Query 032755
Match_columns 134
No_of_seqs 181 out of 1080
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 05:32:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032755.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032755hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0053 MMT1 Predicted Co/Zn/C 99.5 3E-14 6.5E-19 118.4 9.7 70 2-71 227-296 (304)
2 TIGR01297 CDF cation diffusion 99.5 2.2E-13 4.9E-18 108.4 8.9 64 2-65 204-268 (268)
3 PRK09509 fieF ferrous iron eff 99.4 6.5E-13 1.4E-17 109.0 9.4 65 2-67 225-289 (299)
4 PF01545 Cation_efflux: Cation 99.3 2.1E-11 4.5E-16 97.5 10.1 66 2-67 217-283 (284)
5 PRK03557 zinc transporter ZitB 99.2 9.6E-11 2.1E-15 97.2 9.7 62 2-67 233-294 (312)
6 KOG1485 Mitochondrial Fe2+ tra 98.0 1.5E-05 3.3E-10 69.4 6.8 64 3-67 339-402 (412)
7 COG1230 CzcD Co/Zn/Cd efflux s 97.3 0.00078 1.7E-08 56.7 7.2 61 2-66 234-295 (296)
8 KOG1482 Zn2+ transporter [Inor 97.1 0.002 4.4E-08 55.8 7.8 64 2-69 306-370 (379)
9 KOG1483 Zn2+ transporter ZNT1 95.8 0.032 6.8E-07 48.9 6.7 60 2-66 311-371 (404)
10 PF14535 AMP-binding_C_2: AMP- 94.6 0.82 1.8E-05 31.6 9.9 65 1-67 15-81 (96)
11 PF03780 Asp23: Asp23 family; 88.7 5.9 0.00013 27.3 8.5 53 11-63 50-105 (108)
12 PF09580 Spore_YhcN_YlaJ: Spor 82.4 6.3 0.00014 29.7 6.6 59 4-66 86-144 (177)
13 TIGR02898 spore_YhcN_YlaJ spor 75.0 17 0.00038 27.9 7.0 61 4-66 65-125 (158)
14 PF00873 ACR_tran: AcrB/AcrD/A 67.2 22 0.00048 34.0 7.2 43 20-63 559-601 (1021)
15 PRK10597 DNA damage-inducible 61.2 32 0.00069 23.8 5.3 70 22-106 3-73 (81)
16 PF01883 DUF59: Domain of unkn 58.2 28 0.00061 22.3 4.5 39 17-60 33-72 (72)
17 PRK00745 4-oxalocrotonate taut 58.1 42 0.0009 20.7 5.4 44 24-67 4-48 (62)
18 COG3965 Predicted Co/Zn/Cd cat 56.0 13 0.00028 31.6 3.2 50 12-62 254-306 (314)
19 PRK02289 4-oxalocrotonate taut 52.3 56 0.0012 20.4 6.0 43 24-66 4-47 (60)
20 TIGR02610 PHA_gran_rgn putativ 52.2 34 0.00074 23.9 4.4 32 22-53 2-33 (91)
21 PF06183 DinI: DinI-like famil 51.7 24 0.00051 23.3 3.3 25 36-61 5-29 (65)
22 PF01076 Mob_Pre: Plasmid reco 49.4 69 0.0015 24.9 6.2 51 15-65 74-130 (196)
23 TIGR03221 muco_delta muconolac 48.2 58 0.0013 23.1 5.0 24 20-43 2-25 (90)
24 PRK14637 hypothetical protein; 47.6 88 0.0019 23.7 6.3 44 7-50 24-67 (151)
25 PF00408 PGM_PMM_IV: Phosphogl 46.8 77 0.0017 20.4 5.5 35 12-49 39-73 (73)
26 TIGR00668 apaH bis(5'-nucleosy 46.1 27 0.00058 29.3 3.6 30 21-50 116-145 (279)
27 PF09650 PHA_gran_rgn: Putativ 44.7 47 0.001 22.9 4.1 30 24-53 1-30 (87)
28 KOG1484 Putative Zn2+ transpor 44.3 94 0.002 27.2 6.6 59 2-65 288-347 (354)
29 cd02413 40S_S3_KH K homology R 44.0 59 0.0013 22.1 4.5 58 7-66 19-78 (81)
30 PF12984 DUF3868: Domain of un 43.6 66 0.0014 23.2 4.9 28 3-30 27-54 (115)
31 PRK14641 hypothetical protein; 42.8 1E+02 0.0023 24.0 6.2 44 7-50 25-68 (173)
32 PRK14647 hypothetical protein; 42.5 1.3E+02 0.0029 22.8 6.7 45 7-51 24-68 (159)
33 PF02426 MIase: Muconolactone 42.5 82 0.0018 22.1 5.1 28 20-47 3-30 (91)
34 COG0483 SuhB Archaeal fructose 42.4 49 0.0011 26.8 4.5 60 34-112 5-64 (260)
35 TIGR00013 taut 4-oxalocrotonat 42.3 80 0.0017 19.3 6.5 44 22-66 3-47 (63)
36 PF02576 DUF150: Uncharacteris 41.0 89 0.0019 22.9 5.4 44 7-50 12-55 (141)
37 PF03389 MobA_MobL: MobA/MobL 40.3 1.2E+02 0.0027 24.0 6.4 47 17-63 64-110 (216)
38 PF12327 FtsZ_C: FtsZ family, 39.8 45 0.00098 23.1 3.4 28 22-49 39-66 (95)
39 PRK14640 hypothetical protein; 39.7 1.4E+02 0.003 22.6 6.3 45 7-51 22-66 (152)
40 PRK00092 ribosome maturation p 39.0 1.4E+02 0.0031 22.2 6.3 44 7-50 23-66 (154)
41 PRK14639 hypothetical protein; 38.9 1.5E+02 0.0032 22.1 6.3 47 7-53 13-59 (140)
42 PF13356 DUF4102: Domain of un 38.4 1.2E+02 0.0026 20.2 5.7 29 22-50 48-76 (89)
43 PRK14634 hypothetical protein; 38.3 1.4E+02 0.0031 22.6 6.2 44 7-50 23-68 (155)
44 TIGR00915 2A0602 The (Largely 36.5 1.1E+02 0.0025 29.7 6.6 45 19-63 569-614 (1044)
45 cd02411 archeal_30S_S3_KH K ho 35.4 1.1E+02 0.0025 20.5 4.8 56 7-64 27-82 (85)
46 cd04870 ACT_PSP_1 CT domains f 35.2 1.2E+02 0.0026 19.3 5.7 30 6-35 25-54 (75)
47 cd00491 4Oxalocrotonate_Tautom 35.0 1E+02 0.0022 18.4 6.2 43 24-66 3-46 (58)
48 cd07422 MPP_ApaH Escherichia c 34.5 72 0.0016 26.1 4.3 31 20-50 113-143 (257)
49 PF00368 HMG-CoA_red: Hydroxym 33.4 3.3E+02 0.0071 23.8 8.7 55 6-60 139-193 (373)
50 COG4669 EscJ Type III secretor 32.8 1.2E+02 0.0027 25.2 5.4 73 38-114 108-185 (246)
51 PRK14638 hypothetical protein; 32.7 2E+02 0.0044 21.6 6.3 45 7-51 24-69 (150)
52 PRK01964 4-oxalocrotonate taut 32.7 1.3E+02 0.0027 18.7 5.7 44 24-67 4-48 (64)
53 PRK02220 4-oxalocrotonate taut 32.0 1.2E+02 0.0026 18.4 5.8 43 24-66 4-47 (61)
54 PRK15127 multidrug efflux syst 31.6 1.6E+02 0.0034 28.8 6.7 44 19-62 569-613 (1049)
55 PRK10555 aminoglycoside/multid 31.0 1.6E+02 0.0035 28.7 6.7 44 20-63 569-613 (1037)
56 PF10646 Germane: Sporulation 31.0 1.7E+02 0.0037 19.8 5.6 47 17-63 63-109 (117)
57 PF08830 DUF1806: Protein of u 30.7 54 0.0012 24.3 2.7 33 42-76 6-38 (114)
58 PRK09577 multidrug efflux prot 30.6 1.3E+02 0.0028 29.3 6.0 42 19-61 566-607 (1032)
59 KOG0282 mRNA splicing factor [ 30.5 33 0.00072 31.2 1.8 18 115-132 227-244 (503)
60 PRK10503 multidrug efflux syst 29.6 1.8E+02 0.0039 28.4 6.7 44 19-63 567-610 (1040)
61 COG0149 TpiA Triosephosphate i 29.3 84 0.0018 26.1 3.9 86 24-124 124-212 (251)
62 cd04900 ACT_UUR-like_1 ACT dom 29.0 1.6E+02 0.0034 18.7 5.5 45 6-50 27-71 (73)
63 PRK05783 hypothetical protein; 28.8 2E+02 0.0044 19.9 5.3 38 26-64 46-83 (84)
64 cd01790 Herp_N Homocysteine-re 28.7 1.7E+02 0.0036 19.9 4.7 28 10-38 3-30 (79)
65 COG3696 Putative silver efflux 28.1 1.3E+02 0.0029 29.7 5.4 39 24-63 562-600 (1027)
66 COG1539 FolB Dihydroneopterin 27.3 2.5E+02 0.0054 20.5 6.8 53 14-66 23-102 (121)
67 PF04456 DUF503: Protein of un 26.6 2.1E+02 0.0046 19.7 5.0 33 21-53 4-36 (90)
68 PRK14633 hypothetical protein; 26.5 2.8E+02 0.0061 20.8 6.4 44 7-51 20-63 (150)
69 PRK14645 hypothetical protein; 26.2 2.9E+02 0.0064 20.9 6.6 45 7-51 25-71 (154)
70 cd02412 30S_S3_KH K homology R 25.7 2.4E+02 0.0053 19.8 5.7 58 7-66 50-107 (109)
71 smart00796 AHS1 Allophanate hy 25.2 84 0.0018 24.7 3.1 53 12-68 2-62 (201)
72 PRK10931 adenosine-3'(2'),5'-b 25.1 1.2E+02 0.0026 24.0 4.0 58 34-111 2-59 (246)
73 PRK11589 gcvR glycine cleavage 25.0 2.3E+02 0.005 22.2 5.6 54 6-67 121-180 (190)
74 COG2098 Uncharacterized protei 24.9 1.2E+02 0.0025 22.5 3.6 34 32-66 34-67 (116)
75 PRK04191 rps3p 30S ribosomal p 24.5 2E+02 0.0044 22.8 5.2 61 7-69 29-89 (207)
76 PF00400 WD40: WD domain, G-be 24.0 81 0.0018 16.8 2.1 17 115-131 23-39 (39)
77 PF13740 ACT_6: ACT domain; PD 23.4 2.1E+02 0.0046 18.4 5.0 25 6-30 28-52 (76)
78 PF02120 Flg_hook: Flagellar h 23.3 2.2E+02 0.0047 18.4 5.5 55 6-62 24-78 (85)
79 PRK14630 hypothetical protein; 23.0 3.3E+02 0.0071 20.4 7.3 44 7-50 24-67 (143)
80 TIGR03406 FeS_long_SufT probab 22.9 3.7E+02 0.0079 20.9 7.4 55 8-66 100-159 (174)
81 PRK14646 hypothetical protein; 22.1 3.5E+02 0.0077 20.4 6.4 45 7-51 23-69 (155)
82 PRK14632 hypothetical protein; 21.8 3.8E+02 0.0082 20.7 6.2 44 7-51 24-67 (172)
83 PF11272 DUF3072: Protein of u 21.4 1.2E+02 0.0025 19.9 2.7 22 27-48 34-55 (57)
84 PF11964 SpoIIAA-like: SpoIIAA 20.9 1.7E+02 0.0038 19.4 3.7 39 24-64 3-41 (109)
85 COG3518 Predicted component of 20.8 1.4E+02 0.0029 23.2 3.4 36 33-68 82-117 (157)
86 cd00643 HMG-CoA_reductase_clas 20.1 6.1E+02 0.013 22.5 7.7 48 7-54 166-213 (403)
87 KOG2802 Membrane protein HUEL 20.0 1E+02 0.0022 27.8 2.8 56 6-61 408-501 (503)
No 1
>COG0053 MMT1 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]
Probab=99.54 E-value=3e-14 Score=118.44 Aligned_cols=70 Identities=37% Similarity=0.643 Sum_probs=66.3
Q ss_pred CCCceeeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCCCCCCC
Q 032755 2 SLSLQGCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYFQFSP 71 (134)
Q Consensus 2 vpgV~~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~~~~~~ 71 (134)
+|||.++|++|+|+.|+.+++|+|++|||+||+.+||+|++++|++|++.+|++.+++||+||.......
T Consensus 227 ~~~V~~v~~lr~R~~G~~~~id~~i~v~~~ls~~eah~I~~~ie~~i~~~~~~~~~v~IhveP~~~~~~~ 296 (304)
T COG0053 227 VPGVKGVHDLRTRKSGSRIFIDVHIEVDPDLSLEEAHEIADEVEKRIKKEFPKVADVTIHVEPLGEKEEE 296 (304)
T ss_pred CCcceeeecceeeeeCCeEEEEEEEEECCCCChHHHHHHHHHHHHHHHHhcCCCceEEEEecCCcccccc
Confidence 6899999999999999999999999999999999999999999999999999889999999999876543
No 2
>TIGR01297 CDF cation diffusion facilitator family transporter. This model describes a broadly distributed family of transporters, a number of which have been shown to transport divalent cations of cobalt, cadmium and/or zinc. The family has six predicted transmembrane domains. Members of the family are variable in length because of variably sized inserts, often containing low-complexity sequence.
