Query 033078
Match_columns 128
No_of_seqs 121 out of 1051
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 09:33:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033078.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033078hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0316 sufA Fe-S cluster asse 100.0 3.8E-37 8.2E-42 213.8 11.9 107 7-116 2-110 (110)
2 PRK09502 iscA iron-sulfur clus 100.0 3.9E-36 8.5E-41 207.7 11.5 104 10-116 3-107 (107)
3 TIGR02011 IscA iron-sulfur clu 100.0 7.4E-36 1.6E-40 205.6 11.5 104 10-116 1-105 (105)
4 TIGR01997 sufA_proteo FeS asse 100.0 7.9E-36 1.7E-40 206.1 11.5 105 8-115 1-106 (107)
5 PRK13623 iron-sulfur cluster i 100.0 1.3E-35 2.8E-40 207.3 11.7 106 8-116 8-115 (115)
6 PRK09504 sufA iron-sulfur clus 100.0 2.3E-35 4.9E-40 208.4 11.5 106 8-116 16-122 (122)
7 PLN03082 Iron-sulfur cluster a 100.0 3.3E-35 7.2E-40 216.6 10.8 105 9-116 54-162 (163)
8 TIGR00049 Iron-sulfur cluster 100.0 4.6E-34 9.9E-39 195.7 11.6 102 11-115 1-104 (105)
9 KOG1120 Fe-S cluster biosynthe 100.0 6.6E-31 1.4E-35 184.4 8.9 108 6-116 26-134 (134)
10 PRK11190 Fe/S biogenesis prote 99.9 3.1E-26 6.6E-31 172.9 11.3 94 10-106 2-98 (192)
11 TIGR03341 YhgI_GntY IscR-regul 99.9 9.4E-26 2E-30 170.0 11.2 94 10-106 1-97 (190)
12 TIGR01911 HesB_rel_seleno HesB 99.9 7E-26 1.5E-30 153.0 9.2 88 9-100 3-92 (92)
13 KOG1119 Mitochondrial Fe-S clu 99.9 3.5E-26 7.6E-31 169.3 8.3 104 10-117 94-198 (199)
14 PF01521 Fe-S_biosyn: Iron-sul 99.9 1.3E-23 2.8E-28 145.1 7.4 100 9-112 2-112 (112)
15 COG4841 Uncharacterized protei 99.5 1.8E-14 3.9E-19 95.7 7.1 87 9-99 2-94 (95)
16 COG4918 Uncharacterized protei 97.7 9.3E-05 2E-09 50.8 4.9 78 10-92 3-86 (114)
17 COG3564 Uncharacterized protei 96.6 0.023 5E-07 38.9 7.8 90 8-104 5-100 (116)
18 PF05610 DUF779: Protein of un 95.8 0.051 1.1E-06 36.9 6.4 65 40-105 17-87 (95)
19 cd01234 PH_CADPS CADPS (Ca2+-d 64.8 5.4 0.00012 27.8 2.0 30 74-109 45-74 (117)
20 KOG4777 Aspartate-semialdehyde 57.0 11 0.00023 30.6 2.7 40 66-105 114-153 (361)
21 COG1660 Predicted P-loop-conta 54.0 32 0.00069 27.7 4.9 49 22-81 150-198 (286)
22 COG5134 Uncharacterized conser 51.8 27 0.00059 27.3 4.1 51 23-76 61-114 (272)
23 cd03063 TRX_Fd_FDH_beta TRX-li 43.4 45 0.00097 22.2 3.7 33 12-47 12-44 (92)
24 COG4647 AcxC Acetone carboxyla 41.1 15 0.00033 26.6 1.2 20 96-115 60-80 (165)
25 KOG1667 Zn2+-binding protein M 40.8 22 0.00048 28.6 2.1 35 8-45 111-151 (320)
26 PF07610 DUF1573: Protein of u 35.8 18 0.00039 20.6 0.7 9 105-113 18-26 (45)
27 PF11146 DUF2905: Protein of u 33.7 44 0.00096 20.9 2.3 21 57-77 29-49 (64)
28 COG1395 Predicted transcriptio 33.3 1.8E+02 0.0039 23.9 6.3 72 11-99 52-123 (313)
29 PF00919 UPF0004: Uncharacteri 33.0 61 0.0013 21.6 3.1 42 9-53 44-86 (98)
30 PRK01194 V-type ATP synthase s 32.2 51 0.0011 24.5 2.9 39 67-105 119-157 (185)
31 KOG3348 BolA (bacterial stress 28.9 1.3E+02 0.0027 20.0 3.9 33 23-56 8-41 (85)
32 PF10571 UPF0547: Uncharacteri 27.6 35 0.00077 17.4 0.9 13 103-115 12-25 (26)
33 PF03668 ATP_bind_2: P-loop AT 27.2 88 0.0019 25.2 3.6 49 23-82 150-198 (284)
34 PF05141 DIT1_PvcA: Pyoverdine 27.1 2.7E+02 0.0058 22.3 6.3 56 25-80 205-268 (278)
35 PF03749 SfsA: Sugar fermentat 26.9 62 0.0013 24.9 2.6 40 12-51 138-177 (215)
36 KOG0259 Tyrosine aminotransfer 25.5 73 0.0016 27.2 2.9 91 14-115 106-217 (447)
37 PF07305 DUF1454: Protein of u 25.2 2E+02 0.0044 22.0 5.0 48 1-51 128-184 (200)
38 PRK00347 putative DNA-binding 25.2 72 0.0016 24.8 2.7 40 12-54 152-194 (234)
