Query 032430
Match_columns 141
No_of_seqs 177 out of 1086
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 13:59:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032430.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032430hhsearch_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 3.7E-14 8E-19 115.7 9.1 69 2-70 227-295 (304)
2 TIGR01297 CDF cation diffusion 99.4 4E-13 8.6E-18 106.2 8.6 64 2-65 204-268 (268)
3 PRK09509 fieF ferrous iron eff 99.4 6.8E-13 1.5E-17 107.5 9.4 65 2-67 225-289 (299)
4 PF01545 Cation_efflux: Cation 99.3 3.6E-11 7.9E-16 95.5 10.3 66 2-67 217-283 (284)
5 PRK03557 zinc transporter ZitB 99.2 1.7E-10 3.6E-15 94.3 9.1 62 2-67 233-294 (312)
6 KOG1485 Mitochondrial Fe2+ tra 98.0 1.4E-05 3.1E-10 67.5 7.1 64 3-67 339-402 (412)
7 COG1230 CzcD Co/Zn/Cd efflux s 97.5 0.00042 9E-09 56.7 6.9 61 2-66 234-295 (296)
8 KOG1482 Zn2+ transporter [Inor 97.0 0.0035 7.6E-08 52.6 7.4 64 2-69 306-370 (379)
9 KOG1483 Zn2+ transporter ZNT1 95.3 0.073 1.6E-06 45.1 7.0 57 2-63 311-368 (404)
10 PRK09509 fieF ferrous iron eff 93.9 0.12 2.7E-06 41.8 5.1 45 95-140 213-257 (299)
11 COG0053 MMT1 Predicted Co/Zn/C 93.3 0.2 4.3E-06 41.0 5.4 44 96-140 216-259 (304)
12 TIGR01297 CDF cation diffusion 93.0 0.2 4.2E-06 39.4 4.9 42 99-141 196-238 (268)
13 PF14535 AMP-binding_C_2: AMP- 90.7 3.7 8E-05 27.6 9.5 62 2-65 16-79 (96)
14 PF01545 Cation_efflux: Cation 89.1 0.98 2.1E-05 35.6 5.3 46 94-140 204-250 (284)
15 PRK03557 zinc transporter ZitB 88.2 1.4 3E-05 36.0 5.7 31 108-138 233-263 (312)
16 PF03780 Asp23: Asp23 family; 82.7 12 0.00026 25.2 8.5 53 11-63 50-105 (108)
17 PF09580 Spore_YhcN_YlaJ: Spor 82.1 4.5 9.7E-05 30.0 5.6 58 4-65 86-143 (177)
18 TIGR02898 spore_YhcN_YlaJ spor 80.7 8.1 0.00018 28.9 6.4 61 4-66 65-125 (158)
19 PF10934 DUF2634: Protein of u 70.9 19 0.00041 25.1 5.9 40 93-133 67-106 (112)
20 PRK00745 4-oxalocrotonate taut 70.2 21 0.00045 21.5 5.4 44 24-67 4-48 (62)
21 PRK10597 DNA damage-inducible 65.7 37 0.00081 22.6 8.0 70 22-106 3-73 (81)
22 PF00873 ACR_tran: AcrB/AcrD/A 61.8 35 0.00075 32.3 7.4 42 21-63 560-601 (1021)
23 cd00491 4Oxalocrotonate_Tautom 60.7 32 0.0007 20.2 6.1 44 24-67 3-47 (58)
24 PF06183 DinI: DinI-like famil 60.2 14 0.00031 23.4 3.3 28 35-63 4-31 (65)
25 TIGR00013 taut 4-oxalocrotonat 59.5 36 0.00079 20.4 5.9 45 22-67 3-48 (63)
26 PRK02289 4-oxalocrotonate taut 59.2 38 0.00082 20.5 6.0 42 24-65 4-46 (60)
27 KOG1485 Mitochondrial Fe2+ tra 57.0 28 0.0006 30.1 5.3 47 94-141 325-371 (412)
28 PF01883 DUF59: Domain of unkn 55.7 29 0.00063 21.6 4.2 40 17-60 33-72 (72)
29 KOG1484 Putative Zn2+ transpor 55.2 57 0.0012 27.6 6.7 60 2-66 288-348 (354)
30 PF12984 DUF3868: Domain of un 51.7 45 0.00098 23.3 5.0 28 3-30 27-54 (115)
31 PF03389 MobA_MobL: MobA/MobL 50.7 74 0.0016 24.7 6.5 48 16-63 63-110 (216)
32 TIGR03221 muco_delta muconolac 50.2 56 0.0012 22.2 5.0 29 20-48 2-30 (90)
33 TIGR02610 PHA_gran_rgn putativ 50.2 40 0.00086 22.8 4.3 31 23-53 3-33 (91)
34 PRK01964 4-oxalocrotonate taut 48.6 60 0.0013 19.7 5.2 44 24-67 4-48 (64)
35 COG3696 Putative silver efflux 48.1 82 0.0018 30.2 7.2 38 24-62 562-599 (1027)
36 PF01076 Mob_Pre: Plasmid reco 47.8 79 0.0017 24.0 6.2 50 15-64 74-129 (196)
37 PF02426 MIase: Muconolactone 45.3 75 0.0016 21.5 5.1 47 20-68 3-49 (91)
38 COG3965 Predicted Co/Zn/Cd cat 45.2 75 0.0016 26.2 5.8 51 11-62 253-306 (314)
39 PRK02220 4-oxalocrotonate taut 45.1 66 0.0014 19.1 5.3 43 24-66 4-47 (61)
40 PF09650 PHA_gran_rgn: Putativ 43.7 51 0.0011 22.0 4.0 30 24-53 1-30 (87)
41 PF12327 FtsZ_C: FtsZ family, 43.5 38 0.00082 22.8 3.4 35 23-61 40-74 (95)
42 COG2098 Uncharacterized protei 42.7 49 0.0011 23.5 3.9 35 32-67 34-68 (116)
43 TIGR03406 FeS_long_SufT probab 41.8 1.5E+02 0.0033 22.4 7.2 54 8-65 100-156 (174)
44 PRK14637 hypothetical protein; 38.8 1.5E+02 0.0034 21.7 6.3 44 7-50 24-67 (151)
45 PF01514 YscJ_FliF: Secretory 38.0 1.8E+02 0.004 22.3 7.7 80 37-126 113-198 (206)
46 cd04869 ACT_GcvR_2 ACT domains 37.2 1E+02 0.0022 19.1 4.9 41 95-138 11-57 (81)
47 PRK05934 type III secretion sy 36.9 2.6E+02 0.0055 23.6 8.5 86 34-126 66-152 (341)
48 PF10646 Germane: Sporulation 36.9 79 0.0017 21.2 4.3 47 17-63 63-109 (117)
49 smart00796 AHS1 Allophanate hy 35.9 2E+02 0.0043 22.0 7.5 52 12-66 2-60 (201)
50 PF04456 DUF503: Protein of un 35.8 1.2E+02 0.0027 20.2 5.0 33 21-53 4-36 (90)
51 cd04870 ACT_PSP_1 CT domains f 35.3 1.1E+02 0.0024 19.0 5.7 32 6-37 25-56 (75)
52 TIGR00668 apaH bis(5'-nucleosy 34.9 54 0.0012 26.8 3.6 29 22-50 117-145 (279)
53 PRK14641 hypothetical protein; 34.3 1.8E+02 0.004 21.9 6.2 44 7-50 25-68 (173)
54 COG1539 FolB Dihydroneopterin 33.4 1.7E+02 0.0038 20.6 6.4 50 14-63 23-99 (121)
55 cd02413 40S_S3_KH K homology R 31.7 1.2E+02 0.0026 19.8 4.3 58 7-66 19-78 (81)
56 PF02576 DUF150: Uncharacteris 30.9 1.7E+02 0.0037 20.8 5.4 44 7-50 12-55 (141)
57 COG5133 Uncharacterized conser 30.7 1.1E+02 0.0023 23.0 4.2 61 4-64 79-141 (181)
58 cd01790 Herp_N Homocysteine-re 30.5 1.6E+02 0.0035 19.3 4.7 28 11-39 4-31 (79)
59 PHA02754 hypothetical protein; 30.1 1.5E+02 0.0032 18.7 4.4 29 94-125 17-45 (67)
60 cd02411 archeal_30S_S3_KH K ho 30.0 1.6E+02 0.0035 19.1 4.7 56 7-64 27-82 (85)
61 PRK09579 multidrug efflux prot 29.8 3.7E+02 0.0081 25.7 8.7 38 21-59 557-594 (1017)
62 PRK14634 hypothetical protein; 28.8 2.4E+02 0.0052 20.8 6.2 44 7-50 23-68 (155)
63 PF07315 DUF1462: Protein of u 27.9 73 0.0016 21.8 2.7 33 86-122 11-43 (93)
64 TIGR00915 2A0602 The (Largely 27.2 2E+02 0.0044 27.5 6.5 44 19-62 569-613 (1044)
65 PF00368 HMG-CoA_red: Hydroxym 26.3 4.1E+02 0.0088 22.6 8.7 50 7-56 140-189 (373)
66 PF13356 DUF4102: Domain of un 26.3 1.9E+02 0.0041 18.7 5.8 29 22-50 48-76 (89)
67 PRK14647 hypothetical protein; 26.0 2.7E+02 0.0059 20.5 6.6 44 7-50 24-67 (159)
68 PRK14639 hypothetical protein; 25.9 2.6E+02 0.0056 20.2 6.4 45 7-51 13-57 (140)
69 cd00580 CHMI 5-carboxymethyl-2 25.8 2.2E+02 0.0048 19.4 7.6 38 18-55 57-94 (113)
70 PRK00092 ribosome maturation p 25.1 2.7E+02 0.0059 20.2 6.3 44 7-50 23-66 (154)
71 PRK14640 hypothetical protein; 25.1 2.8E+02 0.006 20.3 6.3 44 7-50 22-65 (152)
72 PF00408 PGM_PMM_IV: Phosphogl 23.6 1.9E+02 0.0042 17.9 5.5 35 12-49 39-73 (73)
73 cd04900 ACT_UUR-like_1 ACT dom 23.3 1.9E+02 0.0041 17.8 5.4 45 6-50 27-71 (73)
74 PRK10555 aminoglycoside/multid 23.1 3E+02 0.0065 26.4 6.8 43 20-62 569-612 (1037)
75 PRK15127 multidrug efflux syst 22.7 3E+02 0.0066 26.4 6.8 44 19-62 569-613 (1049)
76 TIGR02768 TraA_Ti Ti-type conj 22.7 3.2E+02 0.007 25.2 6.8 49 15-63 79-127 (744)
77 cd07422 MPP_ApaH Escherichia c 22.6 1.7E+02 0.0036 23.4 4.4 30 21-50 114-143 (257)
78 PRK10503 multidrug efflux syst 22.6 3.1E+02 0.0068 26.3 6.8 43 19-62 567-609 (1040)
79 PRK09577 multidrug efflux prot 22.5 2.9E+02 0.0063 26.5 6.6 41 19-60 566-606 (1032)
80 PF04965 GPW_gp25: Gene 25-lik 21.7 2.2E+02 0.0048 18.5 4.3 44 92-136 45-91 (99)
81 PF03755 YicC_N: YicC-like fam 20.9 2.9E+02 0.0064 20.1 5.2 44 18-66 27-71 (159)
82 PF13193 AMP-binding_C: AMP-bi 20.8 1.9E+02 0.0042 17.6 3.7 24 43-67 1-24 (73)
83 cd04928 ACT_TyrKc Uncharacteri 20.3 2.4E+02 0.0053 17.8 4.9 41 93-136 11-51 (68)
No 1
>COG0053 MMT1 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]
Probab=99.53 E-value=3.7e-14 Score=115.65 Aligned_cols=69 Identities=38% Similarity=0.655 Sum_probs=65.9
Q ss_pred CCCceeeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEeeCCCCCC
Q 032430 2 SLSLQGCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYFQFS 70 (141)
Q Consensus 2 ~~gV~~vh~lr~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~VhidP~~~~~~ 70 (141)
.|||.++|++|+|+.|+.+++|+|++|+++||+.|+|+|+++++++|++.+|.+.+++||+||......