Probab=99.47 E-value=2.2e-13 Score=108.41 Aligned_cols=64 Identities=36% Similarity=0.648 Sum_probs=61.8
Q ss_pred CCCceeeeeEEEEeeCC-EEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEecC
Q 032755 2 SLSLQGCHRLRGRRAGS-SLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPA 65 (134)
Q Consensus 2 vpgV~~VhdLR~R~~G~-~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~ 65 (134)
+|||.++|++|+|+.|+ .+++++|+++|+++|+.|||++++++|+++++++|++.+++||+||+
T Consensus 204 ~~~v~~v~~~~~~~~G~~~~~v~~~v~v~~~~~~~~ah~i~~~i~~~i~~~~~~v~~v~ih~ep~ 268 (268)
T TIGR01297 204 IPGVKGVHDLHIWRIGPGKLFLDVHVVVDPDLDLKQAHDIALEIEREILKRHPGIEHVTIQVEPC 268 (268)
T ss_pred CCCcccceEeEEEEcCCCCEEEEEEEEECCCCChhHHHHHHHHHHHHHHHhcCCCCeEEEEeCCC
Confidence 58999999999999999 99999999999999999999999999999999999999999999994
No 3
>PRK09509 fieF ferrous iron efflux protein F; Reviewed
Probab=99.43 E-value=6.5e-13 Score=109.01 Aligned_cols=65 Identities=26% Similarity=0.528 Sum_probs=61.7
Q ss_pred CCCceeeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCCC
Q 032755 2 SLSLQGCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYF 67 (134)
Q Consensus 2 vpgV~~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~~ 67 (134)
+|||.++|++|+|+.|+..++++||.+++++|++|+|+|++++|++|++++|. .+++||+||+..
T Consensus 225 ~~~v~~v~~l~~~~~G~~~~v~v~i~v~~~~~~~e~h~i~~~ie~~l~~~~~~-~~v~ihveP~~~ 289 (299)
T PRK09509 225 WPGVSGAHDLRTRQSGPTRFIQLHLEMEDNLPLVQAHMIADQVEQALLRRFPG-SDVIIHQDPCSV 289 (299)
T ss_pred CCCCcCceeeeeEeeCCeEEEEEEEEECCCCCHHHHHHHHHHHHHHHHHhCCC-CEEEEEeCCCCC
Confidence 58999999999999999999999999999999999999999999999999997 579999999763
No 4
>PF01545 Cation_efflux: Cation efflux family; InterPro: IPR002524 Members of this family are integral membrane proteins, that are found to increase tolerance to divalent metal ions such as cadmium, zinc, and cobalt. These proteins are considered to be efflux pumps that remove these ions from cells [, ], however others are implicated in ion uptake []. The family has six predicted transmembrane domains. Members of the family are variable in length because of variably sized inserts, often containing low-complexity sequence.; GO: 0008324 cation transmembrane transporter activity, 0006812 cation transport, 0055085 transmembrane transport, 0016021 integral to membrane; PDB: 3BYP_B 3BYR_A 3H90_B 2QFI_B 2ZZT_A.
Probab=99.29 E-value=2.1e-11 Score=97.50 Aligned_cols=66 Identities=29% Similarity=0.489 Sum_probs=62.7
Q ss_pred CCCceeeeeEEEEeeCC-EEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCCC
Q 032755 2 SLSLQGCHRLRGRRAGS-SLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYF 67 (134)
Q Consensus 2 vpgV~~VhdLR~R~~G~-~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~~ 67 (134)
.|||.+++++|+|+.|+ .+++++|+.+++++|++|+|++.+++++.+++++|++.+++||++|+..
T Consensus 217 ~~~v~~v~~~~~~~~g~~~~~v~i~v~v~~~~~v~~~~~i~~~i~~~l~~~~~~i~~v~I~~~p~~~ 283 (284)
T PF01545_consen 217 VPGVIEVHDLRVWQVGRNKYVVEIHVQVDPDMSVEEAHEIRERIEKRLREKFPGIYDVTIHIEPDEE 283 (284)
T ss_dssp TSS-SEEEEEEEEEETT-EEEEEEEEEETTTSBHHHHHHHHHHHHHHHHHHSTTCEEEEEEEEECGG
T ss_pred CCceEeccceEEEEecCCcEEEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCCCcEEEEEEEEecCC
Confidence 58999999999999999 9999999999999999999999999999999999999999999999863
No 5
>PRK03557 zinc transporter ZitB; Provisional
Probab=99.20 E-value=9.6e-11 Score=97.17 Aligned_cols=62 Identities=10% Similarity=0.158 Sum_probs=57.4
Q ss_pred CCCceeeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCCC
Q 032755 2 SLSLQGCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYF 67 (134)
Q Consensus 2 vpgV~~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~~ 67 (134)
+|||.++|++|+|+.|+.+++|+|+.+++++ ++|+|++++|++|+++++ +.+++||+||...
T Consensus 233 ~~gV~~vh~l~~~~~G~~~~v~~hv~v~~~~---~~~~i~~~i~~~l~~~~~-i~~vtIh~e~~~~ 294 (312)
T PRK03557 233 IPEVRNVHHVHVWMVGEKPVMTLHVQVIPPH---DHDALLDRIQDYLMHHYQ-IEHATIQMEYQPC 294 (312)
T ss_pred CCCceeEEEEEEEEeCCeEEEEEEEEECCCC---CHHHHHHHHHHHHHHhCC-CCEEEEEeccCcC
Confidence 6999999999999999999999999999986 679999999999999887 7899999999853
No 6
>KOG1485 consensus Mitochondrial Fe2+ transporter MMT1 and related transporters (cation diffusion facilitator superfamily) [Inorganic ion transport and metabolism]
Probab=98.01 E-value=1.5e-05 Score=69.43 Aligned_cols=64 Identities=34% Similarity=0.591 Sum_probs=59.1
Q ss_pred CCceeeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCCC
Q 032755 3 LSLQGCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYF 67 (134)
Q Consensus 3 pgV~~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~~ 67 (134)
+.+.+++.+|++..|..+++++|+++|++|++..||+|.+-+++.|.. .|++.++.||+|-...
T Consensus 339 ~~i~~idtv~~y~~g~~~~Vev~ivl~~~~~l~~ah~i~E~lq~~ie~-l~ever~fvh~d~e~~ 402 (412)
T KOG1485|consen 339 KLIKHIDTVRAYTFGSHYFVEVHIVLDEDLSLSVAHDIGETLQKKIEL-LPEVERAFVHIDYEFL 402 (412)
T ss_pred CccccceeeeeecccceEEEEEeeecCCCCccHHHHHHHHHHHHHHhh-cchheeeeeecCcccc
Confidence 467899999999999999999999999999999999999999999965 9999999999886654
No 7
>COG1230 CzcD Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]
Probab=97.33 E-value=0.00078 Score=56.66 Aligned_cols=61 Identities=18% Similarity=0.268 Sum_probs=51.5
Q ss_pred CCCceeeeeEEEEee-CCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCC
Q 032755 2 SLSLQGCHRLRGRRA-GSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAY 66 (134)
Q Consensus 2 vpgV~~VhdLR~R~~-G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~ 66 (134)
.|||.++|++++|.. +....+.+|+.+++..+-.+ +.+++++.+.+++. +.++||++|+..
T Consensus 234 ~~~v~~vhdlHvWsi~~~~~~~t~Hv~v~~~~~~~~---~~~~~~~~l~~~~~-I~hvTiQ~e~~~ 295 (296)
T COG1230 234 IPGVASVHDLHVWSITGGEHALTLHVVVDEVADADA---ALDQIVRRLLEKYG-IEHVTIQLETEG 295 (296)
T ss_pred CCCccceeecccCCCCCCceeEEEEEEecCccchHH---HHHHHHHHHhhhcC-cceEEEEecCCC
Confidence 699999999999999 55899999999995433333 88899999988877 899999998754
No 8
>KOG1482 consensus Zn2+ transporter [Inorganic ion transport and metabolism]
Probab=97.13 E-value=0.002 Score=55.81 Aligned_cols=64 Identities=23% Similarity=0.288 Sum_probs=56.9
Q ss_pred CCCceeeeeEEEEeeCC-EEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCCCCC
Q 032755 2 SLSLQGCHRLRGRRAGS-SLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYFQF 69 (134)
Q Consensus 2 vpgV~~VhdLR~R~~G~-~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~~~~ 69 (134)
++||..||+|++|...- +..+.+|+.++++ +++.+|-+++.+.|+++|. +.++||++||.....
T Consensus 306 iegV~~VHdLhIWsiTv~k~~ls~Hv~i~~~---ad~~~vL~~~~~~i~~~~~-~~~vTiQie~~~~~~ 370 (379)
T KOG1482|consen 306 IEGVKAVHDLHIWSITVGKVALSVHLAIDSE---ADAEEVLDEARSLIKRRYG-ISHVTIQIEPYTEEM 370 (379)
T ss_pred hcceeEEEEEEEEEEecCceEEEEEEeecCC---CCHHHHHHHHHHHHHhhcc-eEEEEEEecCCccch
Confidence 58999999999999865 6889999999965 6788999999999999998 689999999998654
No 9
>KOG1483 consensus Zn2+ transporter ZNT1 and related Cd2+/Zn2+ transporters (cation diffusion facilitator superfamily) [Inorganic ion transport and metabolism]
Probab=95.76 E-value=0.032 Score=48.85 Aligned_cols=60 Identities=18% Similarity=0.233 Sum_probs=48.3
Q ss_pred CCCceeeeeEEEEee-CCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCC
Q 032755 2 SLSLQGCHRLRGRRA-GSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAY 66 (134)
Q Consensus 2 vpgV~~VhdLR~R~~-G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~ 66 (134)
+|||..||++++|+. |+.+.+.+||.++.- .+--++++.|++... .++ |..+||+.|=++
T Consensus 311 ~~gv~~vh~lhvWqL~~~r~IAt~Hi~~~~p---~~~~~~a~~ir~~fh-~~G-Ihs~TiqPeF~~ 371 (404)
T KOG1483|consen 311 VPGVISVHDLHVWQLAGSRIIATIHIQIQNP---KEYMKIAEKIRSYFH-DQG-IHSTTIQPEFAP 371 (404)
T ss_pred CcceeeeeeeeeeeeccceEEEEEEEEecCc---HHHHHHHHHHHHHHH-hcC-Ccceeeccchhh
Confidence 699999999999997 999999999999864 233389999988886 456 788888755444
No 10
>PF14535 AMP-binding_C_2: AMP-binding enzyme C-terminal domain; PDB: 2Y27_A 2Y4N_A 3QOV_B 3S89_D 3LAX_A 2Y4O_B.
Probab=94.62 E-value=0.82 Score=31.57 Aligned_cols=65 Identities=14% Similarity=0.089 Sum_probs=53.4
Q ss_pred CCCCceeeeeEEEEeeCCEEEEEEEEEECCCCC--HHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCCC
Q 032755 1 MSLSLQGCHRLRGRRAGSSLYLDVHIVVDPFSS--VSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYF 67 (134)
Q Consensus 1 ~vpgV~~VhdLR~R~~G~~~~VDvhI~Vd~~mS--V~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~~ 67 (134)
++|++..-..|.+.+.|..=.+.+.+++.+..+ ..+..+++++|+++|+..++ + .+.|++-|...
T Consensus 15 ~~~~~~~~y~i~v~~~~~~D~l~v~vE~~~~~~~~~~~~~~l~~~i~~~lk~~lg-v-~~~V~lv~~gt 81 (96)
T PF14535_consen 15 EFPEVSPEYQIVVTREGGLDELTVRVELRPGFSDDAEDLEALAERIAERLKERLG-V-RPEVELVPPGT 81 (96)
T ss_dssp TSTTEEEEEEEEEEEETTEEEEEEEEEESTTCCTTHHHHHHHHHHHHHHHHHHHS-S--EEEEEE-TT-
T ss_pred hCcCCCCcEEEEEEcCCCCcEEEEEEEECCccCcchHHHHHHHHHHHHHHHhhcC-c-eEEEEEECCCC
Confidence 368888888999999999999999999999874 57899999999999999988 3 56777777653
No 11
>PF03780 Asp23: Asp23 family; InterPro: IPR005531 This entry represents the alkaline shock protein 23 family. These small proteins are involved in alkaline pH tolerance of Staphylococcus aureus [,].
Probab=88.66 E-value=5.9 Score=27.26 Aligned_cols=53 Identities=25% Similarity=0.424 Sum_probs=37.3
Q ss_pred EEEEee-CCEEEEEEEEEECCCCCHHH-HHHHHHHHHHHHHhhCC-CeeEEEEEEe
Q 032755 11 LRGRRA-GSSLYLDVHIVVDPFSSVSA-AHGVGENVRHQIHKSHP-EVSEVFIHID 63 (134)
Q Consensus 11 LR~R~~-G~~~~VDvhI~Vd~~mSV~e-AH~I~~~IE~~I~~~~p-~V~~VtIHve 63 (134)
++++.. +..+.+++++.+....++.+ +.++.++|.+.|.+.-+ .+.+|.|+++
T Consensus 50 v~v~~~~~~~i~v~l~v~v~~g~~i~~v~~~iq~~V~~~v~~~tg~~v~~V~V~V~ 105 (108)
T PF03780_consen 50 VKVEVDEDGGITVDLHVVVEYGVNIPEVAEEIQEKVKEAVEEMTGIEVSEVNVHVE 105 (108)
T ss_pred eEEEEccCcceEEEEEEEEECCccHHHHHHHHHHHHHHHHHHHHCCeeEEEEEEEE
Confidence 567666 88999999999999988865 45566666666655333 2356667664
No 12
>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=82.44 E-value=6.3 Score=29.67 Aligned_cols=59 Identities=14% Similarity=0.278 Sum_probs=47.5
Q ss_pred CceeeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCC
Q 032755 4 SLQGCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAY 66 (134)
Q Consensus 4 gV~~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~ 66 (134)
.+.+|.+..+--+|...+|-+.+. .. -....+|..+|++++++.+|.+..|.|..+|.-
T Consensus 86 ~~~~V~~A~vvv~~~~a~Vav~~~-~~---~~~~~~i~~~V~~~v~~~~p~~~~V~Vs~D~~~ 144 (177)
T PF09580_consen 86 KVPGVEDATVVVTDDNAYVAVDLD-FN---RFNTKKIKKKVEKAVKSADPRIYNVYVSTDPDI 144 (177)
T ss_pred cCCCceEEEEEEECCEEEEEEEec-cc---ccchhHHHHHHHHHHHHhCCCccEEEEEcCHHH
Confidence 455677778888899999888887 32 346678999999999999999889999887763
No 13
>TIGR02898 spore_YhcN_YlaJ sporulation lipoprotein, YhcN/YlaJ family. YhcN and YlaJ 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 that is not included in the seed alignment for this model. A portion of the low-complexity region between the lipoprotein signal sequence and the main conserved region of the protein family was also excised from the seed alignment.