39 PRK05089 cytochrome C oxidase 24.5 1.3E+02 0.0029 22.7 4.0 22 68-89 149-170 (188)
40 COG5216 Uncharacterized conser 24.0 56 0.0012 20.4 1.5 23 96-118 11-35 (67)
41 COG5014 Predicted Fe-S oxidore 23.6 95 0.0021 23.8 3.0 62 18-83 78-142 (228)
42 PRK10234 DNA-binding transcrip 23.3 59 0.0013 22.8 1.7 34 58-91 60-96 (118)
43 PRK05416 glmZ(sRNA)-inactivati 23.0 1.5E+02 0.0032 23.7 4.2 52 16-79 147-198 (288)
44 PTZ00469 60S ribosomal subunit 22.6 1.2E+02 0.0027 23.0 3.4 33 7-39 99-139 (187)
45 KOG1282 Serine carboxypeptidas 22.3 77 0.0017 27.2 2.5 62 33-101 73-135 (454)
46 PF03852 Vsr: DNA mismatch end 21.9 74 0.0016 20.6 1.8 33 46-78 35-67 (75)
47 PF04442 CtaG_Cox11: Cytochrom 21.3 92 0.002 22.8 2.4 22 68-89 122-148 (152)
48 COG2200 Rtn c-di-GMP phosphodi 21.0 50 0.0011 25.5 1.1 91 9-104 123-241 (256)
49 PF09865 DUF2092: Predicted pe 20.8 2.2E+02 0.0048 21.8 4.6 52 68-124 152-209 (214)
No 1
>COG0316 sufA Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.8e-37 Score=213.78 Aligned_cols=107 Identities=41% Similarity=0.751 Sum_probs=101.4
Q ss_pred hhhcccCHhHHHHHHHHHHHHhcC-C-CCcEEEEEecCCCCCceeeeecccccccCCceeeeCCEEEEEccCchhhcCCc
Q 033078 7 QAAEKIGPAVRRQAVTVRHLLQQR-Q-RPYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGT 84 (128)
Q Consensus 7 ~~~~~IT~~A~~~~~~ik~ll~~~-~-~~~IRI~v~~~GC~G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g~ 84 (128)
...+.|||+|+++ ++++++++ + +.+|||+|+++||+|++|+|.+++++.++|.+++.+|++++||+.+++||+|.
T Consensus 2 ~~~itlT~~Aa~~---v~~ll~~~~~~~~~lRv~V~~gGCsG~~Y~~~~~~~~~~~D~v~e~~g~~v~vD~~S~~~L~G~ 78 (110)
T COG0316 2 AMMITLTDAAAAR---VKALLAKEGEENLGLRVGVKGGGCSGFQYGLEFDDEINEDDTVFEQDGVKVVVDPKSLPYLEGT 78 (110)
T ss_pred CCceeeCHHHHHH---HHHHHHhccCCCceEEEEEeCCCCCCcEeEEEEcCCCCCCCEEEEeCCEEEEEChhhhhhhcCC
Confidence 3568999999999 99999987 3 45899999999999999999999999999999999999999999999999999
Q ss_pred EEEeeeCCCCceEEEeCCCCCCCCCCCCCcCc
Q 033078 85 KMDFVDDKLRSEFVFINPNSKGQCGCGESFMT 116 (128)
Q Consensus 85 ~IDy~e~~~g~gF~i~nP~~~~~CgCG~sf~~ 116 (128)
+|||+++..+++|+|+|||++..||||+||+.
T Consensus 79 ~IDyv~~~~g~~F~~~NPNA~~~CgCg~Sf~v 110 (110)
T COG0316 79 EIDYVEDLLGSGFTFKNPNAKSSCGCGESFSV 110 (110)
T ss_pred EEEEEEcCcCCceEEECCCCCccccCCCCCCC
Confidence 99999999999999999999999999999973
No 2
>PRK09502 iscA iron-sulfur cluster assembly protein; Provisional
Probab=100.00 E-value=3.9e-36 Score=207.67 Aligned_cols=104 Identities=41% Similarity=0.777 Sum_probs=98.1
Q ss_pred cccCHhHHHHHHHHHHHHhcCCC-CcEEEEEecCCCCCceeeeecccccccCCceeeeCCEEEEEccCchhhcCCcEEEe
Q 033078 10 EKIGPAVRRQAVTVRHLLQQRQR-PYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTKMDF 88 (128)
Q Consensus 10 ~~IT~~A~~~~~~ik~ll~~~~~-~~IRI~v~~~GC~G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g~~IDy 88 (128)
++|||+|+++ |++++++++. .+|||+++.+||+|++|.|.|+++++++|.+++.+|++|+||+.++.||+|++|||
T Consensus 3 i~iT~~A~~~---i~~l~~~~~~~~~LRi~v~~~GCsG~~Y~l~~~~~~~~~D~~~~~~g~~v~id~~s~~~l~g~~IDy 79 (107)
T PRK09502 3 ITLSDSAAAR---VNTFLANRGKGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKVVVDGKSLQFLDGTQLDF 79 (107)
T ss_pred EEECHHHHHH---HHHHHhCcCCCceEEEEEECCCcCCeeeEeeecCCCCCCCEEEEcCCeEEEEeHHHHhHhCCCEEEE
Confidence 7899999999 9999976543 47999999999999999999987899999999999999999999999999999999
Q ss_pred eeCCCCceEEEeCCCCCCCCCCCCCcCc
Q 033078 89 VDDKLRSEFVFINPNSKGQCGCGESFMT 116 (128)
Q Consensus 89 ~e~~~g~gF~i~nP~~~~~CgCG~sf~~ 116 (128)
+++..+++|+|+|||+..+||||+||+.