T Consensus 227 ~~~V~~v~~lr~R~~G~~~~id~~i~v~~~ls~~eah~I~~~ie~~i~~~~~~~~~v~IhveP~~~~~~ 295 (304)
T COG0053 227 VPGVKGVHDLRTRKSGSRIFIDVHIEVDPDLSLEEAHEIADEVEKRIKKEFPKVADVTIHVEPLGEKEE 295 (304)
T ss_pred CCcceeeecceeeeeCCeEEEEEEEEECCCCChHHHHHHHHHHHHHHHHhcCCCceEEEEecCCccccc
Confidence 589999999999999999999999999999999999999999999999999988999999999987655
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=99.44 E-value=4e-13 Score=106.24 Aligned_cols=64 Identities=36% Similarity=0.648 Sum_probs=61.8
Q ss_pred CCCceeeeeEEEEeeCC-EEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEeeC
Q 032430 2 SLSLQGCHRLRGRRAGS-SLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPA 65 (141)
Q Consensus 2 ~~gV~~vh~lr~R~~G~-~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~VhidP~ 65 (141)
.|||.++|++|+|+.|+ .+++++|+.+++++|+.|+|++++++++++++++|++.+++||+||+
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=6.8e-13 Score=107.48 Aligned_cols=65 Identities=26% Similarity=0.528 Sum_probs=61.9
Q ss_pred CCCceeeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEeeCCC
Q 032430 2 SLSLQGCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYF 67 (141)
Q Consensus 2 ~~gV~~vh~lr~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~VhidP~~~ 67 (141)
+|||.++|++|+|++|+..++++||.|++++|+.|+|+|+++++++|++++|. .+++||+||++.
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 68999999999999999999999999999999999999999999999999997 679999999764
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=99.27 E-value=3.6e-11 Score=95.53 Aligned_cols=66 Identities=29% Similarity=0.489 Sum_probs=62.6
Q ss_pred CCCceeeeeEEEEeeCC-EEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEeeCCC
Q 032430 2 SLSLQGCHRLRGRRAGS-SLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYF 67 (141)
Q Consensus 2 ~~gV~~vh~lr~R~~G~-~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~VhidP~~~ 67 (141)
.|||.++|++|+|+.|+ .+++++|+.+++++|++|+|++.+++++.+++++|++.+++||++|+..
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 9999999999999999999999999999999999999999999999864
No 5
>PRK03557 zinc transporter ZitB; Provisional
Probab=99.16 E-value=1.7e-10 Score=94.26 Aligned_cols=62 Identities=10% Similarity=0.158 Sum_probs=57.4
Q ss_pred CCCceeeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEeeCCC
Q 032430 2 SLSLQGCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYF 67 (141)
Q Consensus 2 ~~gV~~vh~lr~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~VhidP~~~ 67 (141)
+|||.++|++|+|++|+.+++|+|+.+++++ ++|+|+++++++|+++++ +.+++||+||...
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 6999999999999999999999999999886 679999999999999986 7999999999753
No 6
>KOG1485 consensus Mitochondrial Fe2+ transporter MMT1 and related transporters (cation diffusion facilitator superfamily) [Inorganic ion transport and metabolism]
Probab=98.04 E-value=1.4e-05 Score=67.52 Aligned_cols=64 Identities=34% Similarity=0.591 Sum_probs=59.5
Q ss_pred CCceeeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEeeCCC
Q 032430 3 LSLQGCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYF 67 (141)
Q Consensus 3 ~gV~~vh~lr~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~VhidP~~~ 67 (141)
+.+.+++.+|.+..|..++|++|+.++++++++++|+|++-+++.|.. .|++..+.||+|-+..
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 367889999999999999999999999999999999999999999975 9999999999997665
No 7
>COG1230 CzcD Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]
Probab=97.46 E-value=0.00042 Score=56.71 Aligned_cols=61 Identities=18% Similarity=0.268 Sum_probs=52.7
Q ss_pred CCCceeeeeEEEEee-CCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEeeCC
Q 032430 2 SLSLQGCHRLRGRRA-GSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAY 66 (141)
Q Consensus 2 ~~gV~~vh~lr~R~~-G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~VhidP~~ 66 (141)
.|||.++|++++|.. ++.....+|+.+++...-++ +.+.+++.+.++|. +.++||++|+..
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 66999999999996655555 88999999988886 899999998753
No 8
>KOG1482 consensus Zn2+ transporter [Inorganic ion transport and metabolism]
Probab=96.95 E-value=0.0035 Score=52.64 Aligned_cols=64 Identities=23% Similarity=0.298 Sum_probs=55.8
Q ss_pred CCCceeeeeEEEEeeCC-EEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEeeCCCCC
Q 032430 2 SLSLQGCHRLRGRRAGS-SLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYFQF 69 (141)
Q Consensus 2 ~~gV~~vh~lr~R~~G~-~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~VhidP~~~~~ 69 (141)
++||..||+|++|...- +..+.+||.+++ -+++..|-+++.+.|+++|. +.++||++||.....
T Consensus 306 iegV~~VHdLhIWsiTv~k~~ls~Hv~i~~---~ad~~~vL~~~~~~i~~~~~-~~~vTiQie~~~~~~ 370 (379)
T KOG1482|consen 306 IEGVKAVHDLHIWSITVGKVALSVHLAIDS---EADAEEVLDEARSLIKRRYG-ISHVTIQIEPYTEEM 370 (379)
T ss_pred hcceeEEEEEEEEEEecCceEEEEEEeecC---CCCHHHHHHHHHHHHHhhcc-eEEEEEEecCCccch
Confidence 58999999999999954 888999999995 46777888999999999997 799999999987643
No 9
>KOG1483 consensus Zn2+ transporter ZNT1 and related Cd2+/Zn2+ transporters (cation diffusion facilitator superfamily) [Inorganic ion transport and metabolism]
Probab=95.30 E-value=0.073 Score=45.12 Aligned_cols=57 Identities=18% Similarity=0.272 Sum_probs=46.1
Q ss_pred CCCceeeeeEEEEee-CCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEe
Q 032430 2 SLSLQGCHRLRGRRA-GSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHID 63 (141)
Q Consensus 2 ~~gV~~vh~lr~R~~-G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~Vhid 63 (141)
+|||..||++.+|+. |.++...+||++.-- .+--++++.|+.-.++ ++ |..+||+.|
T Consensus 311 ~~gv~~vh~lhvWqL~~~r~IAt~Hi~~~~p---~~~~~~a~~ir~~fh~-~G-Ihs~TiqPe 368 (404)
T KOG1483|consen 311 VPGVISVHDLHVWQLAGSRIIATIHIQIQNP---KEYMKIAEKIRSYFHD-QG-IHSTTIQPE 368 (404)
T ss_pred CcceeeeeeeeeeeeccceEEEEEEEEecCc---HHHHHHHHHHHHHHHh-cC-Ccceeeccc
Confidence 799999999999999 889999999999652 2333899999888875 55 788887554
No 10
>PRK09509 fieF ferrous iron efflux protein F; Reviewed
Probab=93.88 E-value=0.12 Score=41.76 Aligned_cols=45 Identities=7% Similarity=0.246 Sum_probs=38.7
Q ss_pred hHHHHHHHHhcccCCCCcccccEEEEEeCCeEEEEEEEEcCCCCcC
Q 032430 95 DIDAVVYNTLSTKFPEKMGVERITHHLLHGKILLEVEVSMSPDTSI 140 (141)
Q Consensus 95 ~i~~~l~~~~~~~~~~~~~v~~v~lhy~~~~~~v~v~~~~~~~~~i 140 (141)
+..++++..+.+ +|...+++++..++.+.+..+++++.+++++++
T Consensus 213 ~~~~~I~~~i~~-~~~v~~v~~l~~~~~G~~~~v~v~i~v~~~~~~ 257 (299)
T PRK09509 213 EERQEIIDIVTS-WPGVSGAHDLRTRQSGPTRFIQLHLEMEDNLPL 257 (299)
T ss_pred HHHHHHHHHHHh-CCCCcCceeeeeEeeCCeEEEEEEEEECCCCCH
Confidence 455677777766 788889999999999999999999999999985
No 11
>COG0053 MMT1 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]
Probab=93.32 E-value=0.2 Score=41.05 Aligned_cols=44 Identities=18% Similarity=0.335 Sum_probs=36.4
Q ss_pred HHHHHHHHhcccCCCCcccccEEEEEeCCeEEEEEEEEcCCCCcC
Q 032430 96 IDAVVYNTLSTKFPEKMGVERITHHLLHGKILLEVEVSMSPDTSI 140 (141)
Q Consensus 96 i~~~l~~~~~~~~~~~~~v~~v~lhy~~~~~~v~v~~~~~~~~~i 140 (141)
..+.++.++.+ .|....+|++..++.+++++++++++++++|++
T Consensus 216 ~~~~i~~~i~~-~~~V~~v~~lr~R~~G~~~~id~~i~v~~~ls~ 259 (304)
T COG0053 216 DLEKIRAIILS-VPGVKGVHDLRTRKSGSRIFIDVHIEVDPDLSL 259 (304)
T ss_pred HHHHHHHHHhc-CCcceeeecceeeeeCCeEEEEEEEEECCCCCh
Confidence 44445555554 567789999999999999999999999999986
No 12
>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=93.02 E-value=0.2 Score=39.40 Aligned_cols=42 Identities=21% Similarity=0.434 Sum_probs=34.5
Q ss_pred HHHHHhcccCCCCcccccEEEEEeCC-eEEEEEEEEcCCCCcCC
Q 032430 99 VVYNTLSTKFPEKMGVERITHHLLHG-KILLEVEVSMSPDTSIR 141 (141)
Q Consensus 99 ~l~~~~~~~~~~~~~v~~v~lhy~~~-~~~v~v~~~~~~~~~i~ 141 (141)
++++.+.+ .|...+++++.+++.++ +..+++++.+|++++++
T Consensus 196 ~i~~~i~~-~~~v~~v~~~~~~~~G~~~~~v~~~v~v~~~~~~~ 238 (268)
T TIGR01297 196 EIKKAILS-IPGVKGVHDLHIWRIGPGKLFLDVHVVVDPDLDLK 238 (268)
T ss_pred HHHHHHhc-CCCcccceEeEEEEcCCCCEEEEEEEEECCCCChh
Confidence 34444444 67778999999999998 99999999999999863
No 13
>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=90.65 E-value=3.7 Score=27.55 Aligned_cols=62 Identities=15% Similarity=0.137 Sum_probs=51.1
Q ss_pred CCCceeeeeEEEEeeCCEEEEEEEEEECCCCC--HHHHHHHHHHHHHHHHhhCCCeeEEEEEEeeC
Q 032430 2 SLSLQGCHRLRGRRAGSSLYLDVHIVVDPFSS--VSAAHGVGENVRHQIHKSHPEVSEVFIHIDPA 65 (141)
Q Consensus 2 ~~gV~~vh~lr~R~~G~~~~vd~hI~V~~~ls--v~eah~I~~~ve~~l~~~~p~v~dv~VhidP~ 65 (141)
+||+..-..+.+.+.|+.=.+.+.+++.+..+ ..+..+++++++++|+..+. + .+.|++-|.