Probab=75.00 E-value=17 Score=27.94 Aligned_cols=61 Identities=16% Similarity=0.268 Sum_probs=49.0
Q ss_pred CceeeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCC
Q 032755 4 SLQGCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAY 66 (134)
Q Consensus 4 gV~~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~ 66 (134)
.+-+|.+-++--+|...+|=+ .++.+..-..+.+|..+|++++++..|.+.+|.|..+|.-
T Consensus 65 ~v~~V~dA~vvVtg~~A~Vgv--~~~~~~~~~~~~~iK~~Va~~Vk~~dp~~~~VyVsaDpd~ 125 (158)
T TIGR02898 65 KVKGVKDATVVITGNYAYVGV--DLTNGLEGSVTDELKEKVAETVKSTDNRIANVYVSADPDT 125 (158)
T ss_pred cCCCCceEEEEEECCEEEEEE--EcCCCcchhhHHHHHHHHHHHHHhhCCCcceEEEEcCHHH
Confidence 455677778888899887765 4555555677899999999999988999999999988864
No 14
>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=67.15 E-value=22 Score=34.05 Aligned_cols=43 Identities=19% Similarity=0.255 Sum_probs=36.7
Q ss_pred EEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEe
Q 032755 20 LYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHID 63 (134)
Q Consensus 20 ~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHve 63 (134)
-.+.+++++|++.++++..++++++|+.|+ +.|++.++...+-
T Consensus 559 ~~~~v~v~lp~Gtsle~t~~~~~~ve~~L~-~~p~V~~v~s~vG 601 (1021)
T PF00873_consen 559 GEFYVSVELPPGTSLEETDAIVKQVEDILK-EDPEVKSVSSRVG 601 (1021)
T ss_dssp SEEEEEEEESTTC-HHHHHHHHHHHHHHHH-TTTTEEEEEEEES
T ss_pred CceEEEEeeccCchHHHHHHHHHHHHHHHH-hhhhhhccceEec
Confidence 357889999999999999999999999997 6899988876653
No 15
>PRK10597 DNA damage-inducible protein I; Provisional
Probab=61.16 E-value=32 Score=23.85 Aligned_cols=70 Identities=17% Similarity=0.237 Sum_probs=42.1
Q ss_pred EEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCee-EEEEEEecCCCCCCCCccccCCCCCcccCCCCCCCCccchhHHH
Q 032755 22 LDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVS-EVFIHIDPAYFQFSPSTMDQLGLEGCKAHSSNICVDDLDIDAVV 100 (134)
Q Consensus 22 VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~-~VtIHveP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 100 (134)
|++.+.=...++-.....|..++.++|...||+.. +|.| -|... ..+.+.|... . +-+.|+.|+
T Consensus 3 VEi~~dK~~~lp~ga~~AL~~EL~kRl~~~fPd~~~~v~V--r~~s~-------n~lsv~g~~k----~--dK~~i~eiL 67 (81)
T PRK10597 3 IEVTIAKTSPLPAGAIDALAGELSRRIQYAFPDNEGHVSV--RYAAA-------NNLSVIGATK----E--DKDRISEIL 67 (81)
T ss_pred EEEEEecCCCCChhHHHHHHHHHHHHHHhhCCCCCccEEE--eecCC-------CceEecCCCc----c--hHHHHHHHH
Confidence 34433334567777888899999999999999842 3554 34332 2233323211 0 344577777
Q ss_pred HHhhhc
Q 032755 101 YNTLST 106 (134)
Q Consensus 101 ~~~~~~ 106 (134)
.++.-|
T Consensus 68 qE~we~ 73 (81)
T PRK10597 68 QETWES 73 (81)
T ss_pred HHHHhC
Confidence 777654
No 16
>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=58.19 E-value=28 Score=22.26 Aligned_cols=39 Identities=23% Similarity=0.430 Sum_probs=25.7
Q ss_pred CCEEEEEEEEEEC-CCCCHHHHHHHHHHHHHHHHhhCCCeeEEEE
Q 032755 17 GSSLYLDVHIVVD-PFSSVSAAHGVGENVRHQIHKSHPEVSEVFI 60 (134)
Q Consensus 17 G~~~~VDvhI~Vd-~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtI 60 (134)
|..+.++ +.++ +. -.....+.++++++|+ .+|++..|.|
T Consensus 33 ~~~V~v~--l~l~~~~--~~~~~~l~~~i~~~l~-~l~gv~~V~V 72 (72)
T PF01883_consen 33 GGKVSVS--LELPTPA--CPAAEPLREEIREALK-ALPGVKSVKV 72 (72)
T ss_dssp TCEEEEE--E--SSTT--HTTHHHHHHHHHHHHH-TSTT-SEEEE
T ss_pred CCEEEEE--EEECCCC--chHHHHHHHHHHHHHH-hCCCCceEeC
Confidence 4555554 4444 33 3377889999999998 7888887765
No 17
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=58.10 E-value=42 Score=20.66 Aligned_cols=44 Identities=16% Similarity=0.018 Sum_probs=34.2
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHhhCC-CeeEEEEEEecCCC
Q 032755 24 VHIVVDPFSSVSAAHGVGENVRHQIHKSHP-EVSEVFIHIDPAYF 67 (134)
Q Consensus 24 vhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p-~V~~VtIHveP~~~ 67 (134)
++|.+.+..|.++-.++++.|-+.+.+.++ .-.++.|-++....
T Consensus 4 i~I~~~~grs~eqk~~l~~~it~~l~~~~~~p~~~v~V~i~e~~~ 48 (62)
T PRK00745 4 FHIELFEGRTVEQKRKLVEEITRVTVETLGCPPESVDIIITDVKR 48 (62)
T ss_pred EEEEEcCCCCHHHHHHHHHHHHHHHHHHcCCChhHEEEEEEEcCh
Confidence 466767778999999999999999988877 33577777766543
No 18
>COG3965 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]
Probab=56.02 E-value=13 Score=31.60 Aligned_cols=50 Identities=10% Similarity=0.215 Sum_probs=33.2
Q ss_pred EEEeeCCEEEEEEEEEECCCCCHH---HHHHHHHHHHHHHHhhCCCeeEEEEEE
Q 032755 12 RGRRAGSSLYLDVHIVVDPFSSVS---AAHGVGENVRHQIHKSHPEVSEVFIHI 62 (134)
Q Consensus 12 R~R~~G~~~~VDvhI~Vd~~mSV~---eAH~I~~~IE~~I~~~~p~V~~VtIHv 62 (134)
++-+.|+.+++|+|..+|+++.-+ +-++|.+++.+.|... |.-.-+||.+
T Consensus 254 yvArVGr~l~IEi~fiip~~~~ar~Ved~d~Irdei~~slg~~-g~~rwltvsf 306 (314)
T COG3965 254 YVARVGRGLFIEIHFIIPRESDARNVEDWDDIRDEIGQSLGSL-GYERWLTVSF 306 (314)
T ss_pred HHHHhccceEEEEEEEeCCccCCccchhHHHHHHHHHHHhhcC-CcCceEEEEE
Confidence 455779999999999999887654 5555666666666543 3223455543
No 19
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=52.29 E-value=56 Score=20.38 Aligned_cols=43 Identities=12% Similarity=0.101 Sum_probs=35.0
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHhhCCC-eeEEEEEEecCC
Q 032755 24 VHIVVDPFSSVSAAHGVGENVRHQIHKSHPE-VSEVFIHIDPAY 66 (134)
Q Consensus 24 vhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~-V~~VtIHveP~~ 66 (134)
++|.+.++.|-++-.++++.|-+.+.+.++. ...++|-++..+
T Consensus 4 i~i~~~~Grs~EqK~~L~~~it~a~~~~~~~p~~~v~V~i~ev~ 47 (60)
T PRK02289 4 VRIDLFEGRSQEQKNALAREVTEVVSRIAKAPKEAIHVFINDMP 47 (60)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHHHhCcCcceEEEEEEEeC
Confidence 5788888899999999999999999998875 356777666554
No 20
>TIGR02610 PHA_gran_rgn putative polyhydroxyalkanoic acid system protein. All members of this family are encoded by genes polyhydroxyalkanoic acid (PHA) biosynthesis and utilization genes, including proteins at found at the surface of PHA granules. Examples so far are found in the Pseudomonales, Xanthomonadales, and Vibrionales, all of which belong to the Gammaproteobacteria.
Probab=52.22 E-value=34 Score=23.94 Aligned_cols=32 Identities=13% Similarity=0.124 Sum_probs=29.6
Q ss_pred EEEEEEECCCCCHHHHHHHHHHHHHHHHhhCC
Q 032755 22 LDVHIVVDPFSSVSAAHGVGENVRHQIHKSHP 53 (134)
Q Consensus 22 VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p 53 (134)
.+++|..+-.+..++|.+.++.+.+.+.++|.
T Consensus 2 ~~I~I~r~H~Lg~~eAr~~~e~~a~~l~~~~~ 33 (91)
T TIGR02610 2 SSISVERDHSLGPAAARAKAEDLARKLTDRYG 33 (91)
T ss_pred CceEEEecCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 36899999999999999999999999998886
No 21
>PF06183 DinI: DinI-like family; InterPro: IPR010391 This family of short proteins includes DNA-damage-inducible protein I (DinI) and related proteins. The SOS response, a set of cellular phenomena exhibited by eubacteria, is initiated by various causes that include DNA damage-induced replication arrest, and is positively regulated by the co- protease activity of RecA. Escherichia coli DinI, a LexA-regulated SOS gene product, shuts off the initiation of the SOS response when overexpressed in vivo. Biochemical and genetic studies indicated that DinI physically interacts with RecA to inhibit its co-protease activity []. The structure of DinI is known [].; PDB: 1GHH_A.
Probab=51.67 E-value=24 Score=23.29 Aligned_cols=25 Identities=20% Similarity=0.485 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHhhCCCeeEEEEE
Q 032755 36 AAHGVGENVRHQIHKSHPEVSEVFIH 61 (134)
Q Consensus 36 eAH~I~~~IE~~I~~~~p~V~~VtIH 61 (134)
...+|..++.++|.+.||+ ..|.|.
T Consensus 5 a~~AL~~EL~kRl~~~yPd-~~v~Vr 29 (65)
T PF06183_consen 5 ALEALESELTKRLHRQYPD-AEVRVR 29 (65)
T ss_dssp HHHHHHHHHHHHHHHH-SS--EEEEE
T ss_pred HHHHHHHHHHHHHHHHCCC-ceEeee
Confidence 4567899999999999998 556654
No 22
>PF01076 Mob_Pre: Plasmid recombination enzyme; InterPro: IPR001668 With some plasmids, recombination can occur in a site specific manner that is independent of RecA. In such cases, the recombination event requires another protein called Pre. Pre is a plasmid recombination enzyme. This protein is also known as Mob (conjugative mobilisation) [].; GO: 0003677 DNA binding, 0006310 DNA recombination, 0005727 extrachromosomal circular DNA
Probab=49.37 E-value=69 Score=24.85 Aligned_cols=51 Identities=14% Similarity=0.180 Sum_probs=41.0
Q ss_pred eeCCEEEEEEEEEECC----CCCHHHHHHHHHHHHHHHHhhCC--CeeEEEEEEecC
Q 032755 15 RAGSSLYLDVHIVVDP----FSSVSAAHGVGENVRHQIHKSHP--EVSEVFIHIDPA 65 (134)
Q Consensus 15 ~~G~~~~VDvhI~Vd~----~mSV~eAH~I~~~IE~~I~~~~p--~V~~VtIHveP~ 65 (134)
+....+.+++-|..++ +++-++..+..+..-+-+.+.+| +|..+.||.|-.
T Consensus 74 Rkdav~~~e~iit~~~e~~~~~~~e~~~~~~~~~~~~~~~r~g~~ni~~a~vH~DE~ 130 (196)
T PF01076_consen 74 RKDAVLAIEFIITASPEFFNDLDPEQQKRWFEDSLEWLQERYGNENIVSAVVHLDET 130 (196)
T ss_pred cccceeEEEEEEeCChHHhcchhhHHHHHHHHHHHHHHHHHCCchhEEEEEEECCCC
Confidence 3445688899999887 56788888888888889999999 667788898755
No 23
>TIGR03221 muco_delta muconolactone delta-isomerase. Members of this protein family are muconolactone delta-isomerase (EC 5.3.3.4), the CatC protein of the ortho cleavage pathway for metabolizing aromatic compounds by way of catechol.
Probab=48.17 E-value=58 Score=23.07 Aligned_cols=24 Identities=4% Similarity=0.034 Sum_probs=21.9
Q ss_pred EEEEEEEEECCCCCHHHHHHHHHH
Q 032755 20 LYLDVHIVVDPFSSVSAAHGVGEN 43 (134)
Q Consensus 20 ~~VDvhI~Vd~~mSV~eAH~I~~~ 43 (134)
+.|++++.+|++|+.+++.+|..+
T Consensus 2 flV~m~V~~P~~~~~~~~~~i~a~ 25 (90)
T TIGR03221 2 FHVRMDVNLPVDMPAEKAAAIKAR 25 (90)
T ss_pred eEEEEEeeCCCCCCHHHHHHHHHH
Confidence 578999999999999999999765
No 24
>PRK14637 hypothetical protein; Provisional
Probab=47.58 E-value=88 Score=23.73 Aligned_cols=44 Identities=9% Similarity=-0.061 Sum_probs=37.8
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~ 50 (134)
.+-++...+.|....+.+.|.-+..+|+.+..++++.|...|-.
T Consensus 24 eLvdve~~~~~~~~~lrV~ID~~~gV~iddC~~vSr~Is~~LD~ 67 (151)
T PRK14637 24 KLVDLSRRVQQAQGRVRAVIYSAGGVGLDDCARVHRILVPRLEA 67 (151)
T ss_pred EEEEEEEEecCCCcEEEEEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence 46788888888888888888878889999999999999988854
No 25
>PF00408 PGM_PMM_IV: Phosphoglucomutase/phosphomannomutase, C-terminal domain; InterPro: IPR005843 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents the C-terminal domain alpha-D-phosphohexomutase enzymes.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 1KFQ_B 1KFI_A 3PDK_B 2F7L_A 1TUO_A 2FKM_X 3C04_A 1K2Y_X 1P5G_X 2H4L_X ....