T Consensus 80 ~~~~~~~~F~f~NPna~~~CgCG~Sf~~ 107 (107)
T PRK09502 80 VKEGLNEGFKFTNPNVKDECGCGESFHV 107 (107)
T ss_pred eeCCCCceEEEECCCCCCccCCCCCeeC
Confidence 9999999999999999999999999973
No 3
>TIGR02011 IscA iron-sulfur cluster assembly protein IscA. This clade is limited to the proteobacteria.
Probab=100.00 E-value=7.4e-36 Score=205.57 Aligned_cols=104 Identities=44% Similarity=0.771 Sum_probs=97.9
Q ss_pred cccCHhHHHHHHHHHHHHhcCCC-CcEEEEEecCCCCCceeeeecccccccCCceeeeCCEEEEEccCchhhcCCcEEEe
Q 033078 10 EKIGPAVRRQAVTVRHLLQQRQR-PYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTKMDF 88 (128)
Q Consensus 10 ~~IT~~A~~~~~~ik~ll~~~~~-~~IRI~v~~~GC~G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g~~IDy 88 (128)
++|||+|+++ |++++++++. .+|||+++.+||+|++|.|.++++++++|++++.+|++|+||+.++.||+|++|||
T Consensus 1 I~iT~~A~~~---i~~~~~~~~~~~~lRi~v~~~GCsG~~y~l~l~~~~~~~D~v~~~~g~~v~id~~s~~~l~g~~IDy 77 (105)
T TIGR02011 1 ITLTDSAAAR---VNTFLANRGKGFGLRLGVKTSGCSGMAYVLEFVDEPTPDDIVFEDKGVKIVIDGKSLQYLDGTQLDF 77 (105)
T ss_pred CEECHHHHHH---HHHHHhccCCCceEEEEEeCCCCCCEEEEeeecCCCCCCCEEEEcCCEEEEEcHHHhHHhCCCEEEE
Confidence 5799999999 9999987644 57999999999999999999988899999999999999999999999999999999
Q ss_pred eeCCCCceEEEeCCCCCCCCCCCCCcCc
Q 033078 89 VDDKLRSEFVFINPNSKGQCGCGESFMT 116 (128)
Q Consensus 89 ~e~~~g~gF~i~nP~~~~~CgCG~sf~~ 116 (128)
+++.++++|+|+|||+..+||||+||+.
T Consensus 78 ~~~~~~~~F~~~nPna~~~CgCg~Sf~~ 105 (105)
T TIGR02011 78 VKEGLNEGFKFTNPNVKDECGCGESFHV 105 (105)
T ss_pred ecCCCcceEEEECCCCCccCCCCCCccC
Confidence 9999999999999999999999999973
No 4
>TIGR01997 sufA_proteo FeS assembly scaffold SufA. This model represents the SufA protein of the SUF system of iron-sulfur cluster biosynthesis. This system performs FeS biosynthesis even during oxidative stress and tends to be absent in obligate anaerobic and microaerophilic bacteria.
Probab=100.00 E-value=7.9e-36 Score=206.05 Aligned_cols=105 Identities=40% Similarity=0.786 Sum_probs=99.0
Q ss_pred hhcccCHhHHHHHHHHHHHHhcCCC-CcEEEEEecCCCCCceeeeecccccccCCceeeeCCEEEEEccCchhhcCCcEE
Q 033078 8 AAEKIGPAVRRQAVTVRHLLQQRQR-PYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTKM 86 (128)
Q Consensus 8 ~~~~IT~~A~~~~~~ik~ll~~~~~-~~IRI~v~~~GC~G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g~~I 86 (128)
+.++|||+|+++ |++++++++. .+|||+++.+||+|++|.|.++++++++|.+++.+|++|+||+.++.||+|++|
T Consensus 1 ~~i~iT~~A~~~---i~~l~~~~~~~~~lRi~v~~~GC~G~~y~~~l~~~~~~~D~v~~~~g~~v~id~~s~~~l~g~~I 77 (107)
T TIGR01997 1 AVITLTDAAAIH---IRELVAKRPEAVGIRLGVKKTGCAGMEYVLDLVSEPKKDDDLIEHDGAKVFVAPEAVLFILGTQV 77 (107)
T ss_pred CeEEECHHHHHH---HHHHHhcCCCCcEEEEEEECCCCCCcEEEeeecCCCCCCCEEEecCCEEEEEcHHHHhhhCCCEE
Confidence 358999999999 9999987654 579999999999999999999888999999999999999999999999999999
Q ss_pred EeeeCCCCceEEEeCCCCCCCCCCCCCcC