T Consensus 16 ~~~~~~~y~i~v~~~~~~D~l~v~vE~~~~~~~~~~~~~~l~~~i~~~lk~~lg-v-~~~V~lv~~ 79 (96)
T PF14535_consen 16 FPEVSPEYQIVVTREGGLDELTVRVELRPGFSDDAEDLEALAERIAERLKERLG-V-RPEVELVPP 79 (96)
T ss_dssp STTEEEEEEEEEEEETTEEEEEEEEEESTTCCTTHHHHHHHHHHHHHHHHHHHS-S--EEEEEE-T
T ss_pred CcCCCCcEEEEEEcCCCCcEEEEEEEECCccCcchHHHHHHHHHHHHHHHhhcC-c-eEEEEEECC
Confidence 68888889999999999989999999999874 57888999999999999887 3 466666654
No 14
>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=89.09 E-value=0.98 Score=35.60 Aligned_cols=46 Identities=17% Similarity=0.349 Sum_probs=38.7
Q ss_pred hhHHHHHHHHhcccCCCCcccccEEEEEeCC-eEEEEEEEEcCCCCcC
Q 032430 94 LDIDAVVYNTLSTKFPEKMGVERITHHLLHG-KILLEVEVSMSPDTSI 140 (141)
Q Consensus 94 ~~i~~~l~~~~~~~~~~~~~v~~v~lhy~~~-~~~v~v~~~~~~~~~i 140 (141)
++..++++..+.+ .|....++++.+.+.+. +..+++++.+++++++
T Consensus 204 ~~~~~~i~~~i~~-~~~v~~v~~~~~~~~g~~~~~v~i~v~v~~~~~v 250 (284)
T PF01545_consen 204 PELVEKIRRIIES-VPGVIEVHDLRVWQVGRNKYVVEIHVQVDPDMSV 250 (284)
T ss_dssp HHHHHHHHHHHHH-TSS-SEEEEEEEEEETT-EEEEEEEEEETTTSBH
T ss_pred ccchhHHHHhhcc-CCceEeccceEEEEecCCcEEEEEEEEeCCCCCH
Confidence 4556777777766 77889999999999999 9999999999999875
No 15
>PRK03557 zinc transporter ZitB; Provisional
Probab=88.17 E-value=1.4 Score=36.04 Aligned_cols=31 Identities=19% Similarity=0.359 Sum_probs=28.6
Q ss_pred CCCCcccccEEEEEeCCeEEEEEEEEcCCCC
Q 032430 108 FPEKMGVERITHHLLHGKILLEVEVSMSPDT 138 (141)
Q Consensus 108 ~~~~~~v~~v~lhy~~~~~~v~v~~~~~~~~ 138 (141)
+|....+|++.+.+.+++..+++++.+++++
T Consensus 233 ~~gV~~vh~l~~~~~G~~~~v~~hv~v~~~~ 263 (312)
T PRK03557 233 IPEVRNVHHVHVWMVGEKPVMTLHVQVIPPH 263 (312)
T ss_pred CCCceeEEEEEEEEeCCeEEEEEEEEECCCC
Confidence 7788999999999999999999999998775
No 16
>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=82.71 E-value=12 Score=25.16 Aligned_cols=53 Identities=23% Similarity=0.410 Sum_probs=37.8
Q ss_pred EEEEee-CCEEEEEEEEEECCCCCHHHH-HHHHHHHHHHHHhhCC-CeeEEEEEEe
Q 032430 11 LRGRRA-GSSLYLDVHIVVDPFSSVSAA-HGVGENVRHQIHKSHP-EVSEVFIHID 63 (141)
Q Consensus 11 lr~R~~-G~~~~vd~hI~V~~~lsv~ea-h~I~~~ve~~l~~~~p-~v~dv~Vhid 63 (141)
++++.. ++.+.+++++.+....++.+. .++-+++++.|..-.+ .+.+|.|++.
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 567766 899999999999999988764 3466666666654322 2456667664
No 17
>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=82.15 E-value=4.5 Score=29.96 Aligned_cols=58 Identities=14% Similarity=0.287 Sum_probs=46.7
Q ss_pred CceeeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEeeC
Q 032430 4 SLQGCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPA 65 (141)
Q Consensus 4 gV~~vh~lr~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~VhidP~ 65 (141)
.+.+|.+..+--+|..++|=+.+. .. -.....|...|+++++..+|.+.+|.|..||.
T Consensus 86 ~~~~V~~A~vvv~~~~a~Vav~~~-~~---~~~~~~i~~~V~~~v~~~~p~~~~V~Vs~D~~ 143 (177)
T PF09580_consen 86 KVPGVEDATVVVTDDNAYVAVDLD-FN---RFNTKKIKKKVEKAVKSADPRIYNVYVSTDPD 143 (177)
T ss_pred cCCCceEEEEEEECCEEEEEEEec-cc---ccchhHHHHHHHHHHHHhCCCccEEEEEcCHH
Confidence 455677778888899999988887 32 34556899999999999999989999988875
No 18
>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=80.68 E-value=8.1 Score=28.89 Aligned_cols=61 Identities=16% Similarity=0.268 Sum_probs=49.7
Q ss_pred CceeeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEeeCC
Q 032430 4 SLQGCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAY 66 (141)
Q Consensus 4 gV~~vh~lr~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~VhidP~~ 66 (141)
.+-+|.+..+--+|...+|=+ .++.+.--+.+.+|...|++++++..|.+.+|.|-.+|.-
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 455677778888999888765 5566666777899999999999998999999999888753
No 19
>PF10934 DUF2634: Protein of unknown function (DUF2634); InterPro: IPR020288 This entry is represented by the Bacteriophage EJ-1, Orf60. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Bacteriophage EJ-1, Orf60 function has not been characterised. It has been shown to be simialr to XkdS (P54331 from SWISSPROT), which is encoded on a phage-like element (prophage) of PSBX found in Bacillus subtilis.
Probab=70.89 E-value=19 Score=25.13 Aligned_cols=40 Identities=15% Similarity=0.232 Sum_probs=35.1
Q ss_pred hhhHHHHHHHHhcccCCCCcccccEEEEEeCCeEEEEEEEE
Q 032430 93 DLDIDAVVYNTLSTKFPEKMGVERITHHLLHGKILLEVEVS 133 (141)
Q Consensus 93 ~~~i~~~l~~~~~~~~~~~~~v~~v~lhy~~~~~~v~v~~~ 133 (141)
..++++.++.+|.. -|....|+++.+.+.++.+.+++.+.
T Consensus 67 ~sEi~r~I~EaL~~-d~rI~~V~~f~f~~~~~~l~v~f~V~ 106 (112)
T PF10934_consen 67 ESEIEREIEEALLQ-DPRITSVENFSFEWEGDSLYVSFTVT 106 (112)
T ss_pred HHHHHHHHHHHHhc-CCCcceEEEEEEEEECCEEEEEEEEE
Confidence 56788899999877 58899999999999999999988875
No 20
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=70.23 E-value=21 Score=21.53 Aligned_cols=44 Identities=16% Similarity=0.018 Sum_probs=34.7
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHhhCC-CeeEEEEEEeeCCC
Q 032430 24 VHIVVDPFSSVSAAHGVGENVRHQIHKSHP-EVSEVFIHIDPAYF 67 (141)
Q Consensus 24 ~hI~V~~~lsv~eah~I~~~ve~~l~~~~p-~v~dv~VhidP~~~ 67 (141)
++|.+.+..|.++-.++++.+.+.+.+.++ .-.+++|-+.....
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 466777778999999999999999998876 33678887776544
No 21
>PRK10597 DNA damage-inducible protein I; Provisional
Probab=65.70 E-value=37 Score=22.61 Aligned_cols=70 Identities=16% Similarity=0.193 Sum_probs=43.5
Q ss_pred EEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCee-EEEEEEeeCCCCCCCCcccccccccccCCCCCCCCchhhHHHHH
Q 032430 22 LDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVS-EVFIHIDPAYFQFSPSTMDQLGLEGCKAHSSNICVDDLDIDAVV 100 (141)
Q Consensus 22 vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~-dv~VhidP~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~i~~~l 100 (141)
|++.+.=...++-.....|..++.++|...||+.. +|.|. +.....-+ ..|.. .. ..+.|.+.|
T Consensus 3 VEi~~dK~~~lp~ga~~AL~~EL~kRl~~~fPd~~~~v~Vr--~~s~n~ls-------v~g~~----k~--dK~~i~eiL 67 (81)
T PRK10597 3 IEVTIAKTSPLPAGAIDALAGELSRRIQYAFPDNEGHVSVR--YAAANNLS-------VIGAT----KE--DKDRISEIL 67 (81)
T ss_pred EEEEEecCCCCChhHHHHHHHHHHHHHHhhCCCCCccEEEe--ecCCCceE-------ecCCC----cc--hHHHHHHHH
Confidence 34444334567777788899999999999999732 35554 43332221 11111 11 477899999
Q ss_pred HHHhcc
Q 032430 101 YNTLST 106 (141)
Q Consensus 101 ~~~~~~ 106 (141)
...|..
T Consensus 68 qE~we~ 73 (81)
T PRK10597 68 QETWES 73 (81)
T ss_pred HHHHhC
Confidence 988875
No 22
>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=61.79 E-value=35 Score=32.28 Aligned_cols=42 Identities=19% Similarity=0.296 Sum_probs=36.3
Q ss_pred EEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEe
Q 032430 21 YLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHID 63 (141)
Q Consensus 21 ~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~Vhid 63 (141)
.+.+++..|++.|+++..++++++++.|+ +.|++.+++..+-
T Consensus 560 ~~~v~v~lp~Gtsle~t~~~~~~ve~~L~-~~p~V~~v~s~vG 601 (1021)
T PF00873_consen 560 EFYVSVELPPGTSLEETDAIVKQVEDILK-EDPEVKSVSSRVG 601 (1021)
T ss_dssp EEEEEEEESTTC-HHHHHHHHHHHHHHHH-TTTTEEEEEEEES
T ss_pred ceEEEEeeccCchHHHHHHHHHHHHHHHH-hhhhhhccceEec
Confidence 57889999999999999999999999888 6899988887663
No 23
>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=60.72 E-value=32 Score=20.19 Aligned_cols=44 Identities=14% Similarity=0.047 Sum_probs=32.9
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHhhCC-CeeEEEEEEeeCCC
Q 032430 24 VHIVVDPFSSVSAAHGVGENVRHQIHKSHP-EVSEVFIHIDPAYF 67 (141)
Q Consensus 24 ~hI~V~~~lsv~eah~I~~~ve~~l~~~~p-~v~dv~VhidP~~~ 67 (141)
++|.+.+..|.++-.++++.+.+.+.+.++ .-.+++|.++....