Probab=46.79 E-value=77 Score=20.40 Aligned_cols=35 Identities=14% Similarity=0.194 Sum_probs=28.5
Q ss_pred EEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHH
Q 032755 12 RGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIH 49 (134)
Q Consensus 12 R~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~ 49 (134)
.+|.+|..-.+-+.++.+ +..+++++.+++.+.|+
T Consensus 39 ~vR~SgTEP~iRv~~Ea~---~~~~~~~~~~~i~~~ik 73 (73)
T PF00408_consen 39 LVRPSGTEPKIRVYVEAP---DEEELEEIAEEIAEAIK 73 (73)
T ss_dssp EEEEESSSSEEEEEEEES---SHHHHHHHHHHHHHHHH
T ss_pred EEECCCCCceEEEEEEeC---CHHHHHHHHHHHHHhhC
Confidence 378899877777777766 78999999999988874
No 26
>TIGR00668 apaH bis(5'-nucleosyl)-tetraphosphatase (symmetrical). Alternate names include diadenosine-tetraphosphatase and Ap4A hydrolase.
Probab=46.11 E-value=27 Score=29.27 Aligned_cols=30 Identities=13% Similarity=0.204 Sum_probs=27.1
Q ss_pred EEEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032755 21 YLDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (134)
Q Consensus 21 ~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~ 50 (134)
++=+|-.++|.+++.+|...+.+||..|+.
T Consensus 116 ~~lVHAGi~P~w~l~~a~~~a~eve~~L~~ 145 (279)
T TIGR00668 116 LVMAHAGITPQWDLQTAKECARDVEAVLSS 145 (279)
T ss_pred EEEEecCCCCCCcHHHHHHHHHHHHHHHcC
Confidence 345699999999999999999999999974
No 27
>PF09650 PHA_gran_rgn: Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); InterPro: IPR013433 Proteins in this entry are encoded by genes involved in either polyhydroxyalkanoic acid (PHA) biosynthesis or utilisation, including proteins at found at the surface of PHA granules. These proteins have so far been predominantly found in the Pseudomonadales, Xanthomonadales, and Vibrionales, all of which belong to the Gammaproteobacteria.
Probab=44.69 E-value=47 Score=22.88 Aligned_cols=30 Identities=13% Similarity=0.100 Sum_probs=28.3
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHhhCC
Q 032755 24 VHIVVDPFSSVSAAHGVGENVRHQIHKSHP 53 (134)
Q Consensus 24 vhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p 53 (134)
++|..+-+++.++|.+.+++.-..+.++|+
T Consensus 1 I~I~r~H~Lg~~eAr~~~~~~~~~l~~~~~ 30 (87)
T PF09650_consen 1 IHIERPHSLGREEARRRAEELAEKLAEEYG 30 (87)
T ss_pred CeEEecCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 478999999999999999999999999998
No 28
>KOG1484 consensus Putative Zn2+ transporter MSC2 (cation diffusion facilitator superfamily) [Inorganic ion transport and metabolism]
Probab=44.34 E-value=94 Score=27.18 Aligned_cols=59 Identities=10% Similarity=0.113 Sum_probs=45.7
Q ss_pred CCCceeeeeEEEEeeCCE-EEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEecC
Q 032755 2 SLSLQGCHRLRGRRAGSS-LYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPA 65 (134)
Q Consensus 2 vpgV~~VhdLR~R~~G~~-~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~ 65 (134)
.+||.++.+-|-|+.+.. +...+|+.|..+. +.+.+...+-+.+.. .+ |.+++|+++-.
T Consensus 288 ~~gV~~v~~~hFWt~~~g~~vGtlhl~V~~da---de~~vl~~V~~~~~~-~g-V~~ltvQv~~~ 347 (354)
T KOG1484|consen 288 LDGVTSVQNPHFWTLESGSVVGTLHLQVSSDA---DEQSVLAHVTRKLED-AG-VKDLTVQVEKE 347 (354)
T ss_pred cccceeeccCceeeccCCceEEEEEEEEecCc---chhHHHHHHHHHHHh-cc-eeEEEEEEecc
Confidence 589999999999999885 8899999999984 445566666666643 34 78899986643
No 29
>cd02413 40S_S3_KH K homology RNA-binding (KH) domain of the eukaryotic 40S small ribosomal subunit protein S3. S3 is part of the head region of the 40S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=43.97 E-value=59 Score=22.06 Aligned_cols=58 Identities=7% Similarity=0.047 Sum_probs=36.6
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEE--ecCC
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHI--DPAY 66 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHv--eP~~ 66 (134)
++..+.+.+....+.+.++..-|+-+-=+.+..| +++.+.|++.+. +....|.+ ++..
T Consensus 19 gis~IeI~Rt~~~i~I~I~tarPg~vIG~~G~~i-~~L~~~L~k~~~-~~~~~i~v~~~~v~ 78 (81)
T cd02413 19 GYSGVEVRVTPTRTEIIIRATRTQNVLGEKGRRI-RELTSLVQKRFN-FPEGSVELYAEKVA 78 (81)
T ss_pred CeeeEEEEEcCCeEEEEEEeCCCceEECCCchhH-HHHHHHHHHHhC-CCCCeEEEEEEEcc
Confidence 5678888998889999999988876533333333 455555555543 34344444 6654
No 30
>PF12984 DUF3868: Domain of unknown function, B. Theta Gene description (DUF3868); InterPro: IPR024480 This domain of unknown function is found in a number of bacterial proteins. The function of the proteins is not known, but the Bacteroides thetaiotaomicron gene appears to be upregulated in the presence of host or other bacterial species compared to pure culture [, ].
Probab=43.59 E-value=66 Score=23.16 Aligned_cols=28 Identities=18% Similarity=0.205 Sum_probs=24.7
Q ss_pred CCceeeeeEEEEeeCCEEEEEEEEEECC
Q 032755 3 LSLQGCHRLRGRRAGSSLYLDVHIVVDP 30 (134)
Q Consensus 3 pgV~~VhdLR~R~~G~~~~VDvhI~Vd~ 30 (134)
.|-..|.+.++.+.|..++|++.+.+++
T Consensus 27 ~g~i~v~~~~~~~~gd~L~V~m~idl~~ 54 (115)
T PF12984_consen 27 TGQIKVTNVSVEKQGDSLHVDMDIDLSG 54 (115)
T ss_pred CCcEEEEeeEEEEECCEEEEEEEEEecc
Confidence 4667889999999999999999999965
No 31
>PRK14641 hypothetical protein; Provisional
Probab=42.82 E-value=1e+02 Score=23.97 Aligned_cols=44 Identities=9% Similarity=0.116 Sum_probs=37.2
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~ 50 (134)
.+.++.....|....+.+.|.-+..+|+.++.++++.|...|-.
T Consensus 25 eLvdve~~~~~~~~~lrV~ID~~~gv~lDdC~~vSr~Is~~LD~ 68 (173)
T PRK14641 25 YLVSMTVKGSGKGRKIEVLLDADTGIRIDQCAFFSRRIRERLEE 68 (173)
T ss_pred EEEEEEEEeCCCCcEEEEEEeCCCCCCHHHHHHHHHHHHHHhCc
Confidence 46788888888888888877777889999999999999998854
No 32
>PRK14647 hypothetical protein; Provisional
Probab=42.55 E-value=1.3e+02 Score=22.77 Aligned_cols=45 Identities=13% Similarity=0.155 Sum_probs=37.6
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhh
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKS 51 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~ 51 (134)
.+-++...+.|....+.+.|.=+...|+.+...+++.|...|-..
T Consensus 24 ~L~dv~~~~~~~~~~lrV~ID~~~gvslddC~~vSr~is~~LD~~ 68 (159)
T PRK14647 24 ELVELEYKREGREMVLRLFIDKEGGVNLDDCAEVSRELSEILDVE 68 (159)
T ss_pred EEEEEEEEecCCCeEEEEEEeCCCCCCHHHHHHHHHHHHHHHccc
Confidence 456788888888777888887788899999999999999999643
No 33
>PF02426 MIase: Muconolactone delta-isomerase; InterPro: IPR003464 This small enzyme forms a homodecameric complex, that catalyses the third step in the catabolism of catechol to succinate- and acetyl-coa in the beta-ketoadipate pathway (5.3.3.4 from EC). The protein has a ferredoxin-like fold according to SCOP.; GO: 0006725 cellular aromatic compound metabolic process
Probab=42.47 E-value=82 Score=22.14 Aligned_cols=28 Identities=7% Similarity=0.132 Sum_probs=23.3
Q ss_pred EEEEEEEEECCCCCHHHHHHHHHHHHHH
Q 032755 20 LYLDVHIVVDPFSSVSAAHGVGENVRHQ 47 (134)
Q Consensus 20 ~~VDvhI~Vd~~mSV~eAH~I~~~IE~~ 47 (134)
+.|.+++.+|++|+.+++.++..+=.+.
T Consensus 3 flv~m~v~~P~~~~~~~~~~~~a~E~~~ 30 (91)
T PF02426_consen 3 FLVRMTVNVPPDMPPEEVDRLKAREKAR 30 (91)
T ss_pred EEEEEEeeCCCCCCHHHHHHHHHHHHHH
Confidence 6799999999999999999997663333
No 34
>COG0483 SuhB Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]
Probab=42.37 E-value=49 Score=26.80 Aligned_cols=60 Identities=13% Similarity=0.149 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCCCCCCCCccccCCCCCcccCCCCCCCCccchhHHHHHhhhcCCCcee
Q 032755 34 VSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYFQFSPSTMDQLGLEGCKAHSSNICVDDLDIDAVVYNTLSTKFPEVF 112 (134)
Q Consensus 34 V~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 112 (134)
+..+.++++++.+.+...|.....+.+- -. +. +..+.|.-++.+|+++++.|.+.||+.-
T Consensus 5 ~~~~~~~a~~a~~~i~~~f~~~~~~~~~--~k---------------~~--~~d~VT~aD~~aE~~i~~~l~~~~P~~~ 64 (260)
T COG0483 5 LNIALRAARKAGALILPLFRELDAVEVE--VK---------------KS--DGDPVTEADKAAERIIRARLRAAFPDHG 64 (260)
T ss_pred HHHHHHHHHHHHHHHHHHhcccccceee--ec---------------CC--CCCcccHHHHHHHHHHHHHHHHHCCCCc
Confidence 4556668888888888887764322110 00 00 4668899999999999999999999854
No 35
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=42.32 E-value=80 Score=19.34 Aligned_cols=44 Identities=11% Similarity=0.149 Sum_probs=32.0
Q ss_pred EEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCC-eeEEEEEEecCC
Q 032755 22 LDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPE-VSEVFIHIDPAY 66 (134)
Q Consensus 22 VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~-V~~VtIHveP~~ 66 (134)
+.+++. .+..|.++-.++...|-+.+.+.++. -.+++|.++..+
T Consensus 3 i~i~i~-~~grt~eqK~~l~~~it~~l~~~lg~~~~~v~V~i~e~~ 47 (63)
T TIGR00013 3 VNIYIL-KEGRTDEQKRQLIEGVTEAMAETLGANLESIVVIIDEMP 47 (63)
T ss_pred EEEEEC-CCCCCHHHHHHHHHHHHHHHHHHhCCCcccEEEEEEEcC
Confidence 444444 36789999999999999999888732 256777776554
No 36
>PF02576 DUF150: Uncharacterised BCR, YhbC family COG0779; InterPro: IPR003728 The RimP protein facilitates maturation of the 30S ribsomal subunit, and is required for the efficient production of translationally competent ribosmomes [].; PDB: 1IB8_A.
Probab=41.01 E-value=89 Score=22.86 Aligned_cols=44 Identities=16% Similarity=0.112 Sum_probs=35.3
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~ 50 (134)
.+.++..+..|....+.+-|.=+..+|+.+..++++.|...|..
T Consensus 12 ~l~~v~~~~~~~~~~l~V~id~~~gv~lddc~~~sr~i~~~LD~ 55 (141)
T PF02576_consen 12 ELVDVEVVKEGGNRILRVFIDKDGGVSLDDCEKVSRAISALLDA 55 (141)
T ss_dssp EEEEEEEEEETTEEEEEEEEE-SS---HHHHHHHHHHHGGGTTT
T ss_pred EEEEEEEEECCCCEEEEEEEEeCCCCCHHHHHHHHHHHHHHHcc
Confidence 57788999999988888888779999999999999999998865
No 37
>PF03389 MobA_MobL: MobA/MobL family; InterPro: IPR005053 This entry represents a domain found at the N terminus of MobA in Escherichia coli, and MobL in Thiobacillus ferrooxidans (Acidithiobacillus ferrooxidans), as well as in conjugal transfer protein TraA. MobA and MobL are mobilisation proteins, which are essential for specific plasmid transfer.; GO: 0009291 unidirectional conjugation; PDB: 2NS6_A.
Probab=40.33 E-value=1.2e+02 Score=24.00 Aligned_cols=47 Identities=13% Similarity=0.077 Sum_probs=34.2
Q ss_pred CCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEe
Q 032755 17 GSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHID 63 (134)
Q Consensus 17 G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHve 63 (134)
...+.=++.|.+|.++|.++--+++...-+......+.+.++-||-+
T Consensus 64 na~~are~~iALP~EL~~eq~~~L~~~f~~~~~~~~G~~~d~aIH~d 110 (216)
T PF03389_consen 64 NARLAREFEIALPRELTLEQNIELVREFAQENFVDYGMAADVAIHDD 110 (216)
T ss_dssp TS--EEEEEEE--TTS-HHHHHHHHHHHHHHHHTTTT--EEEEEEEE
T ss_pred CCeEeeeeeeeCCccCCHHHHHHHHHHHHHHHhhccceEEEEEEecC
Confidence 44678899999999999999999999988886666777789999963
No 38
>PF12327 FtsZ_C: FtsZ family, C-terminal domain; InterPro: IPR024757 The FtsZ family of proteins are involved in polymer formation. FtsZ is the polymer-forming protein of bacterial cell division. It is part of a ring in the middle of the dividing cell that is required for constriction of cell membrane and cell envelope to yield two daughter cells. FtsZ is a GTPase, like tubulin []. FtsZ can polymerise into tubes, sheets, and rings in vitro and is ubiquitous in eubacteria and archaea []. This entry represents a domain of FtsZ. In most FtsZ proteins is found in the C terminus, except in some alphaproteobacteria proteins where there is an extension C-terminal domain TIGR03483 from TIGRFAMs.; PDB: 2RHO_B 2RHJ_A 2VXY_A 2RHL_B 2RHH_A 2VAM_A 1W5F_B 2R75_1 2R6R_1 1RQ7_A ....
