEEEEEeeehhcce-EEEEEcCCCCHHHHHHHHHHcC
Confidence 455665532 223334455677889999887755 44 333 8999998899999999999987
No 14
>KOG0207 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=75.19 E-value=6.2 Score=39.68 Aligned_cols=59 Identities=14% Similarity=0.173 Sum_probs=50.4
Q ss_pred eccCHHHHHHHHHHhccCCCccEEEecCCCCCeEEE--EcccCCHHHHHHHHhhcC-CeeEEec
Q 045203 55 EIHDDIAQQAAFSIVSKFKGITDLSVDPKDRTRMTV--IGDNFDAISAGTKLKRLC-DTRLVSF 115 (154)
Q Consensus 55 ~MhCdgC~~Kv~K~lski~GV~SV~iD~~~~dkVTV--~G~~VDp~~Lv~kLrK~g-~AeIVSv 115 (154)
+|.|..|..-+.+.++..+||.++.+....+ ..+| . ..+++..+.+.+.-.| .+.+++-
T Consensus 2 gmtc~ac~~si~~~~~~~~g~~~i~vsl~~~-~~~v~~~-~~~~~~~i~~~ied~gf~~~~~~~ 63 (951)
T KOG0207|consen 2 GMTCSACSNSIEKAISRKPGVQKIEVSLAQK-RANVSYD-NIVSPESIKETIEDMGFEASLLSD 63 (951)
T ss_pred CccHHHHhhhHHHHHhcCCCceeEEEEeccc-cceEEEe-eccCHHHHHHHhhcccceeeeccc
Confidence 6999999999999999999999999988776 4444 5 4589999999998877 7888764
No 15
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=63.82 E-value=21 Score=23.85 Aligned_cols=32 Identities=9% Similarity=0.229 Sum_probs=28.9
Q ss_pred eEEEEEEeccCHHHHHHHHHHhccCCCccEEE
Q 045203 48 KKAVFKLEIHDDIAQQAAFSIVSKFKGITDLS 79 (154)
Q Consensus 48 qkvVLKV~MhCdgC~~Kv~K~lski~GV~SV~ 79 (154)
..+.|.+....-.--..+++.|.+++||.+|.
T Consensus 48 ~~~~l~v~V~d~~~L~~ii~~L~~i~~V~~V~ 79 (80)
T PF13291_consen 48 ARITLTVEVKDLEHLNQIIRKLRQIPGVISVE 79 (80)
T ss_dssp EEEEEEEEESSHHHHHHHHHHHCTSTTEEEEE
T ss_pred EEEEEEEEECCHHHHHHHHHHHHCCCCeeEEE
Confidence 46888889999999999999999999999884
No 16
>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=63.25 E-value=21 Score=23.11 Aligned_cols=33 Identities=3% Similarity=0.161 Sum_probs=27.6
Q ss_pred eEEEEEEeccCHH-HHHHHHHHhccCCCccEEEe
Q 045203 48 KKAVFKLEIHDDI-AQQAAFSIVSKFKGITDLSV 80 (154)
Q Consensus 48 qkvVLKV~MhCdg-C~~Kv~K~lski~GV~SV~i 80 (154)
..+.|-+..+... --..+++.|.+++||.+|.+
T Consensus 41 ~~i~~~v~v~~~~~~l~~l~~~L~~i~~V~~v~~ 74 (76)
T cd04888 41 ANVTISIDTSTMNGDIDELLEELREIDGVEKVEL 74 (76)
T ss_pred EEEEEEEEcCchHHHHHHHHHHHhcCCCeEEEEE
Confidence 3566777777776 88999999999999999875
No 17
>PF13732 DUF4162: Domain of unknown function (DUF4162)
Probab=59.35 E-value=23 Score=23.86 Aligned_cols=40 Identities=13% Similarity=0.131 Sum_probs=31.0
Q ss_pred hccCCCccEEEecCCCCCeEEEEcccCCHHHHHHHHhhcCC
Q 045203 69 VSKFKGITDLSVDPKDRTRMTVIGDNFDAISAGTKLKRLCD 109 (154)
Q Consensus 69 lski~GV~SV~iD~~~~dkVTV~G~~VDp~~Lv~kLrK~g~ 109 (154)
+..++||.++..+....=.+.|.+. .++..|+..|...|.
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 7788999999886544126667776 899999999987665
No 18
>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=56.42 E-value=20 Score=23.81 Aligned_cols=33 Identities=15% Similarity=0.255 Sum_probs=22.9
Q ss_pred eEEEEEEeccCHHHH------HHHHHHhccCCCccEEEe
Q 045203 48 KKAVFKLEIHDDIAQ------QAAFSIVSKFKGITDLSV 80 (154)
Q Consensus 48 qkvVLKV~MhCdgC~------~Kv~K~lski~GV~SV~i 80 (154)
.++.|.+.+...+|. ..+..+|..++||.+|.+
T Consensus 34 ~~V~v~l~l~~~~~~~~~~l~~~i~~~l~~l~gv~~V~V 72 (72)
T PF01883_consen 34 GKVSVSLELPTPACPAAEPLREEIREALKALPGVKSVKV 72 (72)
T ss_dssp CEEEEEE--SSTTHTTHHHHHHHHHHHHHTSTT-SEEEE
T ss_pred CEEEEEEEECCCCchHHHHHHHHHHHHHHhCCCCceEeC
Confidence 356677766665554 788899999999999875
No 19
>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=50.98 E-value=48 Score=23.21 Aligned_cols=32 Identities=16% Similarity=0.277 Sum_probs=29.9
Q ss_pred EEEEEEeccCHHHHHHHHHHhccCCCccEEEe
Q 045203 49 KAVFKLEIHDDIAQQAAFSIVSKFKGITDLSV 80 (154)
Q Consensus 49 kvVLKV~MhCdgC~~Kv~K~lski~GV~SV~i 80 (154)
++|+-+.-...+-....++.|..++||-|+.+
T Consensus 40 KiVVtiE~~~~~~~~~~~~~i~~l~GVlsa~l 71 (79)
T PF03927_consen 40 KIVVTIEAESSEEEVDLIDAINALPGVLSASL 71 (79)
T ss_dssp EEEEEEEESSHHHHHHHHHHHCCSTTEEEEEE
T ss_pred eEEEEEEeCChHHHHHHHHHHHcCCCceEEEE
Confidence 78999999999999999999999999999986
No 20
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=44.35 E-value=76 Score=22.97 Aligned_cols=54 Identities=13% Similarity=0.074 Sum_probs=38.8
Q ss_pred HHHHHHHHHhccCCCccEEEecCCCCCeEEEEcccCCHHHHHHHHh---h-cC--CeeEEe
Q 045203 60 IAQQAAFSIVSKFKGITDLSVDPKDRTRMTVIGDNFDAISAGTKLK---R-LC--DTRLVS 114 (154)
Q Consensus 60 gC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~G~~VDp~~Lv~kLr---K-~g--~AeIVS 114 (154)
.-...+.+.|..++|++=-..|.+.| |++|+=++-+...+++.|. . -| .|.++-
T Consensus 17 e~~~~V~~~l~~ipg~Evh~~d~~~G-KiVVtiE~~~~~~~~~~i~~I~~l~GVlsa~lVY 76 (87)
T PRK10553 17 ERISDISTQLNAFPGCEVAVSDAPSG-QLIVVVEAEDSETLLQTIESVRNVEGVLAVSLVY 76 (87)
T ss_pred HHHHHHHHHHHcCCCcEEEeecCCCC-eEEEEEEeCChHHHHHHHHHHHcCCCceEEEEEE
Confidence 34678999999999999888888877 8877655456665655554 4 33 566664
No 21
>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=43.45 E-value=93 Score=21.76 Aligned_cols=45 Identities=9% Similarity=0.064 Sum_probs=33.7
Q ss_pred HHHHHHHHHhccCCCccEEEecCCCCCeEEEEcccCCHHHHHHHHhh
Q 045203 60 IAQQAAFSIVSKFKGITDLSVDPKDRTRMTVIGDNFDAISAGTKLKR 106 (154)
Q Consensus 60 gC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~G~~VDp~~Lv~kLrK 106 (154)
+=...+.+.|..++||+=-..|.+ | |++|+=+.-+...+.+.+..