Q 033078 87 DFVDDKLRSEFVFINPNSKGQCGCGESFM 115 (128)
Q Consensus 87 Dy~e~~~g~gF~i~nP~~~~~CgCG~sf~ 115 (128)
||+++..+++|+|+|||+..+||||+||+
T Consensus 78 Dy~~~~~~~~F~~~NPn~~~~CgCG~Sf~ 106 (107)
T TIGR01997 78 DFVRTTLRQGFKFNNPNATSACGCGESFE 106 (107)
T ss_pred EEEEcCCcceEEEECCCCCCccCCCCCcc
Confidence 99999999999999999999999999996
No 5
>PRK13623 iron-sulfur cluster insertion protein ErpA; Provisional
Probab=100.00 E-value=1.3e-35 Score=207.26 Aligned_cols=106 Identities=28% Similarity=0.612 Sum_probs=99.1
Q ss_pred hhcccCHhHHHHHHHHHHHHhcCCC--CcEEEEEecCCCCCceeeeecccccccCCceeeeCCEEEEEccCchhhcCCcE
Q 033078 8 AAEKIGPAVRRQAVTVRHLLQQRQR--PYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTK 85 (128)
Q Consensus 8 ~~~~IT~~A~~~~~~ik~ll~~~~~--~~IRI~v~~~GC~G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g~~ 85 (128)
..++|||+|+++ |+++++.++. .+|||+++.+||+|++|.|.++++++++|++++.+|++|+||+.+++||+|++
T Consensus 8 ~~i~iT~~A~~~---i~~~~~~~~~~~~~LRi~v~~~GCsG~~y~l~l~~~~~~~D~v~e~~gv~v~id~~s~~~l~g~~ 84 (115)
T PRK13623 8 LPLVFTDAAAAK---VKELIEEEGNPDLKLRVYITGGGCSGFQYGFTFDEQVNEDDTTIEKQGVTLVVDPMSLQYLVGAE 84 (115)
T ss_pred cceEECHHHHHH---HHHHHhhCCCCceEEEEEEeCCCCCCcEEEEEECCCCCCCCEEEEcCCEEEEEcHHHHHHhCCCE
Confidence 458999999999 9999976543 46999999999999999999998889999999999999999999999999999
Q ss_pred EEeeeCCCCceEEEeCCCCCCCCCCCCCcCc
Q 033078 86 MDFVDDKLRSEFVFINPNSKGQCGCGESFMT 116 (128)
Q Consensus 86 IDy~e~~~g~gF~i~nP~~~~~CgCG~sf~~ 116 (128)
|||+++..+.+|+|+|||+..+||||+||+.
T Consensus 85 IDy~~~~~~~~F~f~NPn~~~~CgCg~SF~~ 115 (115)
T PRK13623 85 VDYTEGLEGSRFVIKNPNAKTTCGCGSSFSI 115 (115)
T ss_pred EEeecCCCcceEEEECCCCCcCCCCCcCccC
Confidence 9999999999999999999999999999973
No 6
>PRK09504 sufA iron-sulfur cluster assembly scaffold protein; Provisional
Probab=100.00 E-value=2.3e-35 Score=208.39 Aligned_cols=106 Identities=34% Similarity=0.663 Sum_probs=99.6
Q ss_pred hhcccCHhHHHHHHHHHHHHhcCCC-CcEEEEEecCCCCCceeeeecccccccCCceeeeCCEEEEEccCchhhcCCcEE
Q 033078 8 AAEKIGPAVRRQAVTVRHLLQQRQR-PYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTKM 86 (128)
Q Consensus 8 ~~~~IT~~A~~~~~~ik~ll~~~~~-~~IRI~v~~~GC~G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g~~I 86 (128)
..++|||+|+++ |++++++++. .+|||+++++||+|++|.|.++++++++|++++.+|++|+||+.++.||+|++|
T Consensus 16 ~~I~iT~~A~~~---i~~l~~~~~~~~~LRi~v~~gGCsG~~Y~~~l~~e~~~~D~v~e~~g~~v~Id~~s~~~L~g~~I 92 (122)
T PRK09504 16 QGLTLTPAAAAH---IRELMAKQPGMKGVRLGVKQTGCAGFGYVLDSVSEPDKDDLVFEHDGAKLFVPLQAMPFIDGTEV 92 (122)
T ss_pred CCEEECHHHHHH---HHHHHhcCCCCceEEEEEECCCCCceEEEeeecCCCCCCCEEEEeCCEEEEEcHHHHHhhCCcEE
Confidence 458999999999 9999976654 579999999999999999999889999999999999999999999999999999
Q ss_pred EeeeCCCCceEEEeCCCCCCCCCCCCCcCc
Q 033078 87 DFVDDKLRSEFVFINPNSKGQCGCGESFMT 116 (128)
Q Consensus 87 Dy~e~~~g~gF~i~nP~~~~~CgCG~sf~~ 116 (128)
||+++..+++|+|+|||+..+||||+||..