Probab=39.77 E-value=45 Score=23.09 Aligned_cols=28 Identities=25% Similarity=0.211 Sum_probs=22.3
Q ss_pred EEEEEEECCCCCHHHHHHHHHHHHHHHH
Q 032755 22 LDVHIVVDPFSSVSAAHGVGENVRHQIH 49 (134)
Q Consensus 22 VDvhI~Vd~~mSV~eAH~I~~~IE~~I~ 49 (134)
+=++|.-.+++++.|..++.+.|.+.+.
T Consensus 39 vLvni~~~~d~~l~ev~~~~~~i~~~~~ 66 (95)
T PF12327_consen 39 VLVNITGGPDLSLSEVNEAMEIIREKAD 66 (95)
T ss_dssp EEEEEEE-TTS-HHHHHHHHHHHHHHSS
T ss_pred EEEEEEcCCCCCHHHHHHHHHHHHHHhh
Confidence 3467788899999999999999988885
No 39
>PRK14640 hypothetical protein; Provisional
Probab=39.69 E-value=1.4e+02 Score=22.55 Aligned_cols=45 Identities=22% Similarity=0.075 Sum_probs=37.1
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhh
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKS 51 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~ 51 (134)
.+-++...+.|....+.+.|.=+..+|+.++..++++|...|-..
T Consensus 22 el~dve~~~~~~~~~lrV~ID~~~gv~lddC~~vSr~is~~LD~~ 66 (152)
T PRK14640 22 ELWGIEFIRAGKHSTLRVYIDGENGVSVENCAEVSHQVGAIMDVE 66 (152)
T ss_pred EEEEEEEEecCCCcEEEEEEECCCCCCHHHHHHHHHHHHHHhccc
Confidence 467788888888777777777777899999999999999988543
No 40
>PRK00092 ribosome maturation protein RimP; Reviewed
Probab=38.97 E-value=1.4e+02 Score=22.24 Aligned_cols=44 Identities=9% Similarity=0.040 Sum_probs=37.7
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~ 50 (134)
.+-++.....|+...+.+.|.-+...|+.+...+++.|...|-.
T Consensus 23 ~l~dv~~~~~~~~~~l~V~Id~~~gv~iddc~~~Sr~is~~LD~ 66 (154)
T PRK00092 23 ELVDVEYVKEGRDSTLRIYIDKEGGIDLDDCEEVSRQISAVLDV 66 (154)
T ss_pred EEEEEEEEecCCCcEEEEEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence 47788888888888888888777889999999999999999954
No 41
>PRK14639 hypothetical protein; Provisional
Probab=38.87 E-value=1.5e+02 Score=22.13 Aligned_cols=47 Identities=9% Similarity=-0.044 Sum_probs=38.5
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCC
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHP 53 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p 53 (134)
.+-++.....|....+.+.|.=+..+|+.+..++++.|...|-..-|
T Consensus 13 eLvdve~~~~~~~~~lrV~Id~~~gv~iddC~~vSr~is~~LD~~d~ 59 (140)
T PRK14639 13 SFYDDELVSENGRKIYRVYITKEGGVNLDDCERLSELLSPIFDVEPP 59 (140)
T ss_pred EEEEEEEEecCCCcEEEEEEeCCCCCCHHHHHHHHHHHHHHhccccc
Confidence 45677778888888888888878889999999999999999964433
No 42
>PF13356 DUF4102: Domain of unknown function (DUF4102); PDB: 3JU0_A 3RMP_A 3JTZ_A 2KJ8_A.
Probab=38.45 E-value=1.2e+02 Score=20.21 Aligned_cols=29 Identities=14% Similarity=0.155 Sum_probs=23.8
Q ss_pred EEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032755 22 LDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (134)
Q Consensus 22 VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~ 50 (134)
..+.|.--|.||+.+|-+.+.++...|.+
T Consensus 48 ~~~~lG~~p~~sl~~AR~~a~~~~~~~~~ 76 (89)
T PF13356_consen 48 RRITLGRYPELSLAEAREKARELRALVRQ 76 (89)
T ss_dssp EEEEEEECTTS-HHHHHHHHHHHHHHHCT
T ss_pred EEeccCCCccCCHHHHHHHHHHHHHHHHc
Confidence 34677888999999999999999998864
No 43
>PRK14634 hypothetical protein; Provisional
Probab=38.30 E-value=1.4e+02 Score=22.59 Aligned_cols=44 Identities=11% Similarity=0.058 Sum_probs=37.3
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCC--CCHHHHHHHHHHHHHHHHh
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDPF--SSVSAAHGVGENVRHQIHK 50 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~~--mSV~eAH~I~~~IE~~I~~ 50 (134)
.+-++...+.|....+.+.|.-+.. .|+.+...+++.|...|-.
T Consensus 23 elvdve~~~~~~~~~lrV~ID~~~g~~v~lddC~~vSr~is~~LD~ 68 (155)
T PRK14634 23 ELCGIQVLTHLQPMTLQVQIRRSSGSDVSLDDCAGFSGPMGEALEA 68 (155)
T ss_pred EEEEEEEEeCCCCcEEEEEEECCCCCcccHHHHHHHHHHHHHHhcc
Confidence 4678888888888888888877777 9999999999999888854
No 44
>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=36.51 E-value=1.1e+02 Score=29.70 Aligned_cols=45 Identities=11% Similarity=0.045 Sum_probs=36.2
Q ss_pred EEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhC-CCeeEEEEEEe
Q 032755 19 SLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSH-PEVSEVFIHID 63 (134)
Q Consensus 19 ~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~-p~V~~VtIHve 63 (134)
.-.+.++++++++.++++..++..++|+.|++.- |++.++...+-
T Consensus 569 ~~~~~v~v~~p~gtsl~~t~~~~~~ve~~l~~~~~~~v~~~~~~~G 614 (1044)
T TIGR00915 569 QGVFMTIVQLPAGATAERTQKVLAQVEKYLLAKEKANVESVFTVNG 614 (1044)
T ss_pred CceEEEEEECCCCCCHHHHHHHHHHHHHHHHhcCCCCeeEEEEEec
Confidence 3456778899999999999999999999997643 67877765543
No 45
>cd02411 archeal_30S_S3_KH K homology RNA-binding domain (KH) of the archaeal 30S small ribosomal subunit S3 protein. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=35.38 E-value=1.1e+02 Score=20.47 Aligned_cols=56 Identities=5% Similarity=-0.035 Sum_probs=37.3
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEec
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDP 64 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP 64 (134)
++..+.+.+.+..+.+.+|..-| .+-+...-+-.+++++.|++.+. ..++.|.+.+
T Consensus 27 gIs~IeI~r~~~~i~V~I~t~~p-g~iIGk~G~~I~~l~~~l~k~~~-~~~v~I~v~e 82 (85)
T cd02411 27 GYGGMEILRTPLGTQITIYAERP-GMVIGRGGKNIRELTEILETKFG-LENPQIDVQE 82 (85)
T ss_pred cccEEEEEEcCCcEEEEEEECCC-CceECCCchhHHHHHHHHHHHhC-CCCceEEEEE
Confidence 56777888888889999999544 44444444444677777876664 3456666654
No 46
>cd04870 ACT_PSP_1 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). The ACT_PSP_1 CD includes the first of the two ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). PSPs belong to the L-2-haloacid dehalogenase-like protein superfamily. PSP is involved in serine metabolism; serine is synthesized from phosphoglycerate through sequential reactions catalyzed by 3-phosphoglycerate dehydrogenase (SerA), 3-phosphoserine aminotransferase (SerC), and SerB. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=35.22 E-value=1.2e+02 Score=19.35 Aligned_cols=30 Identities=7% Similarity=-0.018 Sum_probs=24.3
Q ss_pred eeeeeEEEEeeCCEEEEEEEEEECCCCCHH
Q 032755 6 QGCHRLRGRRAGSSLYLDVHIVVDPFSSVS 35 (134)
Q Consensus 6 ~~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~ 35 (134)
.++.+++.+..+..+.+.+.+.+|++.++.
T Consensus 25 ~nI~dl~~~~~~~~f~~~~~v~~p~~~~~~ 54 (75)
T cd04870 25 VRILDVGQAVIHGRLSLGILVQIPDSADSE 54 (75)
T ss_pred CCEEecccEEEcCeeEEEEEEEcCCCCCHH
Confidence 467888888888888889999999886653
No 47
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=35.03 E-value=1e+02 Score=18.40 Aligned_cols=43 Identities=14% Similarity=0.074 Sum_probs=32.2
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHhhCC-CeeEEEEEEecCC
Q 032755 24 VHIVVDPFSSVSAAHGVGENVRHQIHKSHP-EVSEVFIHIDPAY 66 (134)
Q Consensus 24 vhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p-~V~~VtIHveP~~ 66 (134)
++|.+-+..|.++-.++++.|-+.+.+.++ .-.+++|.++...
T Consensus 3 i~i~~~~grt~eqk~~l~~~i~~~l~~~~g~~~~~v~V~i~e~~ 46 (58)
T cd00491 3 VQIYILEGRTDEQKRELIERVTEAVSEILGAPEATIVVIIDEMP 46 (58)
T ss_pred EEEEEcCCCCHHHHHHHHHHHHHHHHHHhCcCcccEEEEEEEeC
Confidence 456666667899999999999999988762 1257777776654
No 48
>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=34.53 E-value=72 Score=26.09 Aligned_cols=31 Identities=23% Similarity=0.203 Sum_probs=27.6
Q ss_pred EEEEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032755 20 LYLDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (134)
Q Consensus 20 ~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~ 50 (134)
-++=+|-.++|.+++.+|...+.++|..|+.
T Consensus 113 ~~l~vHAGi~p~w~~~~~~~~a~eve~~l~~ 143 (257)
T cd07422 113 GILMVHAGIPPQWSIEQALKLAREVEAALRG 143 (257)
T ss_pred cEEEEccCCCCCCCHHHHHHHHHHHHHHhcC
Confidence 4566799999999999999999999999974
No 49
>PF00368 HMG-CoA_red: Hydroxymethylglutaryl-coenzyme A reductase; InterPro: IPR002202 Synonym(s): 3-hydroxy-3-methylglutaryl-coenzyme A reductase, HMG-CoA reductase. There are two distinct classes of hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase enzymes: class I consists of eukaryotic and most archaeal enzymes (1.1.1.34 from EC), while class II consists of prokaryotic enzymes (1.1.1.88 from EC) [, ]. Class I HMG-CoA reductases catalyse the NADP-dependent synthesis of mevalonate from 3-hydroxy-3-methylglutaryl-CoA (HMG-CoA). In vertebrates, membrane-bound HMG-CoA reductase is the rate-limiting enzyme in the biosynthesis of cholesterol and other isoprenoids. In plants, mevalonate is the precursor of all isoprenoid compounds []. The reduction of HMG-CoA to mevalonate is regulated by feedback inhibition by sterols and non-sterol metabolites derived from mevalonate, including cholesterol. In archaea, HMG-CoA reductase is a cytoplasmic enzyme involved in the biosynthesis of the isoprenoids side chains of lipids []. Class I HMG-CoA reductases consist of an N-terminal membrane domain (lacking in archaeal enzymes), and a C-terminal catalytic region. The catalytic region can be subdivided into three domains: an N-domain (N-terminal), a large L-domain, and a small S-domain (inserted within the L-domain). The L-domain binds the substrate, while the S-domain binds NADP. Class II HMG-CoA reductases catalyse the reverse reaction of class I enzymes, namely the NAD-dependent synthesis of HMG-CoA from mevalonate and CoA []. Some bacteria, such as Pseudomonas mevalonii, can use mevalonate as the sole carbon source. Class II enzymes lack a membrane domain. Their catalytic region is structurally related to that of class I enzymes, but it consists of only two domains: a large L-domain and a small S-domain (inserted within the L-domain). As with class I enzymes, the L-domain binds substrate, but the S-domain binds NAD (instead of NADP in class I).; GO: 0004420 hydroxymethylglutaryl-CoA reductase (NADPH) activity, 0050662 coenzyme binding, 0015936 coenzyme A metabolic process, 0055114 oxidation-reduction process; PDB: 2Q6B_C 2Q6C_D 1HWI_C 1HWJ_C 3CD5_B 2R4F_C 1HWL_B 1HWK_C 1DQA_B 3CCT_D ....