T Consensus 15 ~~~~~v~~~l~~~~gvEVh~~~~~-G-KiVVtiE~~~~~~~~~~~~~ 59 (79)
T PF03927_consen 15 ERLEEVAEALAAIPGVEVHAVDED-G-KIVVTIEAESSEEEVDLIDA 59 (79)
T ss_dssp CCHHHHHHHHCCSTTEEEEEEETT-T-EEEEEEEESSHHHHHHHHHH
T ss_pred hhHHHHHHHHHcCCCcEEEeeCCC-C-eEEEEEEeCChHHHHHHHHH
Confidence 456789999999999976666665 6 77776654677777777765
No 22
>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=42.61 E-value=62 Score=21.42 Aligned_cols=31 Identities=10% Similarity=0.193 Sum_probs=26.1
Q ss_pred EEEEEeccCHHHHHHHHHHhccCCCccEEEe
Q 045203 50 AVFKLEIHDDIAQQAAFSIVSKFKGITDLSV 80 (154)
Q Consensus 50 vVLKV~MhCdgC~~Kv~K~lski~GV~SV~i 80 (154)
+-|.+....-.--..+++.|.+++||.+|.-
T Consensus 39 i~l~i~v~~~~~L~~li~~L~~i~gV~~V~R 69 (74)
T cd04877 39 IYLNFPTIEFEKLQTLMPEIRRIDGVEDVKT 69 (74)
T ss_pred EEEEeEecCHHHHHHHHHHHhCCCCceEEEE
Confidence 6667777777778999999999999999863
No 23
>TIGR02052 MerP mercuric transport protein periplasmic component. This model represents the periplasmic mercury (II) binding protein of the bacterial mercury detoxification system which passes mercuric ion to the MerT transporter for subsequent reduction to Hg(0) by the mercuric reductase MerA. MerP contains a distinctive GMTCXXC motif associated with metal binding. MerP is related to a larger family of metal binding proteins (pfam00403).
Probab=41.95 E-value=90 Score=19.78 Aligned_cols=57 Identities=9% Similarity=0.075 Sum_probs=38.3
Q ss_pred EEEE-eccCHHHHHHHHHHhccCCCccEEEecCCCCCeEEEE--cccCCHHHHHHHHhhcC
Q 045203 51 VFKL-EIHDDIAQQAAFSIVSKFKGITDLSVDPKDRTRMTVI--GDNFDAISAGTKLKRLC 108 (154)
Q Consensus 51 VLKV-~MhCdgC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~--G~~VDp~~Lv~kLrK~g 108 (154)
.+.+ +++|..|...+...+...+|+.....+.... .+.+. +...+...+...+...+
T Consensus 26 ~~~~~~~~c~~c~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~g 85 (92)
T TIGR02052 26 TLEVPGMTCVACPITVETALQKVDGVSKAEVTFKTK-LAVVTFDDEKTNVKALTEATTDAG 85 (92)
T ss_pred EEEECCeEcHHHHHHHHHHHhcCCCEEEEEEEecCC-EEEEEECCCCCCHHHHHHHHHhcC
Confidence 3444 7789999999999999999988887776665 54443 21145555544444444
No 24
>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=40.95 E-value=17 Score=23.35 Aligned_cols=32 Identities=13% Similarity=0.204 Sum_probs=15.1
Q ss_pred HHHHHhcc---CCCccEEEecCCCCCeEEEEcccCCHH
Q 045203 64 AAFSIVSK---FKGITDLSVDPKDRTRMTVIGDNFDAI 98 (154)
Q Consensus 64 Kv~K~lsk---i~GV~SV~iD~~~~dkVTV~G~~VDp~ 98 (154)
++...|.. +++- +|.+...++ .|++.|. ++-.
T Consensus 3 ~v~~~L~~~~~~~~~-~i~v~v~~g-~v~L~G~-v~s~ 37 (64)
T PF04972_consen 3 KVRAALRADPWLPDS-NISVSVENG-VVTLSGE-VPSQ 37 (64)
T ss_dssp ----------CTT-T-TEEEEEECT-EEEEEEE-ESSC
T ss_pred ccccccccccccCCC-eEEEEEECC-EEEEEee-CcHH
Confidence 34444444 4444 566666776 8888887 6433
No 25
>COG4004 Uncharacterized protein conserved in archaea [Function unknown]
Probab=39.64 E-value=37 Score=25.51 Aligned_cols=38 Identities=16% Similarity=0.385 Sum_probs=28.1
Q ss_pred HHhccCCCccEEEecCCCCCeEEEEcc----cCCHHHHHHHHh
Q 045203 67 SIVSKFKGITDLSVDPKDRTRMTVIGD----NFDAISAGTKLK 105 (154)
Q Consensus 67 K~lski~GV~SV~iD~~~~dkVTV~G~----~VDp~~Lv~kLr 105 (154)
+++++++|+..|++.++++ ++-|.|. +.|....++.+.