T Consensus 3 i~i~~~~grt~eqk~~l~~~i~~~l~~~~g~~~~~v~V~i~e~~~ 47 (58)
T cd00491 3 VQIYILEGRTDEQKRELIERVTEAVSEILGAPEATIVVIIDEMPK 47 (58)
T ss_pred EEEEEcCCCCHHHHHHHHHHHHHHHHHHhCcCcccEEEEEEEeCc
Confidence 456666667899999999999999988762 12678888876543
No 24
>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=60.25 E-value=14 Score=23.42 Aligned_cols=28 Identities=18% Similarity=0.408 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHhhCCCeeEEEEEEe
Q 032430 35 SAAHGVGENVRHQIHKSHPEVSEVFIHID 63 (141)
Q Consensus 35 ~eah~I~~~ve~~l~~~~p~v~dv~Vhid 63 (141)
.....|..++.++|...||+ ..|.|..-
T Consensus 4 ga~~AL~~EL~kRl~~~yPd-~~v~Vr~~ 31 (65)
T PF06183_consen 4 GALEALESELTKRLHRQYPD-AEVRVRPG 31 (65)
T ss_dssp THHHHHHHHHHHHHHHH-SS--EEEEEEE
T ss_pred cHHHHHHHHHHHHHHHHCCC-ceEeeeec
Confidence 34567889999999999998 66776643
No 25
>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=59.55 E-value=36 Score=20.42 Aligned_cols=45 Identities=11% Similarity=0.128 Sum_probs=32.8
Q ss_pred EEEEEEECCCCCHHHHHHHHHHHHHHHHhhCC-CeeEEEEEEeeCCC
Q 032430 22 LDVHIVVDPFSSVSAAHGVGENVRHQIHKSHP-EVSEVFIHIDPAYF 67 (141)
Q Consensus 22 vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p-~v~dv~VhidP~~~ 67 (141)
+++++. ++..|.++-.++...+.+.+.+.++ .-.+++|.++..+.
T Consensus 3 i~i~i~-~~grt~eqK~~l~~~it~~l~~~lg~~~~~v~V~i~e~~~ 48 (63)
T TIGR00013 3 VNIYIL-KEGRTDEQKRQLIEGVTEAMAETLGANLESIVVIIDEMPK 48 (63)
T ss_pred EEEEEC-CCCCCHHHHHHHHHHHHHHHHHHhCCCcccEEEEEEEcCH
Confidence 344444 3678999999999999999998873 12577777775544
No 26
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=59.15 E-value=38 Score=20.53 Aligned_cols=42 Identities=12% Similarity=0.128 Sum_probs=34.0
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHhhCCC-eeEEEEEEeeC
Q 032430 24 VHIVVDPFSSVSAAHGVGENVRHQIHKSHPE-VSEVFIHIDPA 65 (141)
Q Consensus 24 ~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~-v~dv~VhidP~ 65 (141)
+++.+.++.|-++-.++++.+.+.+.+.++. ...|+|-+...
T Consensus 4 i~i~~~~Grs~EqK~~L~~~it~a~~~~~~~p~~~v~V~i~ev 46 (60)
T PRK02289 4 VRIDLFEGRSQEQKNALAREVTEVVSRIAKAPKEAIHVFINDM 46 (60)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHHHhCcCcceEEEEEEEe
Confidence 4778888889999999999999999998864 35677766644
No 27
>KOG1485 consensus Mitochondrial Fe2+ transporter MMT1 and related transporters (cation diffusion facilitator superfamily) [Inorganic ion transport and metabolism]
Probab=57.00 E-value=28 Score=30.06 Aligned_cols=47 Identities=13% Similarity=0.217 Sum_probs=38.1
Q ss_pred hhHHHHHHHHhcccCCCCcccccEEEEEeCCeEEEEEEEEcCCCCcCC
Q 032430 94 LDIDAVVYNTLSTKFPEKMGVERITHHLLHGKILLEVEVSMSPDTSIR 141 (141)
Q Consensus 94 ~~i~~~l~~~~~~~~~~~~~v~~v~lhy~~~~~~v~v~~~~~~~~~i~ 141 (141)
+.++......|..+ ..+..+..+...+.+....|++++.+|++|+++
T Consensus 325 e~L~~~~~~~l~~~-~~i~~idtv~~y~~g~~~~Vev~ivl~~~~~l~ 371 (412)
T KOG1485|consen 325 EYLEIITYLILQHG-KLIKHIDTVRAYTFGSHYFVEVHIVLDEDLSLS 371 (412)
T ss_pred HHHHHHHHHHHhhc-CccccceeeeeecccceEEEEEeeecCCCCccH
Confidence 45666677777764 466788888889999999999999999999863
No 28
>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=55.72 E-value=29 Score=21.61 Aligned_cols=40 Identities=23% Similarity=0.458 Sum_probs=26.4
Q ss_pred CCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEE
Q 032430 17 GSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFI 60 (141)
Q Consensus 17 G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~V 60 (141)
|+.+.+.+.+.- + .-.....+.+.++++|. .+|++..|.|
T Consensus 33 ~~~V~v~l~l~~-~--~~~~~~~l~~~i~~~l~-~l~gv~~V~V 72 (72)
T PF01883_consen 33 GGKVSVSLELPT-P--ACPAAEPLREEIREALK-ALPGVKSVKV 72 (72)
T ss_dssp TCEEEEEE--SS-T--THTTHHHHHHHHHHHHH-TSTT-SEEEE
T ss_pred CCEEEEEEEECC-C--CchHHHHHHHHHHHHHH-hCCCCceEeC
Confidence 566666544432 2 23377889999999998 7888887765
No 29
>KOG1484 consensus Putative Zn2+ transporter MSC2 (cation diffusion facilitator superfamily) [Inorganic ion transport and metabolism]
Probab=55.19 E-value=57 Score=27.56 Aligned_cols=60 Identities=12% Similarity=0.122 Sum_probs=46.1
Q ss_pred CCCceeeeeEEEEeeCC-EEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEeeCC
Q 032430 2 SLSLQGCHRLRGRRAGS-SLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAY 66 (141)
Q Consensus 2 ~~gV~~vh~lr~R~~G~-~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~VhidP~~ 66 (141)
.+||.++.+-|.|..+. .+...+|++|.++.. -+.+...+.+++.. . +|.+.||+++-++
T Consensus 288 ~~gV~~v~~~hFWt~~~g~~vGtlhl~V~~dad---e~~vl~~V~~~~~~-~-gV~~ltvQv~~~~ 348 (354)
T KOG1484|consen 288 LDGVTSVQNPHFWTLESGSVVGTLHLQVSSDAD---EQSVLAHVTRKLED-A-GVKDLTVQVEKEN 348 (354)
T ss_pred cccceeeccCceeeccCCceEEEEEEEEecCcc---hhHHHHHHHHHHHh-c-ceeEEEEEEeccc
Confidence 58999999999999977 488889999998754 34556666666654 3 3789999977544
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=51.67 E-value=45 Score=23.32 Aligned_cols=28 Identities=18% Similarity=0.205 Sum_probs=25.1
Q ss_pred CCceeeeeEEEEeeCCEEEEEEEEEECC
Q 032430 3 LSLQGCHRLRGRRAGSSLYLDVHIVVDP 30 (141)
Q Consensus 3 ~gV~~vh~lr~R~~G~~~~vd~hI~V~~ 30 (141)
.|-+.|.+.++.+.|+.++|++.+.+++
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 4667889999999999999999999976
No 31
>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=50.73 E-value=74 Score=24.67 Aligned_cols=48 Identities=13% Similarity=0.073 Sum_probs=35.3
Q ss_pred eCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEe
Q 032430 16 AGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHID 63 (141)
Q Consensus 16 ~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~Vhid 63 (141)
..+.+.=++.|.+|..||.++--+++...-+......+-+.++.||-+
T Consensus 63 kna~~are~~iALP~EL~~eq~~~L~~~f~~~~~~~~G~~~d~aIH~d 110 (216)
T PF03389_consen 63 KNARLAREFEIALPRELTLEQNIELVREFAQENFVDYGMAADVAIHDD 110 (216)
T ss_dssp TTS--EEEEEEE--TTS-HHHHHHHHHHHHHHHHTTTT--EEEEEEEE
T ss_pred CCCeEeeeeeeeCCccCCHHHHHHHHHHHHHHHhhccceEEEEEEecC
Confidence 345677789999999999999999999999997777777799999963
No 32
>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=50.24 E-value=56 Score=22.24 Aligned_cols=29 Identities=3% Similarity=0.000 Sum_probs=23.9
Q ss_pred EEEEEEEEECCCCCHHHHHHHHHHHHHHH
Q 032430 20 LYLDVHIVVDPFSSVSAAHGVGENVRHQI 48 (141)
Q Consensus 20 ~~vd~hI~V~~~lsv~eah~I~~~ve~~l 48 (141)
++|++++.+|++++.+++.+|..+=++.-
T Consensus 2 flV~m~V~~P~~~~~~~~~~i~a~Eka~a 30 (90)
T TIGR03221 2 FHVRMDVNLPVDMPAEKAAAIKAREKAYA 30 (90)
T ss_pred eEEEEEeeCCCCCCHHHHHHHHHHHHHHH
Confidence 68999999999999999999876544433
No 33
>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=50.17 E-value=40 Score=22.79 Aligned_cols=31 Identities=13% Similarity=0.150 Sum_probs=29.1
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHhhCC
Q 032430 23 DVHIVVDPFSSVSAAHGVGENVRHQIHKSHP 53 (141)
Q Consensus 23 d~hI~V~~~lsv~eah~I~~~ve~~l~~~~p 53 (141)
+++|..|-.+..++|.+.++.+.+.+.++|.
T Consensus 3 ~I~I~r~H~Lg~~eAr~~~e~~a~~l~~~~~ 33 (91)
T TIGR02610 3 SISVERDHSLGPAAARAKAEDLARKLTDRYG 33 (91)
T ss_pred ceEEEecCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 6899999999999999999999999999885
No 34
>PRK01964 4-oxalocrotonate tautomerase; Provisional
Probab=48.62 E-value=60 Score=19.68 Aligned_cols=44 Identities=11% Similarity=-0.006 Sum_probs=33.2
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHhhCCC-eeEEEEEEeeCCC
Q 032430 24 VHIVVDPFSSVSAAHGVGENVRHQIHKSHPE-VSEVFIHIDPAYF 67 (141)
Q Consensus 24 ~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~-v~dv~VhidP~~~ 67 (141)
++|.+.+..|.++-.++.+.+.+.+.+.++- -.++.|-+.....
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 4666666789999999999999999887641 1577777776544
No 35
>COG3696 Putative silver efflux pump [Inorganic ion transport and metabolism]
Probab=48.11 E-value=82 Score=30.19 Aligned_cols=38 Identities=24% Similarity=0.235 Sum_probs=32.9
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEE
Q 032430 24 VHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHI 62 (141)
Q Consensus 24 ~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~Vhi 62 (141)
......|..|++++-+....+++.++ +||++..|.-.+
T Consensus 562 ~~~~~~Pg~Sl~~~~~m~~~~e~~ik-~~PeV~~V~~k~ 599 (1027)
T COG3696 562 YMPLTIPGVSLDEALRMLQAIERAIK-KFPEVERVFGKT 599 (1027)
T ss_pred eeeccCCCCCHHHHHHHHHHHHHHHh-cCcchheeeecc
Confidence 45567899999999999999999998 799998887655
No 36
>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=47.83 E-value=79 Score=23.96 Aligned_cols=50 Identities=14% Similarity=0.179 Sum_probs=40.4
Q ss_pred eeCCEEEEEEEEEECC----CCCHHHHHHHHHHHHHHHHhhCC--CeeEEEEEEee
Q 032430 15 RAGSSLYLDVHIVVDP----FSSVSAAHGVGENVRHQIHKSHP--EVSEVFIHIDP 64 (141)
Q Consensus 15 ~~G~~~~vd~hI~V~~----~lsv~eah~I~~~ve~~l~~~~p--~v~dv~VhidP 64 (141)
+....+.+++-|..++ .++-++..+..+..-+-+.++|| +|..+.||.|-
T Consensus 74 Rkdav~~~e~iit~~~e~~~~~~~e~~~~~~~~~~~~~~~r~g~~ni~~a~vH~DE 129 (196)
T PF01076_consen 74 RKDAVLAIEFIITASPEFFNDLDPEQQKRWFEDSLEWLQERYGNENIVSAVVHLDE 129 (196)
T ss_pred cccceeEEEEEEeCChHHhcchhhHHHHHHHHHHHHHHHHHCCchhEEEEEEECCC
Confidence 4455788899999887 56778888888888889999999 67778888873
No 37
>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=45.26 E-value=75 Score=21.53 Aligned_cols=47 Identities=6% Similarity=0.065 Sum_probs=30.8
Q ss_pred EEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEeeCCCC
Q 032430 20 LYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYFQ 68 (141)
Q Consensus 20 ~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~VhidP~~~~ 68 (141)
++|.+++.+|++++..++.++..+=++...+-. . .-...|+--..+.