T Consensus 93 Dy~~~~~~~gF~f~NPna~~~CgCG~SF~v 122 (122)
T PRK09504 93 DYVREGLNQIFKFHNPKAQNECGCGESFGV 122 (122)
T ss_pred EeecCCCcceEEEECCCCCCCcCCCCCeeC
Confidence 999999999999999999999999999963
No 7
>PLN03082 Iron-sulfur cluster assembly; Provisional
Probab=100.00 E-value=3.3e-35 Score=216.57 Aligned_cols=105 Identities=31% Similarity=0.630 Sum_probs=99.3
Q ss_pred hcccCHhHHHHHHHHHHHHhcCC---CCcEEEEEecCCCCCceeeeecccccccCCceeeeCCEEEEEccCchhhcCCcE
Q 033078 9 AEKIGPAVRRQAVTVRHLLQQRQ---RPYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTK 85 (128)
Q Consensus 9 ~~~IT~~A~~~~~~ik~ll~~~~---~~~IRI~v~~~GC~G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g~~ 85 (128)
.|+|||+|+++ |+++++.++ ..+|||+|+.+||+|++|.|.++++++++|.+++.+|++|+||+.+++||+|++
T Consensus 54 ~I~lTd~A~~~---ik~l~~~~~~~~~~~LRl~V~~gGCSG~~Y~~~ld~~~~~~D~v~e~~Gv~vvVD~~s~~~L~Gs~ 130 (163)
T PLN03082 54 AVHMTDNCIRR---LKELQTSEPSAEDKMLRLSVETGGCSGFQYVFELDDKTNSDDRVFEKDGVKLVVDNISYDFVKGAT 130 (163)
T ss_pred ceEECHHHHHH---HHHHHHhCCCCCCceEEEEEecCCCCCceeeeEEccCCCCCCEEEecCCeEEEECHHHHHHhCCCE
Confidence 58999999999 999998754 247999999999999999999998888999999999999999999999999999
Q ss_pred EEeeeCCCCceEEE-eCCCCCCCCCCCCCcCc
Q 033078 86 MDFVDDKLRSEFVF-INPNSKGQCGCGESFMT 116 (128)
Q Consensus 86 IDy~e~~~g~gF~i-~nP~~~~~CgCG~sf~~ 116 (128)
|||+++..+.+|+| +|||+..+||||+||+.
T Consensus 131 IDYve~l~~~gF~f~~NPna~~~CgCG~SF~v 162 (163)
T PLN03082 131 VDYVEELIRSAFVVSTNPSAVGGCSCKSSFMV 162 (163)
T ss_pred EEeecCCCCCeeEEecCCCCCCCcCCCCCEeC
Confidence 99999999999999 99999999999999986
No 8
>TIGR00049 Iron-sulfur cluster assembly accessory protein. Proteins in this subfamily appear to be associated with the process of FeS-cluster assembly. The HesB proteins are associated with the nif gene cluster and the Rhizobium gene IscN has been shown to be required for nitrogen fixation. Nitrogenase includes multiple FeS clusters and many genes for their assembly. The E. coli SufA protein is associated with SufS, a NifS homolog and SufD which are involved in the FeS cluster assembly of the FhnF protein. The Azotobacter protein IscA (homologs of which are also found in E.coli) is associated which IscS, another NifS homolog and IscU, a nifU homolog as well as other factors consistent with a role in FeS cluster chemistry. A homolog from Geobacter contains a selenocysteine in place of an otherwise invariant cysteine, further suggesting a role in redox chemistry.
Probab=100.00 E-value=4.6e-34 Score=195.71 Aligned_cols=102 Identities=41% Similarity=0.817 Sum_probs=97.2
Q ss_pred ccCHhHHHHHHHHHHHHhcCCC--CcEEEEEecCCCCCceeeeecccccccCCceeeeCCEEEEEccCchhhcCCcEEEe
Q 033078 11 KIGPAVRRQAVTVRHLLQQRQR--PYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTKMDF 88 (128)
Q Consensus 11 ~IT~~A~~~~~~ik~ll~~~~~--~~IRI~v~~~GC~G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g~~IDy 88 (128)
+|||+|+++ |+++++.++. .+|||+++.+||+|++|+|.++++++++|++++.+|++|+||+.+++||+|++|||
T Consensus 1 ~iT~~A~~~---l~~~~~~~~~~~~~lRi~~~~~Gc~G~~~~l~l~~~~~~~D~~~~~~gi~~~id~~~~~~l~~~~IDy 77 (105)
T TIGR00049 1 TLTDSAAKR---IKALLAGEGEPNLGLRVGVKGGGCSGLQYGLEFDDEPNEDDEVFEQDGVKVVVDPKSLPYLDGSEIDY 77 (105)
T ss_pred CcCHHHHHH---HHHHHhcCCCCceEEEEEEecCCCCCeEEEEeecCCCCCCCEEEEcCCEEEEEeHHHHhhhCCCEEEE
Confidence 589999999 9999987754 68999999999999999999998888999999999999999999999999999999
Q ss_pred eeCCCCceEEEeCCCCCCCCCCCCCcC
Q 033078 89 VDDKLRSEFVFINPNSKGQCGCGESFM 115 (128)
Q Consensus 89 ~e~~~g~gF~i~nP~~~~~CgCG~sf~ 115 (128)
+++..+.+|+|+|||+..+||||+||+