T Consensus 34 ~ivas~pgis~ieik~E~k-kL~v~t~~~~~d~~~l~~~ktyn 75 (96)
T COG4004 34 RIVASSPGISRIEIKPENK-KLLVNTTDYTDDETKLQTAKTYN 75 (96)
T ss_pred EEEEecCCceEEEEecccc-eEEEecccccCchhHHHHHHHHH
Confidence 4567999999999999999 9999882 234444444443
No 26
>PF13241 NAD_binding_7: Putative NAD(P)-binding; PDB: 3DFZ_B 1PJT_A 1PJS_A 1PJQ_A 1KYQ_B.
Probab=38.64 E-value=46 Score=23.68 Aligned_cols=38 Identities=24% Similarity=0.216 Sum_probs=23.6
Q ss_pred EEecCCCCCeEEEEcccCCHHHHHHHHhhcC-CeeEEecC
Q 045203 78 LSVDPKDRTRMTVIGDNFDAISAGTKLKRLC-DTRLVSFG 116 (154)
Q Consensus 78 V~iD~~~~dkVTV~G~~VDp~~Lv~kLrK~g-~AeIVSv~ 116 (154)
+-+|.++. +|.|+|.|--...-+..|.+.| ++.+++..
T Consensus 1 l~l~l~~~-~vlVvGgG~va~~k~~~Ll~~gA~v~vis~~ 39 (103)
T PF13241_consen 1 LFLDLKGK-RVLVVGGGPVAARKARLLLEAGAKVTVISPE 39 (103)
T ss_dssp EEE--TT--EEEEEEESHHHHHHHHHHCCCTBEEEEEESS
T ss_pred CEEEcCCC-EEEEECCCHHHHHHHHHHHhCCCEEEEECCc
Confidence 34688888 9999997554555555555666 77777754
No 27
>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=38.61 E-value=49 Score=24.11 Aligned_cols=39 Identities=18% Similarity=0.204 Sum_probs=30.0
Q ss_pred ccccceEEEEEEeccCH-HHHHHHHHHhccCCCccEEEec
Q 045203 43 SRFNFKKAVFKLEIHDD-IAQQAAFSIVSKFKGITDLSVD 81 (154)
Q Consensus 43 ~~~~~qkvVLKV~MhCd-gC~~Kv~K~lski~GV~SV~iD 81 (154)
-+|-.+.+.+.+-|.++ +--..+...+++++||+|+.+.
T Consensus 44 iaFGLkaL~~~~vv~D~~g~td~lee~i~~ve~V~svev~ 83 (88)
T TIGR00489 44 IAFGLVAINVMVVMGDAEGGTEAAEESLSGIEGVESVEVT 83 (88)
T ss_pred eeccceeeEEEEEEecCCcChHHHHHHHhcCCCccEEEEE
Confidence 34445666667767555 6679999999999999999874
No 28
>PRK13748 putative mercuric reductase; Provisional
Probab=37.05 E-value=1.7e+02 Score=26.43 Aligned_cols=59 Identities=10% Similarity=0.061 Sum_probs=43.3
Q ss_pred eccCHHHHHHHHHHhccCCCccEEEecCCCCCeEEEEcc-cCCHHHHHHHHhhcC-CeeEEe
Q 045203 55 EIHDDIAQQAAFSIVSKFKGITDLSVDPKDRTRMTVIGD-NFDAISAGTKLKRLC-DTRLVS 114 (154)
Q Consensus 55 ~MhCdgC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~G~-~VDp~~Lv~kLrK~g-~AeIVS 114 (154)
.|+|..|..++...+..++|+....++...+ .+.+... ..+...+...+...+ .+....
T Consensus 8 g~~C~~c~~~ie~~l~~~~gv~~a~~~~~~~-~~~v~~~~~~~~~~i~~~i~~~g~~~~~~~ 68 (561)
T PRK13748 8 GMTCDSCAAHVKDALEKVPGVQSADVSYPKG-SAQLAIEVGTSPDALTAAVAGLGYRATLAD 68 (561)
T ss_pred CeecHHHHHHHHHHHhcCCCeeEEEEEcCCC-EEEEEECCCCCHHHHHHHHHHcCCeeeccC
Confidence 7889999999999999999999888888887 6666531 156666666665555 344333
No 29
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=37.01 E-value=92 Score=25.47 Aligned_cols=64 Identities=13% Similarity=0.190 Sum_probs=48.1
Q ss_pred cccccccceEEEEEE---eccCHHHHHHHHHHhccCCCccEEEecCCCCCeEEEEcccCCHH-HHHHHHh
Q 045203 40 NSTSRFNFKKAVFKL---EIHDDIAQQAAFSIVSKFKGITDLSVDPKDRTRMTVIGDNFDAI-SAGTKLK 105 (154)
Q Consensus 40 ~~~~~~~~qkvVLKV---~MhCdgC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~G~~VDp~-~Lv~kLr 105 (154)
+.+....|.+||+++ .|.=.-=-+.|...|+.|.-|.||+.-+.+. -|+|-++ ++.. .-+...+
T Consensus 79 k~~kepPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cGrqs-avVvF~d-~~SAC~Av~Af~ 146 (166)
T PF15023_consen 79 KNTKEPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCGRQS-AVVVFKD-ITSACKAVSAFQ 146 (166)
T ss_pred ccCCCCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecCCce-EEEEehh-hHHHHHHHHhhc
Confidence 445566788999998 6665555688999999999999999999887 8888887 5443 3344443
No 30
>PRK00435 ef1B elongation factor 1-beta; Validated
Probab=35.62 E-value=53 Score=23.90 Aligned_cols=38 Identities=13% Similarity=0.279 Sum_probs=30.1
Q ss_pred cccceEEEEEEeccCH-HHHHHHHHHhccCCCccEEEec
Q 045203 44 RFNFKKAVFKLEIHDD-IAQQAAFSIVSKFKGITDLSVD 81 (154)
Q Consensus 44 ~~~~qkvVLKV~MhCd-gC~~Kv~K~lski~GV~SV~iD 81 (154)
+|-.+++.+.+-|.++ +--..+...+++++||+|+.+.