Probab=33.41 E-value=3.3e+02 Score=23.75 Aligned_cols=55 Identities=16% Similarity=0.101 Sum_probs=44.7
Q ss_pred eeeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEE
Q 032755 6 QGCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFI 60 (134)
Q Consensus 6 ~~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtI 60 (134)
-++.+|..+-.|+.+++.+++...+-|=.--.-..++.+.+.|++.+|....+.|
T Consensus 139 ggl~~i~~~~~g~~v~l~~~~dtgDAMGaNmvn~~~e~v~~~i~~~~~~~~~~~I 193 (373)
T PF00368_consen 139 GGLRDIEVRIVGRFVHLRFHYDTGDAMGANMVNTATEAVCPWIEEQFGGMVLMSI 193 (373)
T ss_dssp EEEEEEEEEECSTEEEEEEEEEETTC--HHHHHHHHHHHHHHHHHHHTSEEEEEE
T ss_pred eeeeEEEEEecCCEEEEEEEEEccccchhhHHHHHHHHHHHHHHHhcccceEEee
Confidence 3567888888999999999999999999999999999999999998886433333
No 50
>COG4669 EscJ Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]
Probab=32.81 E-value=1.2e+02 Score=25.19 Aligned_cols=73 Identities=16% Similarity=0.114 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHhhCCCeeEEEEEEe-c----CCCCCCCCccccCCCCCcccCCCCCCCCccchhHHHHHhhhcCCCcee
Q 032755 38 HGVGENVRHQIHKSHPEVSEVFIHID-P----AYFQFSPSTMDQLGLEGCKAHSSNICVDDLDIDAVVYNTLSTKFPEVF 112 (134)
Q Consensus 38 H~I~~~IE~~I~~~~p~V~~VtIHve-P----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 112 (134)
..+.+++++.|.+ +++|.++.||+- | ......|.+.--|..+. +..|-..-.++|...|.|-+-.-=+|++
T Consensus 108 ~~~eQ~le~tLs~-mDGVi~ArV~I~lp~~~~~g~~~~P~saSVfIky~---~~~nl~~~v~~IK~LV~nSv~gL~YenI 183 (246)
T COG4669 108 YAKEQQLEQTLSK-MDGVISARVHISLPEDDDEGKNALPSSASVFIKYS---PDVNLSIYVSQIKRLVANSVPGLQYENI 183 (246)
T ss_pred HHHHHHHHHHHHh-cCceEEEEEEEEcCCCCccCCCCCCceeEEEEEec---CCCChhHhHHHHHHHHHhccCCCchhce
Confidence 3567888888864 677888888875 3 22233333332222222 4445556677788888877766666666
Q ss_pred ec
Q 032755 113 FL 114 (134)
Q Consensus 113 ~~ 114 (134)
+|
T Consensus 184 SV 185 (246)
T COG4669 184 SV 185 (246)
T ss_pred EE
Confidence 65
No 51
>PRK14638 hypothetical protein; Provisional
Probab=32.72 E-value=2e+02 Score=21.64 Aligned_cols=45 Identities=13% Similarity=0.084 Sum_probs=36.3
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCC-CCHHHHHHHHHHHHHHHHhh
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDPF-SSVSAAHGVGENVRHQIHKS 51 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~~-mSV~eAH~I~~~IE~~I~~~ 51 (134)
.+-++...+.|....+.+.|.=+.. +|+.++..+++.|...|-..
T Consensus 24 elvdve~~~~~~~~~lrV~ID~~~G~v~lddC~~vSr~is~~LD~~ 69 (150)
T PRK14638 24 EIFDVQYRRESRGWVLRIIIDNPVGYVSVRDCELFSREIERFLDRE 69 (150)
T ss_pred EEEEEEEEecCCCcEEEEEEECCCCCcCHHHHHHHHHHHHHHhccc
Confidence 4567788888888788877776655 99999999999999988643
No 52
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=32.72 E-value=1.3e+02 Score=18.75 Aligned_cols=44 Identities=11% Similarity=-0.007 Sum_probs=32.5
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHhhCCCe-eEEEEEEecCCC
Q 032755 24 VHIVVDPFSSVSAAHGVGENVRHQIHKSHPEV-SEVFIHIDPAYF 67 (134)
Q Consensus 24 vhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V-~~VtIHveP~~~ 67 (134)
++|.+.+..|.++-.++.+.|-+.+.+.++-= .++.|-+.....
T Consensus 4 v~i~l~~grt~eqk~~l~~~it~~l~~~lg~p~~~v~V~i~e~~~ 48 (64)
T PRK01964 4 VQIQLLEGRPEEKIKNLIREVTEAISATLDVPKERVRVIVNEVPS 48 (64)
T ss_pred EEEEEeCCCCHHHHHHHHHHHHHHHHHHhCcChhhEEEEEEEcCh
Confidence 46666667799999999999999998776521 467777766543
No 53
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=32.05 E-value=1.2e+02 Score=18.41 Aligned_cols=43 Identities=14% Similarity=0.159 Sum_probs=33.3
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHhhCCC-eeEEEEEEecCC
Q 032755 24 VHIVVDPFSSVSAAHGVGENVRHQIHKSHPE-VSEVFIHIDPAY 66 (134)
Q Consensus 24 vhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~-V~~VtIHveP~~ 66 (134)
++|.+-+..|.++-.++...|-+.+.+.++. ..+++|-+...+
T Consensus 4 i~i~~~~Grs~eqk~~l~~~it~~l~~~~~~p~~~v~V~i~e~~ 47 (61)
T PRK02220 4 VHIKLIEGRTEEQLKALVKDVTAAVSKNTGAPAEHIHVIINEMS 47 (61)
T ss_pred EEEEEcCCCCHHHHHHHHHHHHHHHHHHhCcChhhEEEEEEEeC
Confidence 4667777789999999999999999888763 357777666544
No 54
>PRK15127 multidrug efflux system protein AcrB; Provisional
Probab=31.57 E-value=1.6e+02 Score=28.84 Aligned_cols=44 Identities=11% Similarity=0.003 Sum_probs=36.1
Q ss_pred EEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhh-CCCeeEEEEEE
Q 032755 19 SLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKS-HPEVSEVFIHI 62 (134)
Q Consensus 19 ~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~-~p~V~~VtIHv 62 (134)
.-.+.+++++|++.++++..++++++|+.++++ .|++.++...+
T Consensus 569 ~~~~~v~v~~p~gt~l~~t~~~~~~ve~~l~~~~~~~v~~~~~~~ 613 (1049)
T PRK15127 569 QGVFLTMVQLPAGATQERTQKVLNEVTDYYLTKEKNNVESVFAVN 613 (1049)
T ss_pred CceEEEEEECCCCCCHHHHHHHHHHHHHHHHhcCCCCeeEEEEEe
Confidence 346688999999999999999999999999753 58887766544
No 55
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=31.05 E-value=1.6e+02 Score=28.66 Aligned_cols=44 Identities=16% Similarity=0.129 Sum_probs=36.9
Q ss_pred EEEEEEEEECCCCCHHHHHHHHHHHHHHHHhh-CCCeeEEEEEEe
Q 032755 20 LYLDVHIVVDPFSSVSAAHGVGENVRHQIHKS-HPEVSEVFIHID 63 (134)
Q Consensus 20 ~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~-~p~V~~VtIHve 63 (134)
-.+.++++.|++.++++..+.++++|+.|++. .|++..+...+-
T Consensus 569 ~~~~v~~~~p~gt~l~~t~~~~~~~e~~l~~~~~~~v~~~~~~~G 613 (1037)
T PRK10555 569 GMFTTSVQLPSGSTQQQTLKVVEKVEKYYFTHEKDNVMSVFATVG 613 (1037)
T ss_pred CeEEEEEECCCCCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEEec
Confidence 34678999999999999999999999999753 588887776654
No 56
>PF10646 Germane: Sporulation and spore germination; InterPro: IPR019606 The GerMN domain is a region of approximately 100 residues that is found, duplicated, in the Bacillus GerM protein and is implicated in both sporulation and spore germination. It is also found in lipoprotein LpqB. The domain is present in a number of different bacterial species both alone and in association with other domains such as Gmad1 and Gmad2. It is predicted to have a novel alpha-beta fold.
Probab=31.05 E-value=1.7e+02 Score=19.85 Aligned_cols=47 Identities=21% Similarity=0.261 Sum_probs=36.8
Q ss_pred CCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEe
Q 032755 17 GSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHID 63 (134)
Q Consensus 17 G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHve 63 (134)
|+.++||+.=.+-..+...+...+...|-..+.+.++++..|.|.++
T Consensus 63 ~~~~~Vd~s~~~~~~~~~~~~~~~~~~i~~Tl~~~~~~v~~V~i~vd 109 (117)
T PF10646_consen 63 GNTLTVDFSSEFLNFLGSSQEALLLAQIVNTLTEQFPGVKKVQILVD 109 (117)
T ss_pred CCEEEEECCHHHhhcCChHHHHHHHHHHHHHHHHhcCCccEEEEEEC
Confidence 55777777766655466777888889999999888999998888765
No 57
>PF08830 DUF1806: Protein of unknown function (DUF1806); InterPro: IPR014934 This entry consists of bacterial uncharacterised proteins. The structure of one of the proteins has been solved and it adopts a beta barrel-like structure. ; PDB: 1NJH_A.
Probab=30.67 E-value=54 Score=24.26 Aligned_cols=33 Identities=15% Similarity=0.376 Sum_probs=17.5
Q ss_pred HHHHHHHHhhCCCeeEEEEEEecCCCCCCCCcccc
Q 032755 42 ENVRHQIHKSHPEVSEVFIHIDPAYFQFSPSTMDQ 76 (134)
Q Consensus 42 ~~IE~~I~~~~p~V~~VtIHveP~~~~~~~~~~~~ 76 (134)
++|++.|. .|-+ .+|.+|+|-...++.+|..++
T Consensus 6 ~~VQ~~l~-~~~~-~~vYlHlETTnGAYAsH~d~~ 38 (114)
T PF08830_consen 6 EEVQALLD-SFAN-KDVYLHLETTNGAYASHFDES 38 (114)
T ss_dssp HHHHHHHH-HTTT-S-EEEEEEEEE----------
T ss_pred HHHHHHHH-HhcC-CceEEEEeecCchhhcccccc
Confidence 56777774 5776 799999999999998876554
No 58
>PRK09577 multidrug efflux protein; Reviewed
Probab=30.59 E-value=1.3e+02 Score=29.28 Aligned_cols=42 Identities=12% Similarity=0.104 Sum_probs=35.1
Q ss_pred EEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEE
Q 032755 19 SLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIH 61 (134)
Q Consensus 19 ~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIH 61 (134)
.-.+-++++.|++.++++..++.+++|+.|++ .|++..+...
T Consensus 566 ~~~~~v~~~~p~gtsl~~t~~~~~~ve~~l~~-~~~v~~~~~~ 607 (1032)
T PRK09577 566 QGNFMVMVIRPQGTPLAETMQSVREVESYLRR-HEPVAYTFAL 607 (1032)
T ss_pred CceEEEEEEcCCCCCHHHHHHHHHHHHHHHhh-CCCceEEEEE
Confidence 34567889999999999999999999999975 6888776543
No 59
>KOG0282 consensus mRNA splicing factor [Function unknown]
Probab=30.47 E-value=33 Score=31.17 Aligned_cols=18 Identities=28% Similarity=0.409 Sum_probs=15.8
Q ss_pred cceeeeecceeEEEEeee
Q 032755 115 FPVLFACSMKFKVYLWSI 132 (134)
Q Consensus 115 ~~~~~~~~~~~~~~~~~~ 132 (134)
-|||..|+|.-+||||-.
T Consensus 227 ~hLlLS~gmD~~vklW~v 244 (503)
T KOG0282|consen 227 GHLLLSGGMDGLVKLWNV 244 (503)
T ss_pred eeEEEecCCCceEEEEEE
Confidence 378999999999999964
No 60
>PRK10503 multidrug efflux system subunit MdtB; Provisional
Probab=29.60 E-value=1.8e+02 Score=28.38 Aligned_cols=44 Identities=14% Similarity=0.097 Sum_probs=36.8
Q ss_pred EEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEe
Q 032755 19 SLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHID 63 (134)
Q Consensus 19 ~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHve 63 (134)
.-.+.+.++.+++.++++..++.+++|+.+++ .|++..+...+-
T Consensus 567 ~~~i~v~~~~p~gt~l~~t~~~~~~ve~~l~~-~~~v~~~~~~~G 610 (1040)
T PRK10503 567 NGIIQGTLQAPQSSSFANMAQRQRQVADVILQ-DPAVQSLTSFVG 610 (1040)
T ss_pred CcEEEEEEECCCCCCHHHHHHHHHHHHHHHhh-CCCeEEEEEEec
Confidence 34567899999999999999999999999975 688887776543
No 61
>COG0149 TpiA Triosephosphate isomerase [Carbohydrate transport and metabolism]
Probab=29.27 E-value=84 Score=26.08 Aligned_cols=86 Identities=17% Similarity=0.155 Sum_probs=60.7
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeE---EEEEEecCCCCCCCCccccCCCCCcccCCCCCCCCccchhHHH
Q 032755 24 VHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSE---VFIHIDPAYFQFSPSTMDQLGLEGCKAHSSNICVDDLDIDAVV 100 (134)
Q Consensus 24 vhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~---VtIHveP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 100 (134)
.-+.+...+.-+|+-+-.+-+.+++...+..+.- +.|=.||...=. | -.+.+....+.+.+.|
T Consensus 124 pIlCvGEtl~~reag~t~~v~~~Ql~~~l~~l~~~~~~vIAYEPvWAIG------------T--G~~at~~~a~~v~~~I 189 (251)
T COG0149 124 PILCVGETLEEREAGKTLEVLKRQLAAALAALSPEANIVIAYEPVWAIG------------T--GKSASPADAEEVHAFI 189 (251)
T ss_pred EEEEcCCCHHHHhccChHHHHHHHHHHHHhhcCcccCeEEEECCHHHhc------------C--CCCCCHHHHHHHHHHH
Confidence 4467777777788877777777777777776653 788888875221 1 0223445567788999
Q ss_pred HHhhhcCCCceeeccceeeeecce
Q 032755 101 YNTLSTKFPEVFFLFPVLFACSMK 124 (134)
Q Consensus 101 ~~~~~~~~~~~~~~~~~~~~~~~~ 124 (134)
|.++.+.|++. .--.+|++-|.|
T Consensus 190 r~~~~~~~~~~-~~v~IlYGGSV~ 212 (251)
T COG0149 190 RAVLAELFGAE-EKVRILYGGSVK 212 (251)
T ss_pred HHHHHHhcCCC-CCeEEEEeCCcC
Confidence 99999999977 555677777765
No 62
>cd04900 ACT_UUR-like_1 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD is the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted tyrosine kinase. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=28.98 E-value=1.6e+02 Score=18.70 Aligned_cols=45 Identities=16% Similarity=0.128 Sum_probs=26.0
Q ss_pred eeeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032755 6 QGCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (134)
Q Consensus 6 ~~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~ 50 (134)
.+|+.-++...|....+|.-...+++-+.....+-.+++++.|.+
T Consensus 27 l~I~~A~i~T~~~~~v~D~F~v~~~~~~~~~~~~~~~~l~~~L~~ 71 (73)
T cd04900 27 LNILDARIFTTRDGYALDTFVVLDPDGEPIGERERLARIREALED 71 (73)
T ss_pred CCeEEeEEEEeCCCeEEEEEEEECCCCCCCChHHHHHHHHHHHHh
Confidence 467888888886656666555556553322223334456666654
No 63
>PRK05783 hypothetical protein; Provisional
Probab=28.82 E-value=2e+02 Score=19.89 Aligned_cols=38 Identities=11% Similarity=0.191 Sum_probs=27.2
Q ss_pred EEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEec
Q 032755 26 IVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDP 64 (134)
Q Consensus 26 I~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP 64 (134)
+.++.+ +-++|.+.++++.++|+=..|.+.+..|.+++
T Consensus 46 l~l~~~-~~e~a~~~v~~mc~~LrLaNpVIe~y~i~~~~ 83 (84)
T PRK05783 46 FKIEAN-SPEEAKELALKIAREGRLYNPIVHKIVVRVRR 83 (84)
T ss_pred EEEcCC-CHHHHHHHHHHHHHhcCcCCceeEEEEEEEEe
Confidence 334554 66888888888888884457888887777654
No 64
>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein. Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.