T Consensus 3 flv~m~v~~P~~~~~~~~~~~~a~E~~~a~eLq-~-~G~~~~lWr~~G~ 49 (91)
T PF02426_consen 3 FLVRMTVNVPPDMPPEEVDRLKAREKARAQELQ-R-QGKWRHLWRVVGR 49 (91)
T ss_pred EEEEEEeeCCCCCCHHHHHHHHHHHHHHHHHHH-H-CCeeeEEEEecCC
Confidence 689999999999999999988765544433211 1 1244555544443
No 38
>COG3965 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]
Probab=45.25 E-value=75 Score=26.16 Aligned_cols=51 Identities=14% Similarity=0.281 Sum_probs=36.1
Q ss_pred EEEEeeCCEEEEEEEEEECCCCC---HHHHHHHHHHHHHHHHhhCCCeeEEEEEE
Q 032430 11 LRGRRAGSSLYLDVHIVVDPFSS---VSAAHGVGENVRHQIHKSHPEVSEVFIHI 62 (141)
Q Consensus 11 lr~R~~G~~~~vd~hI~V~~~ls---v~eah~I~~~ve~~l~~~~p~v~dv~Vhi 62 (141)
.++-|.|...+||+|..+|+++. +++-.+|-+++...|...-++ .-+||.+
T Consensus 253 ~yvArVGr~l~IEi~fiip~~~~ar~Ved~d~Irdei~~slg~~g~~-rwltvsf 306 (314)
T COG3965 253 VYVARVGRGLFIEIHFIIPRESDARNVEDWDDIRDEIGQSLGSLGYE-RWLTVSF 306 (314)
T ss_pred HHHHHhccceEEEEEEEeCCccCCccchhHHHHHHHHHHHhhcCCcC-ceEEEEE
Confidence 34557799999999999988876 555666777777777654333 4455544
No 39
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=45.11 E-value=66 Score=19.12 Aligned_cols=43 Identities=14% Similarity=0.159 Sum_probs=33.3
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHhhCCC-eeEEEEEEeeCC
Q 032430 24 VHIVVDPFSSVSAAHGVGENVRHQIHKSHPE-VSEVFIHIDPAY 66 (141)
Q Consensus 24 ~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~-v~dv~VhidP~~ 66 (141)
++|.+-+..|.++-.++...+.+.+.+.++- ..+++|-+...+
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 4567667789999999999999999988753 357777776543
No 40
>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=43.67 E-value=51 Score=21.95 Aligned_cols=30 Identities=13% Similarity=0.100 Sum_probs=27.9
Q ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHhhCC
Q 032430 24 VHIVVDPFSSVSAAHGVGENVRHQIHKSHP 53 (141)
Q Consensus 24 ~hI~V~~~lsv~eah~I~~~ve~~l~~~~p 53 (141)
++|..+-+++.++|.+.++..-.++.++|+
T Consensus 1 I~I~r~H~Lg~~eAr~~~~~~~~~l~~~~~ 30 (87)
T PF09650_consen 1 IHIERPHSLGREEARRRAEELAEKLAEEYG 30 (87)
T ss_pred CeEEecCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 478899999999999999999999999997
No 41
>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=43.45 E-value=38 Score=22.79 Aligned_cols=35 Identities=23% Similarity=0.278 Sum_probs=25.2
Q ss_pred EEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEE
Q 032430 23 DVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIH 61 (141)
Q Consensus 23 d~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~Vh 61 (141)
=+++...+++|++|..++.+.+++.+. ++ .++.+-
T Consensus 40 Lvni~~~~d~~l~ev~~~~~~i~~~~~---~~-a~ii~G 74 (95)
T PF12327_consen 40 LVNITGGPDLSLSEVNEAMEIIREKAD---PD-ANIIWG 74 (95)
T ss_dssp EEEEEE-TTS-HHHHHHHHHHHHHHSS---TT-SEEEEE
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHhh---cC-ceEEEE
Confidence 356778899999999999999988875 33 455543
No 42
>COG2098 Uncharacterized protein conserved in archaea [Function unknown]
Probab=42.65 E-value=49 Score=23.47 Aligned_cols=35 Identities=20% Similarity=0.241 Sum_probs=27.9
Q ss_pred CCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEeeCCC
Q 032430 32 SSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPAYF 67 (141)
Q Consensus 32 lsv~eah~I~~~ve~~l~~~~p~v~dv~VhidP~~~ 67 (141)
.|..-+..+...|++.++- .|.+.|+-|+|++...
T Consensus 34 vs~~~a~~le~aI~esi~~-QP~v~daeV~Id~~~~ 68 (116)
T COG2098 34 VSPGTAESLEKAIEESIKV-QPFVEDAEVKIDRDKE 68 (116)
T ss_pred CCccchHHHHHHHHHHHhc-CCceeeEEEEeccccc
Confidence 4556677788888888874 6999999999998743
No 43
>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=41.83 E-value=1.5e+02 Score=22.36 Aligned_cols=54 Identities=13% Similarity=0.138 Sum_probs=35.6
Q ss_pred eeeEEEEe---eCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEeeC
Q 032430 8 CHRLRGRR---AGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDPA 65 (141)
Q Consensus 8 vh~lr~R~---~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~VhidP~ 65 (141)
|+++.+.. .++.+.|++.+..+. -.....+.+.++++|.. +|++.+|.|.+...
T Consensus 100 V~~I~Id~~~~~~~~V~I~mtLt~p~---c~~~~~L~~dV~~aL~~-l~gV~~V~V~l~~d 156 (174)
T TIGR03406 100 VYGCRVEKLGEGQFRVDIEMTLTAPG---CGMGPVLVEDVEDKVLA-VPNVDEVEVELVFD 156 (174)
T ss_pred eEEEEEecccCCCCEEEEEEEeCCCC---CcHHHHHHHHHHHHHHh-CCCceeEEEEEEec
Confidence 45566655 122666666665544 45677788999999974 67788877766543
No 44
>PRK14637 hypothetical protein; Provisional
Probab=38.78 E-value=1.5e+02 Score=21.72 Aligned_cols=44 Identities=9% Similarity=-0.061 Sum_probs=37.8
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032430 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (141)
Q Consensus 7 ~vh~lr~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~ 50 (141)
.+.++...+.|+...+.+.|.-+..+|+.+.-+++..|...|-.
T Consensus 24 eLvdve~~~~~~~~~lrV~ID~~~gV~iddC~~vSr~Is~~LD~ 67 (151)
T PRK14637 24 KLVDLSRRVQQAQGRVRAVIYSAGGVGLDDCARVHRILVPRLEA 67 (151)
T ss_pred EEEEEEEEecCCCcEEEEEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence 46788888888988888888888889999999999999888854
No 45
>PF01514 YscJ_FliF: Secretory protein of YscJ/FliF family; InterPro: IPR006182 This domain is found in proteins that are related to the YscJ lipoprotein, where it covers most of the sequence, and the flagellar M-ring protein FliF, where it covers the N-terminal region. The members of the YscJ family are thought to be involved in secretion of several proteins. The FliF protein ring is thought to be part of the export apparatus for flagellar proteins, based on the similarity to YscJ proteins [].; PDB: 1YJ7_A 2Y9J_d.
Probab=38.02 E-value=1.8e+02 Score=22.26 Aligned_cols=80 Identities=15% Similarity=0.177 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHhhCCCeeEEEEEEe-eCCCCCCCCcccc-----cccccccCCCCCCCCchhhHHHHHHHHhcccCCC
Q 032430 37 AHGVGENVRHQIHKSHPEVSEVFIHID-PAYFQFSPSTMDQ-----LGLEGCKAHSSNICVDDLDIDAVVYNTLSTKFPE 110 (141)
Q Consensus 37 ah~I~~~ve~~l~~~~p~v~dv~Vhid-P~~~~~~~~~~~~-----~~~~~~~~~~~~~~p~~~~i~~~l~~~~~~~~~~ 110 (141)
-..+..++++.|. .+++|.+..||+- |++........+. +.. .+...+. ..+++..+-+.++ . +
T Consensus 113 ~~ale~eL~~tI~-~i~gV~~A~V~l~~Pe~~~f~~~~~~~sASV~l~~------~~g~~l~-~qv~~I~~LVa~s-V-~ 182 (206)
T PF01514_consen 113 QRALEGELERTIE-SIDGVESARVHLVLPERSVFGENQQPPSASVVLKL------KPGSELS-EQVQGIQNLVASS-V-P 182 (206)
T ss_dssp HHHHHHHHHHHHT-TSTTEEEEEEEEEE----BTTB----EEEEEEEEE-------TTS--G-GGHHHHHHHHHHH-S-T
T ss_pred HHHHHHHHHHHHH-cCCCeeEEEEEEecCCccccccCCCCCeEEEEEEE------CCCCChH-HHHHHHHHHHHHh-c-C
Confidence 3567778888885 6899999999986 5553221100000 001 0112222 4566554444444 6 6
Q ss_pred CcccccEEEEEeCCeE
Q 032430 111 KMGVERITHHLLHGKI 126 (141)
Q Consensus 111 ~~~v~~v~lhy~~~~~ 126 (141)
++..++|++...+|++
T Consensus 183 gL~~enVtVvD~~G~~ 198 (206)
T PF01514_consen 183 GLKPENVTVVDQNGNL 198 (206)
T ss_dssp T--GGGEEEEEEET--
T ss_pred CCCcccEEEEeCCCcc
Confidence 7899999999988875
No 46
>cd04869 ACT_GcvR_2 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the second of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR in
Probab=37.18 E-value=1e+02 Score=19.09 Aligned_cols=41 Identities=12% Similarity=0.178 Sum_probs=30.1
Q ss_pred hHHHHHHHHhcccCCCCcccccEEEEEeC------CeEEEEEEEEcCCCC
Q 032430 95 DIDAVVYNTLSTKFPEKMGVERITHHLLH------GKILLEVEVSMSPDT 138 (141)
Q Consensus 95 ~i~~~l~~~~~~~~~~~~~v~~v~lhy~~------~~~~v~v~~~~~~~~ 138 (141)
-+-+++...++. .+..|.++..+-.+ +...+.+.+.+|++.