T Consensus 45 aFGLkaL~i~~vv~D~~~~td~lee~i~~~e~Vqsvei~ 83 (88)
T PRK00435 45 AFGLKALKLYVIMPDEEGGTEPVEEAFANVEGVESVEVE 83 (88)
T ss_pred eccceeEEEEEEEEcCCcCcHHHHHHHhccCCCcEEEEE
Confidence 4445666777777664 8889999999999999999874
No 31
>COG2092 EFB1 Translation elongation factor EF-1beta [Translation, ribosomal structure and biogenesis]
Probab=34.87 E-value=56 Score=24.17 Aligned_cols=38 Identities=16% Similarity=0.315 Sum_probs=30.2
Q ss_pred cccceEEEEEEeccC-HHHHHHHHHHhccCCCccEEEec
Q 045203 44 RFNFKKAVFKLEIHD-DIAQQAAFSIVSKFKGITDLSVD 81 (154)
Q Consensus 44 ~~~~qkvVLKV~MhC-dgC~~Kv~K~lski~GV~SV~iD 81 (154)
+|-.+.+.|.+-|.+ +|--..+...+..++||.|+.+.
T Consensus 45 aFGLkal~l~vvv~D~Eg~td~~ee~l~~vegV~sveve 83 (88)
T COG2092 45 AFGLKALKLYVVVEDKEGGTDALEEALEEVEGVESVEVE 83 (88)
T ss_pred eeeeeeEEEEEEEcccccCcHHHHHHHhhccCcceEEEE
Confidence 344567777777765 57789999999999999999873
No 32
>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=33.79 E-value=57 Score=23.97 Aligned_cols=29 Identities=28% Similarity=0.349 Sum_probs=25.2
Q ss_pred eEEEEcccCCHHHHHHHHhhcC-CeeEEecC
Q 045203 87 RMTVIGDNFDAISAGTKLKRLC-DTRLVSFG 116 (154)
Q Consensus 87 kVTV~G~~VDp~~Lv~kLrK~g-~AeIVSv~ 116 (154)
-|.|+|+ -|-.-+++.||..| ++.++++.
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 5678999 89999999999988 88888864
No 33
>TIGR03406 FeS_long_SufT probable FeS assembly SUF system protein SufT. The function is unknown for this protein family, but members are found almost always in operons for the the SUF system of iron-sulfur cluster biosynthesis. The SUF system is present elsewhere on the chromosome for those few species where SUF genes are not adjacent. This family shares this property of association with the SUF system with a related family, TIGR02945. TIGR02945 consists largely of a DUF59 domain (see Pfam family pfam01883), while this protein is about double the length, with a unique N-terminal domain and DUF59 C-terminal domain. A location immediately downstream of the cysteine desulfurase gene sufS in many contexts suggests the gene symbol sufT. Note that some other homologs of this family and of TIGR02945, but no actual members of this family, are found in operons associated with phenylacetic acid (or other ring-hydroxylating) degradation pathways.
Probab=31.27 E-value=65 Score=26.05 Aligned_cols=34 Identities=6% Similarity=0.097 Sum_probs=25.6
Q ss_pred EEEEEEeccCHHHH------HHHHHHhccCCCccEEEecC
Q 045203 49 KAVFKLEIHDDIAQ------QAAFSIVSKFKGITDLSVDP 82 (154)
Q Consensus 49 kvVLKV~MhCdgC~------~Kv~K~lski~GV~SV~iD~ 82 (154)
++.+.+.+.-.+|. ..+..+|..++||.+|.++.
T Consensus 114 ~V~I~mtLt~p~c~~~~~L~~dV~~aL~~l~gV~~V~V~l 153 (174)
T TIGR03406 114 RVDIEMTLTAPGCGMGPVLVEDVEDKVLAVPNVDEVEVEL 153 (174)
T ss_pred EEEEEEEeCCCCCcHHHHHHHHHHHHHHhCCCceeEEEEE
Confidence 46677777655554 45888999999999988753
No 34
>PRK10553 assembly protein for periplasmic nitrate reductase; Provisional
Probab=30.75 E-value=1.2e+02 Score=21.86 Aligned_cols=32 Identities=16% Similarity=0.269 Sum_probs=29.5
Q ss_pred EEEEEEeccCHHHHHHHHHHhccCCCccEEEe
Q 045203 49 KAVFKLEIHDDIAQQAAFSIVSKFKGITDLSV 80 (154)
Q Consensus 49 kvVLKV~MhCdgC~~Kv~K~lski~GV~SV~i 80 (154)
++|+-+.-.+.+-....+..|..++||-|+.+
T Consensus 43 KiVVtiE~~~~~~~~~~i~~I~~l~GVlsa~l 74 (87)
T PRK10553 43 QLIVVVEAEDSETLLQTIESVRNVEGVLAVSL 74 (87)
T ss_pred eEEEEEEeCChHHHHHHHHHHHcCCCceEEEE
Confidence 78888889999999999999999999999987
No 35
>cd02407 PTH2_family Peptidyl-tRNA hydrolase, type 2 (PTH2)_like . Peptidyl-tRNA hydrolase activity releases tRNA from the premature translation termination product peptidyl-tRNA. Two structurally different enzymes have been reported to encode such activity, Pth present in bacteria and eukaryotes and Pth2 present in archaea and eukaryotes.
Probab=29.95 E-value=2e+02 Score=21.55 Aligned_cols=57 Identities=16% Similarity=-0.027 Sum_probs=35.1
Q ss_pred ceEEEEEEeccCHHHHHHHHHHhccCCCccEEEec-----CCCCCeEEEEcccCCHHHHHHHHhh
Q 045203 47 FKKAVFKLEIHDDIAQQAAFSIVSKFKGITDLSVD-----PKDRTRMTVIGDNFDAISAGTKLKR 106 (154)
Q Consensus 47 ~qkvVLKV~MhCdgC~~Kv~K~lski~GV~SV~iD-----~~~~dkVTV~G~~VDp~~Lv~kLrK 106 (154)
+.+|||+++-. .--..+.+.+....-...+..| ...| ..||.|-+-.|..+++.+-+
T Consensus 49 ~~KvVl~v~~~--~~l~~l~~~a~~~gl~~~~v~DAG~Tqi~~g-t~TvlaigP~~~~~i~~itg 110 (115)
T cd02407 49 QKKVVLKVPSE--EELLELAKKAKELGLPHSLIQDAGRTQIPPG-TPTVLAIGPAPKEKVDKVTG 110 (115)
T ss_pred CcEEEEECCCH--HHHHHHHHHHHHcCCCeEEEEECCCcccCCC-CceEEEECCCCHHHHHHHcC
Confidence 46899998632 2334444444443333455556 5666 78988876678877777643
No 36
>KOG3411 consensus 40S ribosomal protein S19 [Translation, ribosomal structure and biogenesis]
Probab=29.38 E-value=39 Score=26.97 Aligned_cols=47 Identities=17% Similarity=0.176 Sum_probs=32.6
Q ss_pred ccCH---HHHHHHHHHhccCCCccEEEecCCCCCeEEEEcccCCHHHHHHHHhh
Q 045203 56 IHDD---IAQQAAFSIVSKFKGITDLSVDPKDRTRMTVIGDNFDAISAGTKLKR 106 (154)
Q Consensus 56 MhCd---gC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~G~~VDp~~Lv~kLrK 106 (154)
-||. +|.++|+..|-++ --|+.+.+.+-++|=.|. =|...+..+|+-
T Consensus 91 h~~~as~~i~rkvlQ~Le~~---~~ve~hp~gGR~lt~~Gq-rdldrIa~~i~~ 140 (143)
T KOG3411|consen 91 HFCDASGGIARKVLQALEKM---GIVEKHPKGGRRLTEQGQ-RDLDRIAGQIRE 140 (143)
T ss_pred hhhccccHHHHHHHHHHHhC---CceeeCCCCcceeCcccc-hhHHHHHHHHHh
Confidence 3565 5666666655555 455666666558999998 888888888763
No 37
>PF01981 PTH2: Peptidyl-tRNA hydrolase PTH2; InterPro: IPR002833 Peptidyl-tRNA hydrolases are enzymes that release tRNAs from peptidyl-tRNA during translation.; GO: 0004045 aminoacyl-tRNA hydrolase activity; PDB: 1RLK_A 1XTY_C 2ZV3_I 2D3K_A 1WN2_A 1Q7S_A 3ERJ_B 1RZW_A.