Probab=28.66 E-value=1.7e+02 Score=19.93 Aligned_cols=28 Identities=14% Similarity=0.027 Sum_probs=18.8
Q ss_pred eEEEEeeCCEEEEEEEEEECCCCCHHHHH
Q 032755 10 RLRGRRAGSSLYLDVHIVVDPFSSVSAAH 38 (134)
Q Consensus 10 dLR~R~~G~~~~VDvhI~Vd~~mSV~eAH 38 (134)
+|.++..... ..++.+++++++|+.+..
T Consensus 3 ~l~IK~~~~~-~~~~~ve~~~~~TV~~lK 30 (79)
T cd01790 3 TLLIKSPNQK-YEDQTVSCFLNWTVGELK 30 (79)
T ss_pred EEEEECCCCC-eEEEEEecCCcChHHHHH
Confidence 3556664332 556778889999987655
No 65
>COG3696 Putative silver efflux pump [Inorganic ion transport and metabolism]
Probab=28.10 E-value=1.3e+02 Score=29.74 Aligned_cols=39 Identities=23% Similarity=0.230 Sum_probs=34.0
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEe
Q 032755 24 VHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHID 63 (134)
Q Consensus 24 vhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHve 63 (134)
......|+.|++++-+....+|+.++ ++|++.+|.-..-
T Consensus 562 ~~~~~~Pg~Sl~~~~~m~~~~e~~ik-~~PeV~~V~~k~G 600 (1027)
T COG3696 562 YMPLTIPGVSLDEALRMLQAIERAIK-KFPEVERVFGKTG 600 (1027)
T ss_pred eeeccCCCCCHHHHHHHHHHHHHHHh-cCcchheeeeccc
Confidence 45677899999999999999999998 7999998877653
No 66
>COG1539 FolB Dihydroneopterin aldolase [Coenzyme metabolism]
Probab=27.31 E-value=2.5e+02 Score=20.47 Aligned_cols=53 Identities=15% Similarity=0.240 Sum_probs=38.0
Q ss_pred EeeCCEEEEEEEEEECCC-----------CCHHH----------------HHHHHHHHHHHHHhhCCCeeEEEEEEecCC
Q 032755 14 RRAGSSLYLDVHIVVDPF-----------SSVSA----------------AHGVGENVRHQIHKSHPEVSEVFIHIDPAY 66 (134)
Q Consensus 14 R~~G~~~~VDvhI~Vd~~-----------mSV~e----------------AH~I~~~IE~~I~~~~p~V~~VtIHveP~~ 66 (134)
|..|..+.+|+.+.+|.. ++=.+ ...++++|-+.+...||.+..+.|.+.=..
T Consensus 23 ~~~~Q~~~Vdl~l~~d~~~A~~~Ddl~dtl~Y~~v~~~i~~~v~~~~~~LiE~lA~~ia~~l~~~~~~v~~~~v~v~KP~ 102 (121)
T COG1539 23 RKLGQKFVVDLTLGYDLRKAAESDDLADTLNYAEVSELIKEIVEGKRFALIETLAEEIADLLLARFPRVELVEVKVTKPK 102 (121)
T ss_pred hccCCeEEEEEEEeccchhhcCccchhheecHHHHHHHHHHHHhCCccchHHHHHHHHHHHHHhhCCccEEEEEEEECCC
Confidence 345788999999999982 22222 234678888899999998888877765333
No 67
>PF04456 DUF503: Protein of unknown function (DUF503); InterPro: IPR007546 This is a family of conserved hypothetical bacterial proteins, including TT1725 from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579), which has a ferredoxin-like alpha+beta-sandwich fold [].; PDB: 1J27_A.
Probab=26.55 E-value=2.1e+02 Score=19.74 Aligned_cols=33 Identities=9% Similarity=0.127 Sum_probs=26.9
Q ss_pred EEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCC
Q 032755 21 YLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHP 53 (134)
Q Consensus 21 ~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p 53 (134)
.+.+++.+|..-|+++=-.+...+.++++++|+
T Consensus 4 ~l~l~l~lp~~~SLKeKR~vvksl~~klr~rfn 36 (90)
T PF04456_consen 4 VLRLELRLPGAHSLKEKRQVVKSLIDKLRNRFN 36 (90)
T ss_dssp EEEEEEE----SSHHHHHHHHHHHHHHHHHHSS
T ss_pred EEEEEEEeccccchhHhHHHHHHHHHHHHhhCC
Confidence 567889999999999999999999999999987
No 68
>PRK14633 hypothetical protein; Provisional
Probab=26.54 E-value=2.8e+02 Score=20.82 Aligned_cols=44 Identities=14% Similarity=0.068 Sum_probs=34.0
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhh
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKS 51 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~ 51 (134)
.+-++.....|. ..+.+.|.-+..+|+.++..+++.|...|-..
T Consensus 20 eL~dve~~~~~~-~~lrV~ID~~~Gv~lddC~~vSr~i~~~LD~~ 63 (150)
T PRK14633 20 ILWGIEVVGSGK-LTIRIFIDHENGVSVDDCQIVSKEISAVFDVE 63 (150)
T ss_pred EEEEEEEEeCCC-cEEEEEEeCCCCCCHHHHHHHHHHHHHHhccC
Confidence 345666666666 47777777788899999999999999999643
No 69
>PRK14645 hypothetical protein; Provisional
Probab=26.16 E-value=2.9e+02 Score=20.94 Aligned_cols=45 Identities=11% Similarity=0.121 Sum_probs=35.2
Q ss_pred eeeeEEEEeeCCEEEEEEEEEEC--CCCCHHHHHHHHHHHHHHHHhh
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVD--PFSSVSAAHGVGENVRHQIHKS 51 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd--~~mSV~eAH~I~~~IE~~I~~~ 51 (134)
.+.++...+.|....+.+.|.=+ ..+++.+..++++.|...|-..
T Consensus 25 elvdve~~~~~~~~ilrV~ID~~~~~~v~lddC~~vSr~is~~LD~~ 71 (154)
T PRK14645 25 EVLEVQVQRSGGKRIVLVRIDRKDEQPVTVEDLERASRALEAELDRL 71 (154)
T ss_pred EEEEEEEEeCCCCeEEEEEEECCCCCCcCHHHHHHHHHHHHHHhccc
Confidence 56788888888777777777643 2499999999999999988543
No 70
>cd02412 30S_S3_KH K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=25.67 E-value=2.4e+02 Score=19.81 Aligned_cols=58 Identities=17% Similarity=0.195 Sum_probs=40.0
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCC
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAY 66 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~ 66 (134)
++.++.+.+....+.+.++..-|+-+ +...-+-.+++++.|++.+.. ..+.|.+....
T Consensus 50 gis~I~I~R~~~~i~I~I~t~rPg~v-IG~~G~~i~~L~~~l~~~~~~-~~~~I~V~ev~ 107 (109)
T cd02412 50 GISRIEIERKADRVEVTIHTARPGII-IGKKGAGIEKLRKELQKLLGN-KKVRINIVEVK 107 (109)
T ss_pred CccEEEEEEcCCCEEEEEEeCCCCcc-cCCchHHHHHHHHHHHHHhCC-CceEEEEEEec
Confidence 45678888888889999999887654 444445557788888776652 35666665543
No 71
>smart00796 AHS1 Allophanate hydrolase subunit 1. This domain represents subunit 1 of allophanate hydrolase (AHS1).
Probab=25.17 E-value=84 Score=24.74 Aligned_cols=53 Identities=19% Similarity=0.312 Sum_probs=31.9
Q ss_pred EEEeeCCE-EEEEEEEEECCCCC---HHHHHHHHHHHHHH----HHhhCCCeeEEEEEEecCCCC
Q 032755 12 RGRRAGSS-LYLDVHIVVDPFSS---VSAAHGVGENVRHQ----IHKSHPEVSEVFIHIDPAYFQ 68 (134)
Q Consensus 12 R~R~~G~~-~~VDvhI~Vd~~mS---V~eAH~I~~~IE~~----I~~~~p~V~~VtIHveP~~~~ 68 (134)
+.+..|.. +.++ +...++ ..+++++.+.+++. |.+-.|....++|+++|....
T Consensus 2 ~i~~~Gd~allv~----~~~~~~~~~~~~v~~l~~~l~~~~~~gi~e~vp~~~sllv~fdp~~~~ 62 (201)
T smart00796 2 RIRPAGDRALLVE----FGDEIDLALNRRVLALARALRAAPLPGVVELVPGYRSLLVHFDPLVID 62 (201)
T ss_pred EEEEcCCcEEEEE----ECCcCCHHHHHHHHHHHHHHHhcCCCCeEEccccceEEEEEEcCCCCC
Confidence 56667764 4444 444444 34556666666643 445556656788999997543
No 72
>PRK10931 adenosine-3'(2'),5'-bisphosphate nucleotidase; Provisional
Probab=25.12 E-value=1.2e+02 Score=23.98 Aligned_cols=58 Identities=16% Similarity=0.205 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCCCCCCCCccccCCCCCcccCCCCCCCCccchhHHHHHhhhcCCCce
Q 032755 34 VSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYFQFSPSTMDQLGLEGCKAHSSNICVDDLDIDAVVYNTLSTKFPEV 111 (134)
Q Consensus 34 V~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 111 (134)
+..|.+++.+..+.+++.+.....+.+.. + ...++.|.-+..+|..+.+.|.+.||+.
T Consensus 2 l~~a~~~a~~ag~~i~~~~~~~~~~~~~~-----------k---------~~~d~vT~aD~~~e~~i~~~L~~~~P~~ 59 (246)
T PRK10931 2 LEQICQLARNAGDAIMQVYDGTKPLDVAS-----------K---------ADDSPVTAADIAAHTVIKDGLRTLTPDI 59 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCCcceEE-----------c---------CCCCcccHHHHHHHHHHHHHHHHHCCCC
Confidence 45677888888888877665311111110 0 1135788899999999999999999973
No 73
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=25.04 E-value=2.3e+02 Score=22.18 Aligned_cols=54 Identities=7% Similarity=0.036 Sum_probs=36.0
Q ss_pred eeeeeEEEEeeCC------EEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCCC
Q 032755 6 QGCHRLRGRRAGS------SLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYF 67 (134)
Q Consensus 6 ~~VhdLR~R~~G~------~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~~ 67 (134)
.+|.+|+++..|. .+.+.+.+.+|++..+.+-.+--+.+.+.| . +.+.++|...
T Consensus 121 iNI~~L~T~~~~a~~~~~~lf~~~~~v~lP~~~~~~~L~~~l~~l~~eL----~----vd~~l~~~~~ 180 (190)
T PRK11589 121 MNIAELVSRTQPAEGERPAQLHIQITAHSPASQDAANIEQAFKALCTEL----N----AQGSINVVNY 180 (190)
T ss_pred CChhheEEeeecCCCCCcccEEEEEEEEcCCCCCHHHHHHHHHHHHHHh----C----ceEEEEEeec
Confidence 4678888887653 689999999999988765544443333333 2 3455667654
No 74
>COG2098 Uncharacterized protein conserved in archaea [Function unknown]
Probab=24.93 E-value=1.2e+02 Score=22.53 Aligned_cols=34 Identities=21% Similarity=0.286 Sum_probs=28.0
Q ss_pred CCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCC
Q 032755 32 SSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAY 66 (134)
Q Consensus 32 mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~ 66 (134)
.|...|..+...|++.|+- -|-+.++-|+++|..
T Consensus 34 vs~~~a~~le~aI~esi~~-QP~v~daeV~Id~~~ 67 (116)
T COG2098 34 VSPGTAESLEKAIEESIKV-QPFVEDAEVKIDRDK 67 (116)
T ss_pred CCccchHHHHHHHHHHHhc-CCceeeEEEEecccc
Confidence 4556778888899999974 698999999999984
No 75
>PRK04191 rps3p 30S ribosomal protein S3P; Reviewed
Probab=24.46 E-value=2e+02 Score=22.81 Aligned_cols=61 Identities=7% Similarity=-0.001 Sum_probs=41.1
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCCCCC
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYFQF 69 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~~~~ 69 (134)
++.++.+++.+....+.++.. +|.+=+.....-.+++++.|++.+. +.++.|.+.+...+.
T Consensus 29 gIs~IeI~Rt~~~i~I~I~ta-~PGivIGk~G~~I~klk~~Lkk~~~-~~~v~I~v~ev~~p~ 89 (207)
T PRK04191 29 GYGGMEIKKTPLGTRITIYAE-RPGMVIGRGGKNIRELTEILEKKFG-LENPQIDVKEVENPE 89 (207)
T ss_pred ceeEEEEEEcCCcEEEEEEEC-CCCeEECCCchhHHHHHHHHHHHhC-CCceeEEEEEEeCCC
Confidence 566778888877888898884 4454555555555677777766554 456777777766554
No 76
>PF00400 WD40: WD domain, G-beta repeat; InterPro: IPR019781 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events.; PDB: 2ZKQ_a 3CFV_B 3CFS_B 1PEV_A 1NR0_A 1VYH_T 3RFH_A 3O2Z_T 3FRX_C 3U5G_g ....