T Consensus 11 Giv~~it~~l~~---~~~nI~~~~~~~~~~~~~~~~~~~~~~~v~~p~~~ 57 (81)
T cd04869 11 GIVHEVTQFLAQ---RNINIEDLSTETYSAPMSGTPLFKAQATLALPAGT 57 (81)
T ss_pred CHHHHHHHHHHH---cCCCeEEeEeeeecCCCCCcceEEEEEEEecCCCC
Confidence 355667777776 67788888887776 777778888887654
No 47
>PRK05934 type III secretion system protein; Validated
Probab=36.94 E-value=2.6e+02 Score=23.58 Aligned_cols=86 Identities=9% Similarity=0.015 Sum_probs=54.9
Q ss_pred HHHHHHHHHHHHHHHHhhCCCeeEEEEEEe-eCCCCCCCCcccccccccccCCCCCCCCchhhHHHHHHHHhcccCCCCc
Q 032430 34 VSAAHGVGENVRHQIHKSHPEVSEVFIHID-PAYFQFSPSTMDQLGLEGCKAHSSNICVDDLDIDAVVYNTLSTKFPEKM 112 (141)
Q Consensus 34 v~eah~I~~~ve~~l~~~~p~v~dv~Vhid-P~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~i~~~l~~~~~~~~~~~~ 112 (141)
.-|+-+...++++.|. .+++|....||+- |.++.......--+-++ ..+..--..+++++...-+.++ . .++
T Consensus 66 ~~E~~ALEGELaRTIe-sld~VesARVHLAlPe~s~~~~~pTASVvLt----L~~G~tLs~~QV~gIvnLVAsS-V-pGL 138 (341)
T PRK05934 66 LIESLAKKEQLEKDLT-MFHPVAQATVALSLETEDDPMSPAEISVILS----LPKAETLSPSLLHSITDYLTSS-V-PGL 138 (341)
T ss_pred HHHHHHHHHHHHHHHH-cccCcceeEEEEeCCCCCccCCCCceEEEEe----cCCCCcCCHHHHHHHHHHHHhc-C-CCC
Confidence 5678889999999996 5888999999996 55542211000000000 0011122357788777766665 6 678
Q ss_pred ccccEEEEEeCCeE
Q 032430 113 GVERITHHLLHGKI 126 (141)
Q Consensus 113 ~v~~v~lhy~~~~~ 126 (141)
..++|++-...|++
T Consensus 139 tpEnVTVVDq~GnL 152 (341)
T PRK05934 139 TKEHITLSDNLGNL 152 (341)
T ss_pred CccCeEEECCCCCC
Confidence 99999999988875
No 48
>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=36.91 E-value=79 Score=21.19 Aligned_cols=47 Identities=21% Similarity=0.261 Sum_probs=38.0
Q ss_pred CCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEe
Q 032430 17 GSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHID 63 (141)
Q Consensus 17 G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~Vhid 63 (141)
|+.+.||+.=.+......+....+..+|...+.+.|+++..|.+-++
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 55777777766655567777888999999999988999999998876
No 49
>smart00796 AHS1 Allophanate hydrolase subunit 1. This domain represents subunit 1 of allophanate hydrolase (AHS1).
Probab=35.87 E-value=2e+02 Score=22.03 Aligned_cols=52 Identities=19% Similarity=0.303 Sum_probs=28.4
Q ss_pred EEEeeCCEEEEEEEEEECCCCCH---HHHHHHHHHHHHH----HHhhCCCeeEEEEEEeeCC
Q 032430 12 RGRRAGSSLYLDVHIVVDPFSSV---SAAHGVGENVRHQ----IHKSHPEVSEVFIHIDPAY 66 (141)
Q Consensus 12 r~R~~G~~~~vd~hI~V~~~lsv---~eah~I~~~ve~~----l~~~~p~v~dv~VhidP~~ 66 (141)
+++..|....+ |++...+|. ...+.+.+.+++. +.+..|....++|++||..
T Consensus 2 ~i~~~Gd~all---v~~~~~~~~~~~~~v~~l~~~l~~~~~~gi~e~vp~~~sllv~fdp~~ 60 (201)
T smart00796 2 RIRPAGDRALL---VEFGDEIDLALNRRVLALARALRAAPLPGVVELVPGYRSLLVHFDPLV 60 (201)
T ss_pred EEEEcCCcEEE---EEECCcCCHHHHHHHHHHHHHHHhcCCCCeEEccccceEEEEEEcCCC
Confidence 46667774322 344555553 3445555555543 3334455557788888854
No 50
>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=35.77 E-value=1.2e+02 Score=20.24 Aligned_cols=33 Identities=9% Similarity=0.127 Sum_probs=26.8
Q ss_pred EEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCC
Q 032430 21 YLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHP 53 (141)
Q Consensus 21 ~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p 53 (141)
.+.+++.+|.--|+.+=..+...+..+++++|+
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 467889999999999999999999999999996
No 51
>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=35.29 E-value=1.1e+02 Score=18.98 Aligned_cols=32 Identities=9% Similarity=-0.005 Sum_probs=25.5
Q ss_pred eeeeeEEEEeeCCEEEEEEEEEECCCCCHHHH
Q 032430 6 QGCHRLRGRRAGSSLYLDVHIVVDPFSSVSAA 37 (141)
Q Consensus 6 ~~vh~lr~R~~G~~~~vd~hI~V~~~lsv~ea 37 (141)
.++.+++.+..++.+...+.+.+|++.++.+.
T Consensus 25 ~nI~dl~~~~~~~~f~~~~~v~~p~~~~~~~l 56 (75)
T cd04870 25 VRILDVGQAVIHGRLSLGILVQIPDSADSEAL 56 (75)
T ss_pred CCEEecccEEEcCeeEEEEEEEcCCCCCHHHH
Confidence 46788888888898999999999988665443
No 52
>TIGR00668 apaH bis(5'-nucleosyl)-tetraphosphatase (symmetrical). Alternate names include diadenosine-tetraphosphatase and Ap4A hydrolase.
Probab=34.92 E-value=54 Score=26.75 Aligned_cols=29 Identities=14% Similarity=0.211 Sum_probs=26.4
Q ss_pred EEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032430 22 LDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (141)
Q Consensus 22 vd~hI~V~~~lsv~eah~I~~~ve~~l~~ 50 (141)
+=+|-.++|.+++++|...+.+||+.|+.
T Consensus 117 ~lVHAGi~P~w~l~~a~~~a~eve~~L~~ 145 (279)
T TIGR00668 117 VMAHAGITPQWDLQTAKECARDVEAVLSS 145 (279)
T ss_pred EEEecCCCCCCcHHHHHHHHHHHHHHHcC
Confidence 44599999999999999999999999975
No 53
>PRK14641 hypothetical protein; Provisional
Probab=34.31 E-value=1.8e+02 Score=21.93 Aligned_cols=44 Identities=9% Similarity=0.116 Sum_probs=37.1
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032430 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (141)
Q Consensus 7 ~vh~lr~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~ 50 (141)
.+.++...+.|+...+.+.|.=+..+|+.+.-.++..|...|-.
T Consensus 25 eLvdve~~~~~~~~~lrV~ID~~~gv~lDdC~~vSr~Is~~LD~ 68 (173)
T PRK14641 25 YLVSMTVKGSGKGRKIEVLLDADTGIRIDQCAFFSRRIRERLEE 68 (173)
T ss_pred EEEEEEEEeCCCCcEEEEEEeCCCCCCHHHHHHHHHHHHHHhCc
Confidence 46788888888888888888777789999999999999888853
No 54
>COG1539 FolB Dihydroneopterin aldolase [Coenzyme metabolism]
Probab=33.43 E-value=1.7e+02 Score=20.63 Aligned_cols=50 Identities=16% Similarity=0.283 Sum_probs=37.8
Q ss_pred EeeCCEEEEEEEEEECC-----------CCCHHHH----------------HHHHHHHHHHHHhhCCCeeEEEEEEe
Q 032430 14 RRAGSSLYLDVHIVVDP-----------FSSVSAA----------------HGVGENVRHQIHKSHPEVSEVFIHID 63 (141)
Q Consensus 14 R~~G~~~~vd~hI~V~~-----------~lsv~ea----------------h~I~~~ve~~l~~~~p~v~dv~Vhid 63 (141)
|..|..+.||+.+.++. +++-.++ ..+++.|.+.++..||.+..+.|.+.
T Consensus 23 ~~~~Q~~~Vdl~l~~d~~~A~~~Ddl~dtl~Y~~v~~~i~~~v~~~~~~LiE~lA~~ia~~l~~~~~~v~~~~v~v~ 99 (121)
T COG1539 23 RKLGQKFVVDLTLGYDLRKAAESDDLADTLNYAEVSELIKEIVEGKRFALIETLAEEIADLLLARFPRVELVEVKVT 99 (121)
T ss_pred hccCCeEEEEEEEeccchhhcCccchhheecHHHHHHHHHHHHhCCccchHHHHHHHHHHHHHhhCCccEEEEEEEE
Confidence 45688999999999998 3333222 34677888889999998888888776
No 55
>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=31.66 E-value=1.2e+02 Score=19.82 Aligned_cols=58 Identities=7% Similarity=0.047 Sum_probs=37.4
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEE--eeCC
Q 032430 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHI--DPAY 66 (141)
Q Consensus 7 ~vh~lr~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~Vhi--dP~~ 66 (141)
++..+.+.+....+.|.+|..-|.-+-=..+..| +.+++.|.+.|. +....+.+ ++..
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 5677888888889999999988887644444444 555555655553 33344433 6544
No 56
>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=30.93 E-value=1.7e+02 Score=20.82 Aligned_cols=44 Identities=16% Similarity=0.112 Sum_probs=35.0
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032430 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (141)
Q Consensus 7 ~vh~lr~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~ 50 (141)
.+.++...+.|+...+.+-|.=+..+|+.+.-.++..+...|-.
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 56788999999999999988878899999999999999888865
No 57
>COG5133 Uncharacterized conserved protein [Function unknown]
Probab=30.67 E-value=1.1e+02 Score=22.98 Aligned_cols=61 Identities=20% Similarity=0.236 Sum_probs=48.4
Q ss_pred CceeeeeEEEEeeCC-EEEEEEEEEECCCCC-HHHHHHHHHHHHHHHHhhCCCeeEEEEEEee
Q 032430 4 SLQGCHRLRGRRAGS-SLYLDVHIVVDPFSS-VSAAHGVGENVRHQIHKSHPEVSEVFIHIDP 64 (141)
Q Consensus 4 gV~~vh~lr~R~~G~-~~~vd~hI~V~~~ls-v~eah~I~~~ve~~l~~~~p~v~dv~VhidP 64 (141)
+|.+..++.+-..+. +..-.+.+.+.|+++ -|-|--|+--|+-++.+.+|.-.+|+||+--
T Consensus 79 sVV~lEdi~v~D~~~~n~i~~v~v~itPTIpHCSmatlIGLcIrvrleR~lpprF~v~v~ikk 141 (181)
T COG5133 79 SVVSLEDISVPDGIAPNVIRCVKVVITPTIPHCSMATLIGLCIRVRLERHLPPRFHVQVHIKK 141 (181)
T ss_pred ceeeeccccccCCCCCCeeEEEEEEeccCCCchhHHHHhhhheeeeehhcCCCceeEEEEEec
Confidence 567777777777644 666678888889887 4677789999999999999987889999864
No 58
>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=30.49 E-value=1.6e+02 Score=19.31 Aligned_cols=28 Identities=14% Similarity=0.017 Sum_probs=19.6
Q ss_pred EEEEeeCCEEEEEEEEEECCCCCHHHHHH
Q 032430 11 LRGRRAGSSLYLDVHIVVDPFSSVSAAHG 39 (141)
Q Consensus 11 lr~R~~G~~~~vd~hI~V~~~lsv~eah~ 39 (141)
|.++...+. ..|+.+.+++++||.+..+
T Consensus 4 l~IK~~~~~-~~~~~ve~~~~~TV~~lK~ 31 (79)
T cd01790 4 LLIKSPNQK-YEDQTVSCFLNWTVGELKT 31 (79)
T ss_pred EEEECCCCC-eEEEEEecCCcChHHHHHH
Confidence 455655443 5577788999999987653
No 59
>PHA02754 hypothetical protein; Provisional
Probab=30.05 E-value=1.5e+02 Score=18.73 Aligned_cols=29 Identities=17% Similarity=0.174 Sum_probs=23.6
Q ss_pred hhHHHHHHHHhcccCCCCcccccEEEEEeCCe
Q 032430 94 LDIDAVVYNTLSTKFPEKMGVERITHHLLHGK 125 (141)
Q Consensus 94 ~~i~~~l~~~~~~~~~~~~~v~~v~lhy~~~~ 125 (141)
.+..+.+++.|+. .+.-+++|..-|..|.