T Consensus 78 ~~~~~~~~f~i~nPn~~~~c~cg~sf~ 104 (105)
T TIGR00049 78 VEELLGSGFTFTNPNAKGTCGCGKSFS 104 (105)
T ss_pred eecCCcceEEEECCCCCccCCCCcCcc
Confidence 999999999999999999999999997
No 9
>KOG1120 consensus Fe-S cluster biosynthesis protein ISA1 (contains a HesB-like domain) [Inorganic ion transport and metabolism]
Probab=99.97 E-value=6.6e-31 Score=184.42 Aligned_cols=108 Identities=56% Similarity=1.045 Sum_probs=102.4
Q ss_pred hhhhcccCHhHHHHHHHHHHHHhcC-CCCcEEEEEecCCCCCceeeeecccccccCCceeeeCCEEEEEccCchhhcCCc
Q 033078 6 AQAAEKIGPAVRRQAVTVRHLLQQR-QRPYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGT 84 (128)
Q Consensus 6 ~~~~~~IT~~A~~~~~~ik~ll~~~-~~~~IRI~v~~~GC~G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g~ 84 (128)
+-+++.+||.|.++ |++|++++ +...|||.|+..||+|++|.|.+...+...|.+++++|++|+|||+++..|-|+
T Consensus 26 ~k~~ltLTp~Av~~---ik~ll~~~~e~~~lrigVk~rGCnGlsYtleY~~~kgkfDE~VeqdGv~I~ie~KA~l~liGt 102 (134)
T KOG1120|consen 26 RKAALTLTPSAVNH---IKQLLSDKPEDVCLRIGVKQRGCNGLSYTLEYTKTKGKFDEVVEQDGVRIFIEPKALLTLIGT 102 (134)
T ss_pred cccccccCHHHHHH---HHHHHHhCCcCceeEEEEecCCcCcceeeeeeeccCCCCcceeeecCcEEEEcccceeeeccc
Confidence 56789999999999 99999966 457899999999999999999999888899999999999999999999999999
Q ss_pred EEEeeeCCCCceEEEeCCCCCCCCCCCCCcCc
Q 033078 85 KMDFVDDKLRSEFVFINPNSKGQCGCGESFMT 116 (128)
Q Consensus 85 ~IDy~e~~~g~gF~i~nP~~~~~CgCG~sf~~ 116 (128)
++||+++..+++|+|.|||+++.||||+||+.
T Consensus 103 eMDyvddkL~Sefvf~npna~gtcGcgeSf~~ 134 (134)
T KOG1120|consen 103 EMDYVDDKLSSEFVFSNPNAKGTCGCGESFSV 134 (134)
T ss_pred eehhhhhhhcCceEeeCCCccccccccccccC
Confidence 99999999999999999999999999999973
No 10
>PRK11190 Fe/S biogenesis protein NfuA; Provisional
Probab=99.94 E-value=3.1e-26 Score=172.87 Aligned_cols=94 Identities=21% Similarity=0.311 Sum_probs=88.2
Q ss_pred cccCHhHHHHHHHHHHHHhcCCC-CcEEEEEecCCCCCceeeeec--ccccccCCceeeeCCEEEEEccCchhhcCCcEE
Q 033078 10 EKIGPAVRRQAVTVRHLLQQRQR-PYLKLGVKARGCNGLSYTLNY--ADERAKFDELVEDKGVKILIDPKALMHVIGTKM 86 (128)
Q Consensus 10 ~~IT~~A~~~~~~ik~ll~~~~~-~~IRI~v~~~GC~G~~y~l~l--~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g~~I 86 (128)
++|||+|+++ |++++++++. .+|||+|+++||+|++|+|.+ ++++.++|.+++.+|++|+||+.+++||+|++|
T Consensus 2 i~iTd~A~~~---i~~ll~~~~~~~~LRI~V~~gGCsG~~Y~~~~~~~~~~~~~D~v~e~~gv~v~Vd~~S~~~L~G~~I 78 (192)
T PRK11190 2 ITISDAAQAH---FAKLLANQEEGTQIRVFVINPGTPNAECGVSYCPPDAVEATDTELKFDGFSAYVDELSAPFLEDAEI 78 (192)
T ss_pred cEECHHHHHH---HHHHHhcCCCCceEEEEEECCCcCCceeeeEEeecCCCCCCCEEEEeCCEEEEECcchHhHhCCCEE
Confidence 6899999999 9999987653 579999999999999999999 677889999999999999999999999999999
Q ss_pred EeeeCCCCceEEEeCCCCCC
Q 033078 87 DFVDDKLRSEFVFINPNSKG 106 (128)
Q Consensus 87 Dy~e~~~g~gF~i~nP~~~~ 106 (128)
||+++..+++|+|+|||++.
T Consensus 79 Dyve~~~g~gF~f~NPNa~~ 98 (192)
T PRK11190 79 DFVTDQLGSQLTLKAPNAKM 98 (192)
T ss_pred EEeecCCCCceEEECCCCCC
Confidence 99999999999999999975
No 11
>TIGR03341 YhgI_GntY IscR-regulated protein YhgI. IscR (TIGR02010) is an iron-sulfur cluster-binding transcriptional regulator (see Genome Property GenProp0138). Members of this protein family include YhgI, whose expression is under control of IscR, and show sequence similarity to IscA, a known protein of iron-sulfur cluster biosynthesis. These two lines of evidence strongly suggest a role as an iron-sulfur cluster biosynthesis protein. An older study designated this protein GntY and suggested a role for it and for the product of an adjacent gene, based on complementation studies, in gluconate utilization.