Probab=24.04 E-value=81 Score=16.85 Aligned_cols=17 Identities=18% Similarity=0.174 Sum_probs=14.0
Q ss_pred cceeeeecceeEEEEee
Q 032755 115 FPVLFACSMKFKVYLWS 131 (134)
Q Consensus 115 ~~~~~~~~~~~~~~~~~ 131 (134)
...+.+|+..-.+++|+
T Consensus 23 ~~~~~s~~~D~~i~vwd 39 (39)
T PF00400_consen 23 GNFLASGSSDGTIRVWD 39 (39)
T ss_dssp SSEEEEEETTSEEEEEE
T ss_pred cccceeeCCCCEEEEEC
Confidence 46788888889999995
No 77
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=23.43 E-value=2.1e+02 Score=18.36 Aligned_cols=25 Identities=12% Similarity=0.077 Sum_probs=21.7
Q ss_pred eeeeeEEEEeeCCEEEEEEEEEECC
Q 032755 6 QGCHRLRGRRAGSSLYLDVHIVVDP 30 (134)
Q Consensus 6 ~~VhdLR~R~~G~~~~VDvhI~Vd~ 30 (134)
.++-+++....|..+.+-+.+.+++
T Consensus 28 ~ni~d~~~~~~~~~f~~~~~v~~~~ 52 (76)
T PF13740_consen 28 CNIEDSRQAVLGGRFTLIMLVSIPE 52 (76)
T ss_dssp -EEEEEEEEEETTEEEEEEEEEESH
T ss_pred CcEEEEEEEEEcCeEEEEEEEEeCc
Confidence 4788999999999999999999993
No 78
>PF02120 Flg_hook: Flagellar hook-length control protein FliK; InterPro: IPR021136 This entry represents the C-terminal domain of the flagellar hook-length control protein FliK. This entry also includes YscP of the Yersinia type III secretion system, and equivalent proteins in other pathogenic bacterial type III secretion systems. During flagellar morphogenesis in Salmonella typhimurium and Escherichia coli, flagellar hook-length control protein (FliK) controls the length of the hook by directly measuring the hook length [, ]. It is considered unlikely that FliK functions as a molecular ruler for determining hook length, but that it is more likely to be employing a novel mechanism. The deduced amino acid sequences of FliK proteins from S. typhimurium and E. coli have molecular masses of 41,748 and 39,246 Da, respectively, and are fairly hydrophilic []. Sequence comparison reveals around 50% identity, with greatest conservation in the C-terminal region, with 71% identity in the last 154 amino acids - mutagenesis of this conserved region completely abolishes motility. The central and C-terminal regions are rich in proline and glutamine respectively; it is thought that they may constitute distinct domains [].; PDB: 2RRL_A.
Probab=23.30 E-value=2.2e+02 Score=18.36 Aligned_cols=55 Identities=13% Similarity=0.149 Sum_probs=34.4
Q ss_pred eeeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEE
Q 032755 6 QGCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHI 62 (134)
Q Consensus 6 ~~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHv 62 (134)
.+=-+++++..|. .+.+++.++..-+......-...++++|...--.+.++.++.
T Consensus 24 LG~v~v~l~~~~~--~l~v~~~~~~~~~~~~L~~~~~~L~~~L~~~G~~~~~~~v~~ 78 (85)
T PF02120_consen 24 LGSVEVKLRLQGG--NLSVQFTAENPETKELLRQNLPELKERLQAQGLEVVNLSVSQ 78 (85)
T ss_dssp G--EEEEEEEETT--EEEEEEE--SSHHHHHHHHTHHHHHHHHHTTT-EEEEEEEES
T ss_pred cCcEEEEEEEeCC--EEEEEEEECCHHHHHHHHHHHHHHHHHHHHCCCCeEEEEEEE
Confidence 3445678888888 556666776666777788888889999976433334455443
No 79
>PRK14630 hypothetical protein; Provisional
Probab=22.96 E-value=3.3e+02 Score=20.35 Aligned_cols=44 Identities=5% Similarity=-0.043 Sum_probs=34.9
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~ 50 (134)
.+-++...+.|....+.+.|.=+..+|+.++..+++.|...|..
T Consensus 24 eLvdve~~~~~~~~~lrV~Id~~~gV~idDC~~vSr~i~~~ld~ 67 (143)
T PRK14630 24 EIIEINTFRNRNEGKIQIVLYKKDSFGVDTLCDLHKMILLILEA 67 (143)
T ss_pred EEEEEEEEecCCCcEEEEEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence 45567777777767777777777889999999999999888743
No 80
>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=22.90 E-value=3.7e+02 Score=20.88 Aligned_cols=55 Identities=16% Similarity=0.288 Sum_probs=34.5
Q ss_pred eeeEEEEe---eCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEE--ecCC
Q 032755 8 CHRLRGRR---AGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHI--DPAY 66 (134)
Q Consensus 8 VhdLR~R~---~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHv--eP~~ 66 (134)
|+++.+.. .|..+.+++.+..+. -.....+.+.++++|. .+|++.++.|.+ +|..
T Consensus 100 V~~I~Id~~~~~~~~V~I~mtLt~p~---c~~~~~L~~dV~~aL~-~l~gV~~V~V~l~~dp~W 159 (174)
T TIGR03406 100 VYGCRVEKLGEGQFRVDIEMTLTAPG---CGMGPVLVEDVEDKVL-AVPNVDEVEVELVFDPPW 159 (174)
T ss_pred eEEEEEecccCCCCEEEEEEEeCCCC---CcHHHHHHHHHHHHHH-hCCCceeEEEEEEecCCC
Confidence 45566655 122566666665554 3467778889999996 467777666554 4543
No 81
>PRK14646 hypothetical protein; Provisional
Probab=22.08 E-value=3.5e+02 Score=20.42 Aligned_cols=45 Identities=11% Similarity=0.040 Sum_probs=36.1
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECC--CCCHHHHHHHHHHHHHHHHhh
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDP--FSSVSAAHGVGENVRHQIHKS 51 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~--~mSV~eAH~I~~~IE~~I~~~ 51 (134)
.+-++...+.|....+.+.|.=+. .+|+.++..+++.|...|-..
T Consensus 23 eLvdve~~~~~~~~~LrV~IDk~~g~gVtldDC~~vSr~is~~LD~~ 69 (155)
T PRK14646 23 KICSLNIQTNQNPIVIKIIIKKTNGDDISLDDCALFNTPASEEIENS 69 (155)
T ss_pred EEEEEEEEeCCCCeEEEEEEECCCCCCccHHHHHHHHHHHHHHhCcC
Confidence 467788888888888887777653 499999999999999988643
No 82
>PRK14632 hypothetical protein; Provisional
Probab=21.82 E-value=3.8e+02 Score=20.65 Aligned_cols=44 Identities=7% Similarity=0.010 Sum_probs=33.6
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhh
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKS 51 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~ 51 (134)
.+-++.... |....+.+.|.=+..+|+.++..+++.|...|-..
T Consensus 24 eLvdve~~~-~~~~~lrV~ID~~~GV~ldDC~~vSr~is~~LD~~ 67 (172)
T PRK14632 24 ELWGIELSY-GGRTVVRLFVDGPEGVTIDQCAEVSRHVGLALEVE 67 (172)
T ss_pred EEEEEEEEe-CCCcEEEEEEECCCCCCHHHHHHHHHHHHHHhccc
Confidence 345566554 56677777777778899999999999999998643
No 83
>PF11272 DUF3072: Protein of unknown function (DUF3072); InterPro: IPR021425 This bacterial family of proteins has no known function.
Probab=21.42 E-value=1.2e+02 Score=19.88 Aligned_cols=22 Identities=9% Similarity=-0.083 Sum_probs=18.9
Q ss_pred EECCCCCHHHHHHHHHHHHHHH
Q 032755 27 VVDPFSSVSAAHGVGENVRHQI 48 (134)
Q Consensus 27 ~Vd~~mSV~eAH~I~~~IE~~I 48 (134)
.+++++|-.+|++..++++++.
T Consensus 34 ~~~~~LtkaeAs~rId~L~~~~ 55 (57)
T PF11272_consen 34 PFPDDLTKAEASERIDELQAQT 55 (57)
T ss_pred CCCCcccHHHHHHHHHHHHHHh
Confidence 4788999999999999988764
No 84
>PF11964 SpoIIAA-like: SpoIIAA-like; InterPro: IPR021866 This family of proteins is functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 120 to 132 amino acids in length. This protein has a single completely conserved residue A that may be functionally important. ; PDB: 2Q3L_B 2OOK_A 3BL4_A.
Probab=20.89 E-value=1.7e+02 Score=19.38 Aligned_cols=39 Identities=8% Similarity=0.092 Sum_probs=29.0
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEec
Q 032755 24 VHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDP 64 (134)
Q Consensus 24 vhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP 64 (134)
+.+.+++.+|.++..++...+++.+. ..+. .++.+.+.+
T Consensus 3 l~v~~~g~~t~ed~~~~~~~~~~~~~-~~~~-~~ll~d~~~ 41 (109)
T PF11964_consen 3 LAVRVSGKLTEEDYKELLPALEELIA-DHGK-IRLLVDLRR 41 (109)
T ss_dssp EEEEEEEEE-HHHHHHHHHHHHHHHT-TSSS-EEEEEEEC-
T ss_pred EEEEEeeeeCHHHHHHHHHHHHHHHh-cCCc-eEEEEEecC
Confidence 45777799999999999999999986 4565 357776663
No 85
>COG3518 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.81 E-value=1.4e+02 Score=23.20 Aligned_cols=36 Identities=19% Similarity=0.333 Sum_probs=31.2
Q ss_pred CHHHHHHHHHHHHHHHHhhCCCeeEEEEEEecCCCC
Q 032755 33 SVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYFQ 68 (134)
Q Consensus 33 SV~eAH~I~~~IE~~I~~~~p~V~~VtIHveP~~~~ 68 (134)
+..+.|+|+..|++.|..--|.+.+|.+.++|....
T Consensus 82 ~~~~~~~i~r~I~~~Ie~fEPRL~~V~v~~~~~~~~ 117 (157)
T COG3518 82 LFRDSHQIARAIRAAIERFEPRLSRVEVQLLPGRGD 117 (157)
T ss_pred ccccHHHHHHHHHHHHHHhCchhhheeeeeccCCCC
Confidence 456789999999999988889889999999988765
No 86
>cd00643 HMG-CoA_reductase_classI Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR). Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR), class I enzyme, homotetramer. Catalyzes the synthesis of coenzyme A and mevalonate in isoprenoid synthesis. In mammals this is the rate limiting committed step in cholesterol biosynthesis. Class I enzymes are found predominantly in eukaryotes and contain N-terminal membrane regions. With the exception of Archaeoglobus fulgidus, most archeae are assigned to class I, based on sequence similarity of the active site, even though they lack membrane regions. Yeast and human HMGR are divergent in their N-terminal regions, but are conserved in their active site. In contrast, human and bacterial HMGR differ in their active site architecture.
Probab=20.07 E-value=6.1e+02 Score=22.52 Aligned_cols=48 Identities=17% Similarity=0.234 Sum_probs=40.5
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCC
Q 032755 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPE 54 (134)
Q Consensus 7 ~VhdLR~R~~G~~~~VDvhI~Vd~~mSV~eAH~I~~~IE~~I~~~~p~ 54 (134)
++.+|..+-.|+.+++.+.+....-|=.--.-..++.+-+.|++.+|.
T Consensus 166 ~l~~i~~~~~g~~v~lrf~~~TgDAMG~NMv~~~~e~v~~~i~~~~~~ 213 (403)
T cd00643 166 RLQSIKPYIAGRSVYLRFEYTTGDAMGMNMVTKATEAACDWIEENFPD 213 (403)
T ss_pred ccceEEEEecCCEEEEEEEEEcCcchhhhHHHHHHHHHHHHHHHhCCC
Confidence 456777888899999999999998887777778888888888888885
No 87
>KOG2802 consensus Membrane protein HUEL (cation efflux superfamily) [General function prediction only]
Probab=20.01 E-value=1e+02 Score=27.77 Aligned_cols=56 Identities=11% Similarity=0.198 Sum_probs=38.1
Q ss_pred eeeeeEEEEeeCC-EEEEEEEEEECCCCCHH-------------HH-----------------HH-------HHHHHHHH
Q 032755 6 QGCHRLRGRRAGS-SLYLDVHIVVDPFSSVS-------------AA-----------------HG-------VGENVRHQ 47 (134)
Q Consensus 6 ~~VhdLR~R~~G~-~~~VDvhI~Vd~~mSV~-------------eA-----------------H~-------I~~~IE~~ 47 (134)
.+++|+++-..|. .+-.-..+.+|+.+-.+ ++ .. -.+++|+.
T Consensus 408 ~diyDvK~~diG~g~vRfKAE~DFdGr~vtrsYL~kqd~akml~e~~~~~~~e~le~fml~~GEnivd~lG~EvDRlEke 487 (503)
T KOG2802|consen 408 NDIYDVKATDIGLGKVRFKAEVDFDGRVVTRSYLEKQDFAKMLQEIQEVKTPEELETFMLKHGENIVDTLGAEVDRLEKE 487 (503)
T ss_pred HhhhhccceeeccceeEEEEEeccCchhhHHHHHhHHHHHHHHHHHHhcCCHHHHHHHHHHcchHHHHHhhhHHHHHHHH
Confidence 3578888888877 45566666666654321 11 11 15789999
Q ss_pred HHhhCCCeeEEEEE
Q 032755 48 IHKSHPEVSEVFIH 61 (134)
Q Consensus 48 I~~~~p~V~~VtIH 61 (134)
|++.+|+|.+|-+.
T Consensus 488 l~~~~PeirHVDlE 501 (503)
T KOG2802|consen 488 LKKRNPEIRHVDLE 501 (503)
T ss_pred HHHhCCCceeeeee
Confidence 99999999888764
Done!