T Consensus 17 ke~MRelkD~LSe---~GiYi~RIkai~~SGd 45 (67)
T PHA02754 17 KEAMRELKDILSE---AGIYIDRIKAITTSGD 45 (67)
T ss_pred HHHHHHHHHHHhh---CceEEEEEEEEEecCC
Confidence 4566788888887 7889999999998774
No 60
>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=29.99 E-value=1.6e+02 Score=19.14 Aligned_cols=56 Identities=5% Similarity=-0.014 Sum_probs=37.4
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEee
Q 032430 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHIDP 64 (141)
Q Consensus 7 ~vh~lr~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~VhidP 64 (141)
++..+.+.+.++.+.+.+|..-|+ +=+...-+-.+.++..|.+.+. ..++.+.+.+
T Consensus 27 gIs~IeI~r~~~~i~V~I~t~~pg-~iIGk~G~~I~~l~~~l~k~~~-~~~v~I~v~e 82 (85)
T cd02411 27 GYGGMEILRTPLGTQITIYAERPG-MVIGRGGKNIRELTEILETKFG-LENPQIDVQE 82 (85)
T ss_pred cccEEEEEEcCCcEEEEEEECCCC-ceECCCchhHHHHHHHHHHHhC-CCCceEEEEE
Confidence 566778888888899999996554 4444444444778888877664 3456666643
No 61
>PRK09579 multidrug efflux protein; Reviewed
Probab=29.76 E-value=3.7e+02 Score=25.74 Aligned_cols=38 Identities=8% Similarity=0.058 Sum_probs=31.5
Q ss_pred EEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEE
Q 032430 21 YLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVF 59 (141)
Q Consensus 21 ~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~ 59 (141)
.+-+++..|++.|+++..+..+++++.+++ .|++..+.
T Consensus 557 ~~~v~~~~p~gt~l~~t~~~~~~ie~~l~~-~p~v~~~~ 594 (1017)
T PRK09579 557 IIFMMSSSPQPANLDYLNAYTDEFTPIFKS-FPEYYSSF 594 (1017)
T ss_pred eEEEEEECCCCCCHHHHHHHHHHHHHHHhc-CCCeEEEE
Confidence 345788999999999999999999999864 68766554
No 62
>PRK14634 hypothetical protein; Provisional
Probab=28.79 E-value=2.4e+02 Score=20.75 Aligned_cols=44 Identities=11% Similarity=0.058 Sum_probs=37.2
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCC--CCHHHHHHHHHHHHHHHHh
Q 032430 7 GCHRLRGRRAGSSLYLDVHIVVDPF--SSVSAAHGVGENVRHQIHK 50 (141)
Q Consensus 7 ~vh~lr~R~~G~~~~vd~hI~V~~~--lsv~eah~I~~~ve~~l~~ 50 (141)
.+.++...+.|+...+.+.|.=+.. +|+.+.-.++..+...|-.
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 4678888888888888888887777 9999999999999888853
No 63
>PF07315 DUF1462: Protein of unknown function (DUF1462); InterPro: IPR009190 There are currently no experimental data for members of this group of bacterial proteins or their homologues. A crystal structure of Q7A6J8 from SWISSPROT revealed a thioredoxin-like fold, its core consisting of three layers alpha/beta/alpha.; PDB: 1XG8_A.
Probab=27.89 E-value=73 Score=21.82 Aligned_cols=33 Identities=12% Similarity=0.180 Sum_probs=23.9
Q ss_pred CCCCCCchhhHHHHHHHHhcccCCCCcccccEEEEEe
Q 032430 86 SSNICVDDLDIDAVVYNTLSTKFPEKMGVERITHHLL 122 (141)
Q Consensus 86 ~~~~~p~~~~i~~~l~~~~~~~~~~~~~v~~v~lhy~ 122 (141)
.+..+|+-.+..+.|..++..++|. +.+.+.|.
T Consensus 11 SCVn~PsSkeTyeWL~aal~RKyp~----~~f~~~Yi 43 (93)
T PF07315_consen 11 SCVNAPSSKETYEWLEAALKRKYPD----QPFEFTYI 43 (93)
T ss_dssp GGSSS--HHHHHHHHHHHHHHH-TT----S-EEEEEE
T ss_pred hhcCCCCchhHHHHHHHHHhCcCCC----CceEEEEE
Confidence 5678899999999999999988876 36777774
No 64
>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=27.16 E-value=2e+02 Score=27.52 Aligned_cols=44 Identities=11% Similarity=0.046 Sum_probs=34.6
Q ss_pred EEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhC-CCeeEEEEEE
Q 032430 19 SLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSH-PEVSEVFIHI 62 (141)
Q Consensus 19 ~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~-p~v~dv~Vhi 62 (141)
.-.+.++++.|++.|+++..++..++++.|.+.- |++..+...+
T Consensus 569 ~~~~~v~v~~p~gtsl~~t~~~~~~ve~~l~~~~~~~v~~~~~~~ 613 (1044)
T TIGR00915 569 QGVFMTIVQLPAGATAERTQKVLAQVEKYLLAKEKANVESVFTVN 613 (1044)
T ss_pred CceEEEEEECCCCCCHHHHHHHHHHHHHHHHhcCCCCeeEEEEEe
Confidence 3446678889999999999999999999998643 5677666544
No 65
>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=26.29 E-value=4.1e+02 Score=22.59 Aligned_cols=50 Identities=16% Similarity=0.117 Sum_probs=42.5
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCee
Q 032430 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVS 56 (141)
Q Consensus 7 ~vh~lr~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~ 56 (141)
++.++..+..|+.+++++++....-|=.--.....+.+...|.+.++...
T Consensus 140 gl~~i~~~~~g~~v~l~~~~dtgDAMGaNmvn~~~e~v~~~i~~~~~~~~ 189 (373)
T PF00368_consen 140 GLRDIEVRIVGRFVHLRFHYDTGDAMGANMVNTATEAVCPWIEEQFGGMV 189 (373)
T ss_dssp EEEEEEEEECSTEEEEEEEEEETTC--HHHHHHHHHHHHHHHHHHHTSEE
T ss_pred eeeEEEEEecCCEEEEEEEEEccccchhhHHHHHHHHHHHHHHHhcccce
Confidence 56788888899999999999999999999999999999999999888733
No 66
>PF13356 DUF4102: Domain of unknown function (DUF4102); PDB: 3JU0_A 3RMP_A 3JTZ_A 2KJ8_A.
Probab=26.25 E-value=1.9e+02 Score=18.71 Aligned_cols=29 Identities=14% Similarity=0.155 Sum_probs=23.8
Q ss_pred EEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032430 22 LDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (141)
Q Consensus 22 vd~hI~V~~~lsv~eah~I~~~ve~~l~~ 50 (141)
..+.|.--|.||+++|...+.++...+.+
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 34677788999999999999999998864
No 67
>PRK14647 hypothetical protein; Provisional
Probab=26.04 E-value=2.7e+02 Score=20.47 Aligned_cols=44 Identities=14% Similarity=0.157 Sum_probs=36.9
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032430 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (141)
Q Consensus 7 ~vh~lr~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~ 50 (141)
.+-++...+.|+...+.+.|.=+..+|+.+.-.++..+...|-.
T Consensus 24 ~L~dv~~~~~~~~~~lrV~ID~~~gvslddC~~vSr~is~~LD~ 67 (159)
T PRK14647 24 ELVELEYKREGREMVLRLFIDKEGGVNLDDCAEVSRELSEILDV 67 (159)
T ss_pred EEEEEEEEecCCCeEEEEEEeCCCCCCHHHHHHHHHHHHHHHcc
Confidence 35678888888887888888778889999999999999988864
No 68
>PRK14639 hypothetical protein; Provisional
Probab=25.91 E-value=2.6e+02 Score=20.20 Aligned_cols=45 Identities=7% Similarity=-0.094 Sum_probs=37.7
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhh
Q 032430 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKS 51 (141)
Q Consensus 7 ~vh~lr~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~ 51 (141)
.+-++...+.|+...+.+.|.=+..+|+.+...++..+...|-..
T Consensus 13 eLvdve~~~~~~~~~lrV~Id~~~gv~iddC~~vSr~is~~LD~~ 57 (140)
T PRK14639 13 SFYDDELVSENGRKIYRVYITKEGGVNLDDCERLSELLSPIFDVE 57 (140)
T ss_pred EEEEEEEEecCCCcEEEEEEeCCCCCCHHHHHHHHHHHHHHhccc
Confidence 356777888888888888888788899999999999999888643
No 69
>cd00580 CHMI 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the homoprotocatechuate pathway, one of the microbial meta-fission pathways that degrade aromatic carbon sources to citric acid cycle intermediates. Despite the structural similarity of CHMI with 4-oxalocrotonate tautomerase (4-OT) and macrophage migration inhibitory factor (MIF), there is no significant sequence similarity among these protein families, and therefore, they are not combined in one hierarchy.
Probab=25.83 E-value=2.2e+02 Score=19.36 Aligned_cols=38 Identities=11% Similarity=0.129 Sum_probs=33.4
Q ss_pred CEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCe
Q 032430 18 SSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEV 55 (141)
Q Consensus 18 ~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v 55 (141)
+.-||-++|.+-+.-|.++-..+.+.+.+.|.+.++..
T Consensus 57 ~~~fi~i~i~l~~GRs~eqK~~l~~~i~~~l~~~~~~~ 94 (113)
T cd00580 57 DDAFIHVTLRILAGRSEEQKQELSEALLAALRAHLAPV 94 (113)
T ss_pred CCcEEEEEEEEcCCCCHHHHHHHHHHHHHHHHHhhhhh
Confidence 35788888888888899999999999999999988865
No 70
>PRK00092 ribosome maturation protein RimP; Reviewed
Probab=25.12 E-value=2.7e+02 Score=20.19 Aligned_cols=44 Identities=9% Similarity=0.040 Sum_probs=37.3
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032430 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (141)
Q Consensus 7 ~vh~lr~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~ 50 (141)
.+.++.....|+...+.+.|.-+..+|+.+.-.++..+...|-.
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 36788888888888888888877889999999999999988853
No 71
>PRK14640 hypothetical protein; Provisional
Probab=25.07 E-value=2.8e+02 Score=20.28 Aligned_cols=44 Identities=23% Similarity=0.075 Sum_probs=36.7
Q ss_pred eeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032430 7 GCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (141)
Q Consensus 7 ~vh~lr~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~ 50 (141)
.+.++...+.|+...+.+.|.=+..+|+.+.-.++..+...|-.