Probab=99.93 E-value=9.4e-26 Score=169.99 Aligned_cols=94 Identities=21% Similarity=0.280 Sum_probs=87.3
Q ss_pred cccCHhHHHHHHHHHHHHhcCCC-CcEEEEEecCCCCCceeeeec--ccccccCCceeeeCCEEEEEccCchhhcCCcEE
Q 033078 10 EKIGPAVRRQAVTVRHLLQQRQR-PYLKLGVKARGCNGLSYTLNY--ADERAKFDELVEDKGVKILIDPKALMHVIGTKM 86 (128)
Q Consensus 10 ~~IT~~A~~~~~~ik~ll~~~~~-~~IRI~v~~~GC~G~~y~l~l--~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g~~I 86 (128)
++|||+|+++ |++++++++. .+|||+|+++||+|++|+|.+ +++++++|.+++.+|++|+||+.+++||+|++|
T Consensus 1 I~IT~~A~~~---l~~ll~~~~~~~~LRv~V~~gGCsG~~Y~l~~~~~~~~~~~D~v~e~~g~~v~Vd~~s~~~L~g~~I 77 (190)
T TIGR03341 1 ITITEAAQAY---LAKLLAKQNEGTGIRVFVVNPGTPYAECCVSYCPPDEVEPSDIKLEFNGFSAYVDALSAPFLEDAVI 77 (190)
T ss_pred CEECHHHHHH---HHHHHhhCCCCceEEEEEECCccCCceeeeEEcccCCCCCCCEEEEeCCEEEEEccchhhHhCCCEE
Confidence 5799999999 9999987653 479999999999999999998 567889999999999999999999999999999
Q ss_pred EeeeCCCCceEEEeCCCCCC
Q 033078 87 DFVDDKLRSEFVFINPNSKG 106 (128)
Q Consensus 87 Dy~e~~~g~gF~i~nP~~~~ 106 (128)
||+++.++++|+|+|||++.
T Consensus 78 Dyve~~~g~gF~f~NPna~~ 97 (190)
T TIGR03341 78 DFVTDRMGGQLTLKAPNAKM 97 (190)
T ss_pred EEeecCCCceeEEeCCccCC
Confidence 99999999999999999975
No 12
>TIGR01911 HesB_rel_seleno HesB-like selenoprotein. This model represents a family of small proteins related to HesB and its close homologs, which are likely to be invovlved in iron-sulfur cluster assembly (See TIGR00049 and pfam01521). Several members are selenoproteins, with a TGA codon and Sec residue that aligns to the conserved Cys of the HesB domain. A variable Cys/Ser/Gly-rich C-terminal region is not included in the seed alignment and model.
Probab=99.93 E-value=7e-26 Score=152.95 Aligned_cols=88 Identities=14% Similarity=0.286 Sum_probs=81.3
Q ss_pred hcccCHhHHHHHHHHHHHHhcCCC--CcEEEEEecCCCCCceeeeecccccccCCceeeeCCEEEEEccCchhhcCCcEE
Q 033078 9 AEKIGPAVRRQAVTVRHLLQQRQR--PYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTKM 86 (128)
Q Consensus 9 ~~~IT~~A~~~~~~ik~ll~~~~~--~~IRI~v~~~GC~G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g~~I 86 (128)
.|+|||+|+++ |++++++++. .+|||+|+++||+|++|.|.+++ ++++|.+++.+|++|+||+.+++||.|++|
T Consensus 3 ~i~lT~~A~~~---i~~ll~~~~~~~~~LRi~v~~gGCsG~~Y~~~ld~-~~~~D~v~~~~gv~v~vD~~s~~~l~G~~i 78 (92)
T TIGR01911 3 IVAMSDDAYEE---FKDFLKENDIDNDVIRIHFAGMGCMGPMFNLIADE-EKEGDEIEKIHDLTFLIDKNLIDQFGGFSI 78 (92)
T ss_pred ceEECHHHHHH---HHHHHHhCCCCCceEEEEEeCCCccCcccceEecC-CCCCCEEEEeCCEEEEECHHHHHHhCCCEE
Confidence 47899999999 9999987643 46999999999999999999986 589999999999999999999999999999
Q ss_pred EeeeCCCCceEEEe
Q 033078 87 DFVDDKLRSEFVFI 100 (128)
Q Consensus 87 Dy~e~~~g~gF~i~ 100 (128)
||+++..+.+|+|+
T Consensus 79 Dy~~~~~g~gF~~~ 92 (92)
T TIGR01911 79 ECAEENFGAGFSLD 92 (92)
T ss_pred EEecCCCCCcEEeC
Confidence 99999999999984
No 13
>KOG1119 consensus Mitochondrial Fe-S cluster biosynthesis protein ISA2 (contains a HesB-like domain) [Energy production and conversion; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.93 E-value=3.5e-26 Score=169.35 Aligned_cols=104 Identities=23% Similarity=0.584 Sum_probs=97.7
Q ss_pred cccCHhHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCceeeeecccccccCCceeeeCCEEEEEccCchhhcCCcEEEee
Q 033078 10 EKIGPAVRRQAVTVRHLLQQRQRPYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTKMDFV 89 (128)
Q Consensus 10 ~~IT~~A~~~~~~ik~ll~~~~~~~IRI~v~~~GC~G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g~~IDy~ 89 (128)
++|+|+|.++ ++|+....+ ..|||.|.++||+|++|.+.+|....++|.++..+|.+|+||..++.+++|.+|||.