Probab=29.10 E-value=1.9e+02 Score=21.27 Aligned_cols=55 Identities=16% Similarity=0.107 Sum_probs=34.6
Q ss_pred ceEEEEEEeccCHHHHHHHHHHhccCCCccEEE-ecC-----CCCCeEEEEcccCCHHHHHHHHh
Q 045203 47 FKKAVFKLEIHDDIAQQAAFSIVSKFKGITDLS-VDP-----KDRTRMTVIGDNFDAISAGTKLK 105 (154)
Q Consensus 47 ~qkvVLKV~MhCdgC~~Kv~K~lski~GV~SV~-iD~-----~~~dkVTV~G~~VDp~~Lv~kLr 105 (154)
+.+|||+++ .+.--..+.+.+.. .|+-... .|- ..| ..||.|-|-.|...++.+-
T Consensus 50 ~~Kivlkv~--~e~~L~~l~~~a~~-~gl~~~~i~Dag~Tei~pg-s~TvlaigP~~~~~i~~it 110 (116)
T PF01981_consen 50 QKKIVLKVP--SEEELLELAKKAKE-AGLPHYLIRDAGRTEIPPG-SVTVLAIGPAPKEEIDKIT 110 (116)
T ss_dssp TSEEEEEES--SHHHHHHHHHHHHH-TT-SEEEEEETSSSSSSTT-CEEEEEEEEEEHHHHHHHH
T ss_pred CceEEEEeC--CHHHHHHHHHHHHH-CCCCEEEEEECCCCcCCCC-CeEEEEECcCCHHHHHHHh
Confidence 469999987 33444445554443 3544333 342 455 7899887788888888774
No 38
>COG3062 NapD Uncharacterized protein involved in formation of periplasmic nitrate reductase [Inorganic ion transport and metabolism]
Probab=28.52 E-value=1.6e+02 Score=22.06 Aligned_cols=45 Identities=11% Similarity=0.076 Sum_probs=34.9
Q ss_pred HHHHHHHHHhccCCCccEEEecCCCCCeEEEEcccCCHHHHHHHHhh
Q 045203 60 IAQQAAFSIVSKFKGITDLSVDPKDRTRMTVIGDNFDAISAGTKLKR 106 (154)
Q Consensus 60 gC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~G~~VDp~~Lv~kLrK 106 (154)
.=...++..|+.++|++=..-|.+ | |++|+=++-|...|+..|..
T Consensus 18 e~l~av~~~L~~ip~~EV~~~d~~-G-KlVVVie~~~~~~l~~tie~ 62 (94)
T COG3062 18 ERLSAVKTALLAIPGCEVYGEDAE-G-KLVVVIEAEDSETLLETIES 62 (94)
T ss_pred HHHHHHHHHHhcCCCcEeeccCCC-c-eEEEEEEcCchHHHHHHHHH
Confidence 456789999999999998888887 6 67666554678888877754
No 39
>PF00679 EFG_C: Elongation factor G C-terminus; InterPro: IPR000640 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 EF2 (EF-G) is a G-protein. It brings about the translocation of peptidyl-tRNA and mRNA through a ratchet-like mechanism: the binding of GTP-EF2 to the ribosome causes a counter-clockwise rotation in the small ribosomal subunit; the hydrolysis of GTP to GDP by EF2 and the subsequent release of EF2 causes a clockwise rotation of the small subunit back to the starting position [, ]. This twisting action destabilises tRNA-ribosome interactions, freeing the tRNA to translocate along the ribosome upon GTP-hydrolysis by EF2. EF2 binding also affects the entry and exit channel openings for the mRNA, widening it when bound to enable the mRNA to translocate along the ribosome. This entry represents the C-terminal domain found in EF2 (or EF-G) of both prokaryotes and eukaryotes (also known as eEF2), as well as in some tetracycline-resistance proteins. This domain adopts a ferredoxin-like fold consisting of an alpha/beta sandwich with anti-parallel beta-sheets. It resembles the topology of domain III found in these elongation factors, with which it forms the C-terminal block, but these two domains cannot be superimposed []. This domain is often found associated with (IPR000795 from INTERPRO), which contains the signatures for the N terminus of the proteins. More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005525 GTP binding; PDB: 1WDT_A 2DY1_A 3CB4_F 3DEG_C 2EFG_A 1ELO_A 2XSY_Y 2WRK_Y 1DAR_A 2WRI_Y ....