T Consensus 22 el~dve~~~~~~~~~lrV~ID~~~gv~lddC~~vSr~is~~LD~ 65 (152)
T PRK14640 22 ELWGIEFIRAGKHSTLRVYIDGENGVSVENCAEVSHQVGAIMDV 65 (152)
T ss_pred EEEEEEEEecCCCcEEEEEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence 36778888888888888888777789999999999999888854
No 72
>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=23.60 E-value=1.9e+02 Score=17.92 Aligned_cols=35 Identities=14% Similarity=0.194 Sum_probs=28.1
Q ss_pred EEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHH
Q 032430 12 RGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIH 49 (141)
Q Consensus 12 r~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~ 49 (141)
.+|.+|..=.+-+.++.+ +..+++++.+.+...|+
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 378888877777766666 89999999999988774
No 73
>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=23.33 E-value=1.9e+02 Score=17.78 Aligned_cols=45 Identities=16% Similarity=0.128 Sum_probs=24.5
Q ss_pred eeeeeEEEEeeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032430 6 QGCHRLRGRRAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (141)
Q Consensus 6 ~~vh~lr~R~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~ 50 (141)
.+|+..++...|+...+|.-...+++-+-....+-.+++++.|.+
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 367888888887666777555455543321122333445555543
No 74
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=23.05 E-value=3e+02 Score=26.43 Aligned_cols=43 Identities=16% Similarity=0.131 Sum_probs=35.5
Q ss_pred EEEEEEEEECCCCCHHHHHHHHHHHHHHHHhh-CCCeeEEEEEE
Q 032430 20 LYLDVHIVVDPFSSVSAAHGVGENVRHQIHKS-HPEVSEVFIHI 62 (141)
Q Consensus 20 ~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~-~p~v~dv~Vhi 62 (141)
-.+.+++..|++.|+++..+...++++.|++. .|++..+...+
T Consensus 569 ~~~~v~~~~p~gt~l~~t~~~~~~~e~~l~~~~~~~v~~~~~~~ 612 (1037)
T PRK10555 569 GMFTTSVQLPSGSTQQQTLKVVEKVEKYYFTHEKDNVMSVFATV 612 (1037)
T ss_pred CeEEEEEECCCCCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEEe
Confidence 34578899999999999999999999999753 57777776554
No 75
>PRK15127 multidrug efflux system protein AcrB; Provisional
Probab=22.71 E-value=3e+02 Score=26.45 Aligned_cols=44 Identities=11% Similarity=0.003 Sum_probs=35.1
Q ss_pred EEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhh-CCCeeEEEEEE
Q 032430 19 SLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKS-HPEVSEVFIHI 62 (141)
Q Consensus 19 ~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~-~p~v~dv~Vhi 62 (141)
.-.+.++++.|+..|+++..++..++++.++.+ .|++.++...+
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 335678899999999999999999999999753 47776665433
No 76
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=22.68 E-value=3.2e+02 Score=25.22 Aligned_cols=49 Identities=14% Similarity=0.106 Sum_probs=42.5
Q ss_pred eeCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEEe
Q 032430 15 RAGSSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHID 63 (141)
Q Consensus 15 ~~G~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~Vhid 63 (141)
+..+.+.=++.|.+|..+|.++--+++...-+......+-+.|+.||-+
T Consensus 79 r~na~~are~~iaLP~El~~~~~~~L~~~f~~~~~~~~g~~~d~aiH~~ 127 (744)
T TIGR02768 79 RKDAQLAREFEIALPRELNLEQNIELARRFVRDHFVEKGMVADWAIHDD 127 (744)
T ss_pred CCCCeeEEeEeEeCchhcCHHHHHHHHHHHHHHHHHhCCCeEEEEEecC
Confidence 4466888899999999999999999999988888777887899999963
No 77
>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=22.61 E-value=1.7e+02 Score=23.39 Aligned_cols=30 Identities=23% Similarity=0.258 Sum_probs=26.7
Q ss_pred EEEEEEEECCCCCHHHHHHHHHHHHHHHHh
Q 032430 21 YLDVHIVVDPFSSVSAAHGVGENVRHQIHK 50 (141)
Q Consensus 21 ~vd~hI~V~~~lsv~eah~I~~~ve~~l~~ 50 (141)
++=+|=.++|.+++.++...+.+||+.|+.
T Consensus 114 ~l~vHAGi~p~w~~~~~~~~a~eve~~l~~ 143 (257)
T cd07422 114 ILMVHAGIPPQWSIEQALKLAREVEAALRG 143 (257)
T ss_pred EEEEccCCCCCCCHHHHHHHHHHHHHHhcC
Confidence 455698999999999999999999999975
No 78
>PRK10503 multidrug efflux system subunit MdtB; Provisional
Probab=22.59 E-value=3.1e+02 Score=26.32 Aligned_cols=43 Identities=14% Similarity=0.098 Sum_probs=35.8
Q ss_pred EEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEEEE
Q 032430 19 SLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFIHI 62 (141)
Q Consensus 19 ~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~Vhi 62 (141)
.-.+.+.+..+++.|+++..++.+++++.+++ .|++..+..-+
T Consensus 567 ~~~i~v~~~~p~gt~l~~t~~~~~~ve~~l~~-~~~v~~~~~~~ 609 (1040)
T PRK10503 567 NGIIQGTLQAPQSSSFANMAQRQRQVADVILQ-DPAVQSLTSFV 609 (1040)
T ss_pred CcEEEEEEECCCCCCHHHHHHHHHHHHHHHhh-CCCeEEEEEEe
Confidence 44567889999999999999999999999975 68888776554
No 79
>PRK09577 multidrug efflux protein; Reviewed
Probab=22.49 E-value=2.9e+02 Score=26.46 Aligned_cols=41 Identities=12% Similarity=0.122 Sum_probs=34.0
Q ss_pred EEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCCeeEEEE
Q 032430 19 SLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPEVSEVFI 60 (141)
Q Consensus 19 ~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~v~dv~V 60 (141)
.-.+-+++..|++.|+++..++.+++++.|++ .|++..+..
T Consensus 566 ~~~~~v~~~~p~gtsl~~t~~~~~~ve~~l~~-~~~v~~~~~ 606 (1032)
T PRK09577 566 QGNFMVMVIRPQGTPLAETMQSVREVESYLRR-HEPVAYTFA 606 (1032)
T ss_pred CceEEEEEEcCCCCCHHHHHHHHHHHHHHHhh-CCCceEEEE
Confidence 34557889999999999999999999999975 687776653
No 80
>PF04965 GPW_gp25: Gene 25-like lysozyme; InterPro: IPR007048 The family of sequences represented by this entry include proteins from Bacteriophage T4 and related phage, which may be structural components of the outer wedge of the baseplate that has acidic lysozyme activity [, ]. They also include anti-adapter protein IraD, from bacteria, that inhibit RpoS proteolysis by regulating RssB activity [].; PDB: 2IA7_A.
Probab=21.68 E-value=2.2e+02 Score=18.52 Aligned_cols=44 Identities=11% Similarity=0.222 Sum_probs=29.6
Q ss_pred chhhHHHHHHHHhcccCCCCcccccEEEEE---eCCeEEEEEEEEcCC
Q 032430 92 DDLDIDAVVYNTLSTKFPEKMGVERITHHL---LHGKILLEVEVSMSP 136 (141)
Q Consensus 92 ~~~~i~~~l~~~~~~~~~~~~~v~~v~lhy---~~~~~~v~v~~~~~~ 136 (141)
....+...|+.++.. |..-+.+..|.+.- ..+++.+.+...+..
T Consensus 45 ~~~~i~~~I~~aI~~-~EPRl~~~~V~~~~~~~~~~~l~~~I~~~l~~ 91 (99)
T PF04965_consen 45 TRQAIRREIREAIQR-FEPRLKVVSVEVEEDDDEDGKLTFTISGTLRD 91 (99)
T ss_dssp HHHHHHHHHHHHHHH-H-TTEEEEEEEEE-TTGGGTEEEEEEEEEETT
T ss_pred HHHHHHHHHHHHHHH-hCCcEEEEEEEEEecCCCCCEEEEEEEEEEEc
Confidence 356778888888876 65555666666666 457888888877654
No 81
>PF03755 YicC_N: YicC-like family, N-terminal region ; InterPro: IPR013527 Proteins in this entry are homologues of YicC (P23839 from SWISSPROT) from Escherichia coli. Although it is relatively poorly characterised YicC has been shown to be important for cells in the stationary phase, and essential for growth at high temperatures []. This domain is found at the N-terminal region of these proteins.
Probab=20.94 E-value=2.9e+02 Score=20.07 Aligned_cols=44 Identities=23% Similarity=0.265 Sum_probs=28.6
Q ss_pred CEEEEEEEEEECCCCCHHHHHHHHHHHHHHHHhhCCC-eeEEEEEEeeCC
Q 032430 18 SSLYLDVHIVVDPFSSVSAAHGVGENVRHQIHKSHPE-VSEVFIHIDPAY 66 (141)
Q Consensus 18 ~~~~vd~hI~V~~~lsv~eah~I~~~ve~~l~~~~p~-v~dv~VhidP~~ 66 (141)
+..|.|+.+.+|+.++--| ..+++.|++.+.. --+|+|.++...
T Consensus 27 N~R~Ldi~~rlP~~l~~lE-----~~ir~~i~~~l~RGkV~v~i~~~~~~ 71 (159)
T PF03755_consen 27 NHRFLDISIRLPRELSSLE-----PEIRKLIRKKLSRGKVEVSIRVERSS 71 (159)
T ss_pred ccCceeeEEeCCHHHHHHH-----HHHHHHHHHhcccceEEEEEEEEECc
Confidence 4567899999999876444 4455555555443 246777777665
No 82
>PF13193 AMP-binding_C: AMP-binding enzyme C-terminal domain; PDB: 3L8C_B 2VSQ_A 3R44_A 3RG2_B 3A9U_A 3A9V_A 3NI2_A 1V26_B 1ULT_B 1V25_B ....
Probab=20.82 E-value=1.9e+02 Score=17.60 Aligned_cols=24 Identities=21% Similarity=0.263 Sum_probs=18.1
Q ss_pred HHHHHHHhhCCCeeEEEEEEeeCCC
Q 032430 43 NVRHQIHKSHPEVSEVFIHIDPAYF 67 (141)
Q Consensus 43 ~ve~~l~~~~p~v~dv~VhidP~~~ 67 (141)
+||+.|. .+|+|.++.|--.|...
T Consensus 1 EIE~~l~-~~~~V~~~~V~~~~d~~ 24 (73)
T PF13193_consen 1 EIESVLR-QHPGVAEAAVVGVPDED 24 (73)
T ss_dssp HHHHHHH-TSTTEEEEEEEEEEETT
T ss_pred CHHHHHh-cCCCccEEEEEEEEccc
Confidence 4677775 68999999988777443
No 83
>cd04928 ACT_TyrKc Uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. This CD includes a novel, yet uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.30 E-value=2.4e+02 Score=17.85 Aligned_cols=41 Identities=7% Similarity=0.023 Sum_probs=31.5
Q ss_pred hhhHHHHHHHHhcccCCCCcccccEEEEEeCCeEEEEEEEEcCC
Q 032430 93 DLDIDAVVYNTLSTKFPEKMGVERITHHLLHGKILLEVEVSMSP 136 (141)
Q Consensus 93 ~~~i~~~l~~~~~~~~~~~~~v~~v~lhy~~~~~~v~v~~~~~~ 136 (141)
+..+...+..+++. .++.|..-.++-..++..++...-.+.
T Consensus 11 r~gLFa~iag~L~~---~~LnI~~A~i~tt~dG~~LDtF~V~d~ 51 (68)
T cd04928 11 KPKLLSQLSSLLGD---LGLNIAEAHAFSTDDGLALDIFVVTGW 51 (68)
T ss_pred CcchHHHHHHHHHH---CCCceEEEEEEEcCCCeEEEEEEEecC
Confidence 44577777888876 678899999988888888887776654
Done!