Probab=25.93 E-value=2.3e+02 Score=19.54 Aligned_cols=57 Identities=16% Similarity=0.202 Sum_probs=36.3
Q ss_pred EEeccC-HHHHHHHHHHhccCCC-ccEEEecCCCCCeEEEEcccC---CHHHHHHHHhh-cC-CeeE
Q 045203 53 KLEIHD-DIAQQAAFSIVSKFKG-ITDLSVDPKDRTRMTVIGDNF---DAISAGTKLKR-LC-DTRL 112 (154)
Q Consensus 53 KV~MhC-dgC~~Kv~K~lski~G-V~SV~iD~~~~dkVTV~G~~V---Dp~~Lv~kLrK-~g-~AeI 112 (154)
++.++| +.+..+|+..|++..| |.+...+ .++ .++|.|. + ....+...||. +. +|.+
T Consensus 8 ~~~I~~p~~~~g~v~~~l~~r~g~i~~~~~~-~~~-~~~i~~~-iP~~~~~gf~~~Lr~~T~G~a~~ 71 (89)
T PF00679_consen 8 SVEISVPEEYLGKVISDLSKRRGEILSMDPI-GGD-RVVIEAE-IPVRELFGFRSELRSLTSGRASF 71 (89)
T ss_dssp EEEEEEEGGGHHHHHHHHHHTT-EEEEEEEE-STT-EEEEEEE-EEGGGHTTHHHHHHHHTTTS-EE
T ss_pred EEEEEECHHHHHHHHHHhcccccEEEechhh-hhh-heeEEEE-EChhhhhhHHHHhhccCCCEEEE
Confidence 344444 7889999999999888 4444444 344 8999996 4 44466677776 33 5554
No 40
>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=25.78 E-value=1e+02 Score=23.35 Aligned_cols=31 Identities=23% Similarity=0.271 Sum_probs=24.5
Q ss_pred CeEEEEcccCCHHHHHHHHhh-cC-CeeEEecCC
Q 045203 86 TRMTVIGDNFDAISAGTKLKR-LC-DTRLVSFGP 117 (154)
Q Consensus 86 dkVTV~G~~VDp~~Lv~kLrK-~g-~AeIVSv~P 117 (154)
|++.|.|+ +....++..+++ .| .+.+++.|.
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 48999997 999999999997 67 888888765
No 41
>cd00371 HMA Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain contains two cysteine residues that are important in binding and transfer of metal ions, such as copper, cadmium, cobalt and zinc. In the case of copper, stoichiometry of binding is one Cu+ ion per binding domain. Repeats of the HMA domain in copper chaperone has been associated with Menkes/Wilson disease due to binding of multiple copper ions.
Probab=25.66 E-value=98 Score=15.26 Aligned_cols=50 Identities=14% Similarity=0.100 Sum_probs=33.1
Q ss_pred eccCHHHHHHHHHHhccCCCccEEEecCCCCCeEEEEcc-cCCHHHHHHHHh
Q 045203 55 EIHDDIAQQAAFSIVSKFKGITDLSVDPKDRTRMTVIGD-NFDAISAGTKLK 105 (154)
Q Consensus 55 ~MhCdgC~~Kv~K~lski~GV~SV~iD~~~~dkVTV~G~-~VDp~~Lv~kLr 105 (154)
.++|..|...+...+....|+.......... .+.+... ..+...+...++
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ 56 (63)
T cd00371 6 GMTCAGCVSKIEKALEKLPGVESVEVDLETG-KATVEYDPEVSPEELLEAIE 56 (63)
T ss_pred CeEcHHHHHHHHHHHhcCCCEeEEEEEccCC-EEEEEECCCCCHHHHHHHHH
Confidence 5779999999998888889987776666554 5555432 035554444433
No 42
>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=25.58 E-value=1.5e+02 Score=18.09 Aligned_cols=30 Identities=13% Similarity=0.149 Sum_probs=23.2
Q ss_pred EEEEEEeccCHHHHHHHHHHhccCCCccEEE
Q 045203 49 KAVFKLEIHDDIAQQAAFSIVSKFKGITDLS 79 (154)
Q Consensus 49 kvVLKV~MhCdgC~~Kv~K~lski~GV~SV~ 79 (154)
.+++.+...- .=-..++..|.+++||.+|.
T Consensus 43 ~~~~~~~~~~-~~~~~l~~~l~~~~~v~~v~ 72 (72)
T cd04878 43 RITIVVEGDD-DVIEQIVKQLNKLVDVLKVS 72 (72)
T ss_pred EEEEEEECCH-HHHHHHHHHHhCCccEEEeC
Confidence 5677776543 66788899999999999873
No 43
>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=25.58 E-value=1.1e+02 Score=24.76 Aligned_cols=38 Identities=16% Similarity=0.184 Sum_probs=28.2
Q ss_pred EEecCCCCCeEEEEcccCCHHHHHHHHhhcC-CeeEEecC
Q 045203 78 LSVDPKDRTRMTVIGDNFDAISAGTKLKRLC-DTRLVSFG 116 (154)
Q Consensus 78 V~iD~~~~dkVTV~G~~VDp~~Lv~kLrK~g-~AeIVSv~ 116 (154)
+-+|..++ ++.|+|-|--...-++.|-+.| ++.+++..
T Consensus 3 ~~l~l~gk-~vlVvGgG~va~rk~~~Ll~~ga~VtVvsp~ 41 (205)
T TIGR01470 3 VFANLEGR-AVLVVGGGDVALRKARLLLKAGAQLRVIAEE 41 (205)
T ss_pred eEEEcCCC-eEEEECcCHHHHHHHHHHHHCCCEEEEEcCC
Confidence 34677887 9999997666666667777777 88888753
No 44
>TIGR00283 arch_pth2 peptidyl-tRNA hydrolase. This model describes an archaeal/eukaryotic form of peptidyl-tRNA hydrolase. Most bacterial forms are described by TIGR00447.
Probab=25.41 E-value=2.9e+02 Score=20.78 Aligned_cols=55 Identities=18% Similarity=0.155 Sum_probs=32.8
Q ss_pred ceEEEEEEeccCHHHHHHHHHHhccCCCccE-EE-----ecCCCCCeEEEEcccCCHHHHHHHHh
Q 045203 47 FKKAVFKLEIHDDIAQQAAFSIVSKFKGITD-LS-----VDPKDRTRMTVIGDNFDAISAGTKLK 105 (154)
Q Consensus 47 ~qkvVLKV~MhCdgC~~Kv~K~lski~GV~S-V~-----iD~~~~dkVTV~G~~VDp~~Lv~kLr 105 (154)
+.+|+|+++- +.--..+.+.+... |+.. +. +....| ..||.|-|-.|..+++.+-
T Consensus 49 ~~KVvlk~~~--~~el~~l~~~a~~~-~l~~~~v~DAG~Tei~pg-s~TvlaigP~~~~~id~it 109 (115)
T TIGR00283 49 QKKVVLKVNS--LEELLEIYHKAESL-GLVTGLIRDAGHTQIPPG-TITAVGIGPDEDEKIDKIT 109 (115)
T ss_pred CCEEEEEeCC--HHHHHHHHHHHHHc-CCCEEEEEcCCcceeCCC-CcEEEEECCCCHHHHHHHh
Confidence 4589999862 33344444444444 4443 33 233445 6788887778888887764
No 45
>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=25.20 E-value=68 Score=23.05 Aligned_cols=28 Identities=25% Similarity=0.145 Sum_probs=20.5
Q ss_pred eEEEEcccCCHHHHHHHHhhcC-CeeEEec
Q 045203 87 RMTVIGDNFDAISAGTKLKRLC-DTRLVSF 115 (154)
Q Consensus 87 kVTV~G~~VDp~~Lv~kLrK~g-~AeIVSv 115 (154)
-|.|+|+ -|-.-++.+||..| ++.++..
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 6778999 99999999999988 7888874
No 46
>PRK11023 outer membrane lipoprotein; Provisional
Probab=25.17 E-value=1.2e+02 Score=24.43 Aligned_cols=48 Identities=15% Similarity=0.183 Sum_probs=33.2
Q ss_pred ccCHHHHHHHHHHhccCCCcc---EEEecCCCCCeEEEEcccCCHHHHHHHHh
Q 045203 56 IHDDIAQQAAFSIVSKFKGIT---DLSVDPKDRTRMTVIGDNFDAISAGTKLK 105 (154)
Q Consensus 56 MhCdgC~~Kv~K~lski~GV~---SV~iD~~~~dkVTV~G~~VDp~~Lv~kLr 105 (154)
+.+..=..+|...|..-+++. .|.+...+| .|+++|. |+-.....+..
T Consensus 45 ~dD~~i~~~V~~aL~~~~~l~~~~~I~V~v~~G-~V~L~G~-V~~~~~k~~A~ 95 (191)
T PRK11023 45 VDDGTLELRVNNALSKDEQIKKEARINVTAYQG-KVLLTGQ-SPNAELSERAK 95 (191)
T ss_pred ehhHHHHHHHHHHHhhCcccCcCceEEEEEECC-EEEEEEE-eCCHHHHHHHH
Confidence 345566788888887777664 577777887 8888888 76665444443
No 47
>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=24.79 E-value=2e+02 Score=18.41 Aligned_cols=32 Identities=13% Similarity=0.140 Sum_probs=26.4
Q ss_pred EEEEEEeccCHHHHHHHHHHhccCCCccEEEe
Q 045203 49 KAVFKLEIHDDIAQQAAFSIVSKFKGITDLSV 80 (154)
Q Consensus 49 kvVLKV~MhCdgC~~Kv~K~lski~GV~SV~i 80 (154)
.+-|.+......-...+++.|.+++||....+
T Consensus 41 ~~~~~vev~~~~~l~~i~~~L~~i~gV~~~~~ 72 (74)
T cd04887 41 VRDITVDAPSEEHAETIVAAVRALPEVKVLSV 72 (74)
T ss_pred EEEEEEEcCCHHHHHHHHHHHhcCCCeEEEEe
Confidence 45566777788888999999999999987655
No 48
>PRK06719 precorrin-2 dehydrogenase; Validated
Probab=24.48 E-value=1.2e+02 Score=23.51 Aligned_cols=37 Identities=22% Similarity=0.204 Sum_probs=28.2
Q ss_pred EEEecCCCCCeEEEEcccCCHHHHHHHHhhcC-CeeEEe
Q 045203 77 DLSVDPKDRTRMTVIGDNFDAISAGTKLKRLC-DTRLVS 114 (154)
Q Consensus 77 SV~iD~~~~dkVTV~G~~VDp~~Lv~kLrK~g-~AeIVS 114 (154)
-+-+|.+++ ++.|+|-|-=....++.|-+.| .+.+|+
T Consensus 6 P~~l~l~~~-~vlVvGGG~va~rka~~Ll~~ga~V~VIs 43 (157)
T PRK06719 6 PLMFNLHNK-VVVIIGGGKIAYRKASGLKDTGAFVTVVS 43 (157)
T ss_pred ceEEEcCCC-EEEEECCCHHHHHHHHHHHhCCCEEEEEc
Confidence 356788998 9999997655666677777767 788886
No 49
>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=23.68 E-value=2e+02 Score=20.71 Aligned_cols=38 Identities=16% Similarity=0.242 Sum_probs=30.3
Q ss_pred cccceEEEEEEeccCH-HHHHHHHHHh-ccCCCccEEEec
Q 045203 44 RFNFKKAVFKLEIHDD-IAQQAAFSIV-SKFKGITDLSVD 81 (154)
Q Consensus 44 ~~~~qkvVLKV~MhCd-gC~~Kv~K~l-ski~GV~SV~iD 81 (154)
+|-.+.+.+.+-|.++ +--..+...+ +..+||+|+.+.
T Consensus 45 aFGlk~L~v~~vv~D~~~~~d~lee~i~~~~e~Vqsvei~ 84 (89)
T PF00736_consen 45 AFGLKALQVSCVVEDDEGSTDDLEEAIESFEEGVQSVEIE 84 (89)
T ss_dssp CTTEEEEEEEEEECTTTCGHHHHHHHHTTCTTTEEEEEEE
T ss_pred cccEEEEEEEEEEEcCccChHHHHHHHHhcCCCccEEEEE
Confidence 4455677777778775 7788899999 999999999874
No 50
>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=23.47 E-value=1.1e+02 Score=20.35 Aligned_cols=33 Identities=27% Similarity=0.358 Sum_probs=24.5
Q ss_pred eEEEEcccCCHHHHHHHHhhcC-CeeEEecCCCC
Q 045203 87 RMTVIGDNFDAISAGTKLKRLC-DTRLVSFGPIK 119 (154)
Q Consensus 87 kVTV~G~~VDp~~Lv~kLrK~g-~AeIVSv~P~k 119 (154)
+++|+|-|.-...+...|.+.+ ++.|+.-.+..
T Consensus 1 ~vvViGgG~ig~E~A~~l~~~g~~vtli~~~~~~ 34 (80)
T PF00070_consen 1 RVVVIGGGFIGIELAEALAELGKEVTLIERSDRL 34 (80)
T ss_dssp EEEEESSSHHHHHHHHHHHHTTSEEEEEESSSSS
T ss_pred CEEEECcCHHHHHHHHHHHHhCcEEEEEeccchh
Confidence 4678887777888888888877 78887765543
No 51
>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=23.05 E-value=50 Score=22.81 Aligned_cols=22 Identities=27% Similarity=0.502 Sum_probs=18.0
Q ss_pred cCCCc--cEEEecCCCCCeEEEEcc
Q 045203 71 KFKGI--TDLSVDPKDRTRMTVIGD 93 (154)
Q Consensus 71 ki~GV--~SV~iD~~~~dkVTV~G~ 93 (154)
.++|| ++|.++..++ .|+|.|.
T Consensus 17 ~lPGv~~edi~v~~~~~-~L~I~g~ 40 (93)
T cd06471 17 DLPGFKKEDIKLDYKDG-YLTISAK 40 (93)
T ss_pred ECCCCCHHHeEEEEECC-EEEEEEE
Confidence 46787 6788888887 9999997
No 52
>PRK04322 peptidyl-tRNA hydrolase; Provisional
Probab=22.71 E-value=3.1e+02 Score=20.50 Aligned_cols=56 Identities=16% Similarity=0.124 Sum_probs=32.7
Q ss_pred ceEEEEEEeccCHHHHHHHHHHhccCCCcc-EEE-----ecCCCCCeEEEEcccCCHHHHHHHHhh
Q 045203 47 FKKAVFKLEIHDDIAQQAAFSIVSKFKGIT-DLS-----VDPKDRTRMTVIGDNFDAISAGTKLKR 106 (154)
Q Consensus 47 ~qkvVLKV~MhCdgC~~Kv~K~lski~GV~-SV~-----iD~~~~dkVTV~G~~VDp~~Lv~kLrK 106 (154)
+.+|||+++- +.--..+.+.+... |+. .+. +....| ..||.|-+-.|..+++.+-+
T Consensus 47 ~~Kvvlkv~~--~~el~~l~~~a~~~-~l~~~~v~DAG~Tei~~g-s~TvlaigP~~~~~i~~itg 108 (113)
T PRK04322 47 QKKVVLKVNS--EEELLELKEKAERL-GLPTALIRDAGLTQLPPG-TVTALGIGPAPEEKIDKITG 108 (113)
T ss_pred CcEEEEeCCC--HHHHHHHHHHHHHc-CCCEEEEEeCCCcccCCC-CcEEEEeCCCCHHHHHHhhC
Confidence 4589999862 22233344444333 443 333 234455 67998876788888877653
No 53
>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=22.47 E-value=1.1e+02 Score=24.60 Aligned_cols=28 Identities=21% Similarity=0.101 Sum_probs=24.4
Q ss_pred eEEEEcccCCHHHHHHHHhhcC-CeeEEec
Q 045203 87 RMTVIGDNFDAISAGTKLKRLC-DTRLVSF 115 (154)
Q Consensus 87 kVTV~G~~VDp~~Lv~kLrK~g-~AeIVSv 115 (154)
-+.|+|+ -|-.-|+.+||..| .+..+++
T Consensus 109 ~vLvSgD-~DF~~Lv~~lre~G~~V~v~g~ 137 (160)
T TIGR00288 109 VALVTRD-ADFLPVINKAKENGKETIVIGA 137 (160)
T ss_pred EEEEecc-HhHHHHHHHHHHCCCEEEEEeC
Confidence 5678999 99999999999888 7888875
No 54
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=22.18 E-value=1.2e+02 Score=24.23 Aligned_cols=30 Identities=17% Similarity=0.129 Sum_probs=26.4
Q ss_pred eEEEEcccCCHHHHHHHHhhcC-CeeEEecCC
Q 045203 87 RMTVIGDNFDAISAGTKLKRLC-DTRLVSFGP 117 (154)
Q Consensus 87 kVTV~G~~VDp~~Lv~kLrK~g-~AeIVSv~P 117 (154)
-|.++|+ -|-.-+++.++..| .+.+++++|
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 6667899 99999999999877 899999887
No 55
>PRK06718 precorrin-2 dehydrogenase; Reviewed
Probab=21.88 E-value=1.5e+02 Score=23.87 Aligned_cols=36 Identities=19% Similarity=0.290 Sum_probs=27.3
Q ss_pred EEecCCCCCeEEEEcccCCHHHHHHHHhhcC-CeeEEe
Q 045203 78 LSVDPKDRTRMTVIGDNFDAISAGTKLKRLC-DTRLVS 114 (154)
Q Consensus 78 V~iD~~~~dkVTV~G~~VDp~~Lv~kLrK~g-~AeIVS 114 (154)
+-+|.+++ ++.|+|-|=-....++.|.+.| ++.+++
T Consensus 4 l~l~l~~k-~vLVIGgG~va~~ka~~Ll~~ga~V~VIs 40 (202)
T PRK06718 4 LMIDLSNK-RVVIVGGGKVAGRRAITLLKYGAHIVVIS 40 (202)
T ss_pred eEEEcCCC-EEEEECCCHHHHHHHHHHHHCCCeEEEEc
Confidence 45688888 9999997555666777888777 677776
No 56
>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=21.34 E-value=1.2e+02 Score=26.50 Aligned_cols=47 Identities=13% Similarity=0.190 Sum_probs=35.2
Q ss_pred EEEeccCHHHHHHHHHHhccCCCccEEEecCCC----------CCeEEEEcccCCHHHH
Q 045203 52 FKLEIHDDIAQQAAFSIVSKFKGITDLSVDPKD----------RTRMTVIGDNFDAISA 100 (154)
Q Consensus 52 LKV~MhCdgC~~Kv~K~lski~GV~SV~iD~~~----------~dkVTV~G~~VDp~~L 100 (154)
..+-+|..|....+...+..+ |++.+.+|... ++++++-|. +||.-|
T Consensus 213 ~piilH~cG~~~~~l~~~~e~-g~dvl~~d~~~~dl~eak~~~g~k~~l~GN-lDp~~L 269 (321)
T cd03309 213 ALIVHHSCGAAASLVPSMAEM-GVDSWNVVMTANNTAELRRLLGDKVVLAGA-IDDVAL 269 (321)
T ss_pred CceEEEeCCCcHHHHHHHHHc-CCCEEEecCCCCCHHHHHHHhCCCeEEEcC-CChHHh
Confidence 346678777776777777777 99998888766 237899998 988543
No 57
>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=21.03 E-value=1.1e+02 Score=20.81 Aligned_cols=20 Identities=30% Similarity=0.474 Sum_probs=15.6
Q ss_pred eEEEEcccCCHHHHHHHHhh
Q 045203 87 RMTVIGDNFDAISAGTKLKR 106 (154)
Q Consensus 87 kVTV~G~~VDp~~Lv~kLrK 106 (154)
+++++|.++|...|.+.|..
T Consensus 73 ~lV~IG~~ld~~~l~~~l~~ 92 (94)
T PF07683_consen 73 RLVFIGKNLDKEALREALDA 92 (94)
T ss_dssp EEEEEEES--HHHHHHHHHT
T ss_pred EEEEEECCCCHHHHHHHHHc
Confidence 89999999999999888764
Done!