T Consensus 94 ~~lsds~~kr---l~EI~~~~p-e~LRl~VegGGCsGFQYkf~LD~~in~dD~vf~e~~arVVvD~~SL~~~kGatvdy~ 169 (199)
T KOG1119|consen 94 LHLSDSCSKR---LKEIYENSP-EFLRLTVEGGGCSGFQYKFRLDNKINNDDRVFVENGARVVVDNVSLNLLKGATVDYT 169 (199)
T ss_pred EEehhHHHHH---HHHHHhCCc-ceEEEEEecCCccceEEEEEecCCCCCcceEEeeCCcEEEEeccchhhccCceeehH
Confidence 7899999999 888887654 689999999999999999999999999999999999999999999999999999999
Q ss_pred eCCCCceEEE-eCCCCCCCCCCCCCcCcC
Q 033078 90 DDKLRSEFVF-INPNSKGQCGCGESFMTT 117 (128)
Q Consensus 90 e~~~g~gF~i-~nP~~~~~CgCG~sf~~~ 117 (128)
++.++..|+| .||.++.+||||+||..+
T Consensus 170 ~ELIrSsF~ivnNP~A~~gCsCgSSF~ik 198 (199)
T KOG1119|consen 170 NELIRSSFRIVNNPSAKQGCSCGSSFDIK 198 (199)
T ss_pred HHHhhhhheeecCcccccCCCCCcccccC
Confidence 9999999998 489999999999999865
No 14
>PF01521 Fe-S_biosyn: Iron-sulphur cluster biosynthesis; InterPro: IPR000361 The proteins in this entry are variously annotated as iron-sulphur cluster insertion protein or Fe/S biogenesis protein. They appear to be involved in Fe-S cluster biogenesis. This family includes IscA, HesB, YadR and YfhF-like proteins. The hesB gene is expressed only under nitrogen fixation conditions []. IscA, an 11 kDa member of the hesB family of proteins, binds iron and [2Fe-2S] clusters, and participates in the biosynthesis of iron-sulphur proteins. IscA is able to bind at least 2 iron ions per dimer []. Other members of this family include various hypothetical proteins that also contain the NifU-like domain (IPR001075 from INTERPRO) suggesting that they too are able to bind iron and are involved in Fe-S cluster biogenesis. The HesB family are found in species as divergent as Homo sapiens (Human) and Haemophilus influenzae suggesting that these proteins are involved in basic cellular functions []. ; PDB: 2D2A_A 1X0G_D 1NWB_A 2K4Z_A 1R94_B 1R95_A 1S98_B 2P2E_A 2QGO_A 2APN_A.
Probab=99.89 E-value=1.3e-23 Score=145.07 Aligned_cols=100 Identities=32% Similarity=0.607 Sum_probs=92.8
Q ss_pred hcccCHhHHHHHHHHHHHHhcCCCCcEEEEEecCC--------CC-Cceeeeeccccc-ccCCceeeeCCEEEEEccCch
Q 033078 9 AEKIGPAVRRQAVTVRHLLQQRQRPYLKLGVKARG--------CN-GLSYTLNYADER-AKFDELVEDKGVKILIDPKAL 78 (128)
Q Consensus 9 ~~~IT~~A~~~~~~ik~ll~~~~~~~IRI~v~~~G--------C~-G~~y~l~l~~~~-~e~D~v~~~~Gi~~~id~~~~ 78 (128)
.++|||+|+++ |++++++++.. |||++..+| |+ |++|.|.+++++ .+.|.+++.+|++|+|++.+.
T Consensus 2 ~I~iT~~A~~~---l~~~~~~~~~~-irl~~~~gg~p~~~~~~C~~g~~y~l~~~~~~~~~~D~~~~~~~~~i~i~~~~~ 77 (112)
T PF01521_consen 2 KITITDAAAER---LKQLLKEDPKK-IRLFVDDGGSPYSREGCCSIGFSYSLALVDKPDEEYDIVIESNGFTIYIDKYSL 77 (112)
T ss_dssp EEEE-HHHHHH---HHHHHHCTTES-EEEEEEEESSCCGGSS-TTSEEEEEEEEESSTSTTSCEEEEETTEEEEEEGGGH
T ss_pred EEEECHHHHHH---HHHHHhcCCCE-EEEEEECCCcccccCCCCCCCcEEeEEEeecccccceEEEeeeEEEEEEeccHh
Confidence 37899999999 99999987655 999999998 99 999999999877 799999999999999999999
Q ss_pred hhc-CCcEEEeeeCCCCceEEEeCCCCCCCCCCCC
Q 033078 79 MHV-IGTKMDFVDDKLRSEFVFINPNSKGQCGCGE 112 (128)
Q Consensus 79 ~~L-~g~~IDy~e~~~g~gF~i~nP~~~~~CgCG~ 112 (128)
+|| ++++|||.++..+.+|++.||+....|+||.
T Consensus 78 ~~l~~~~~iD~~~~~~~~~f~~~~~~~~~~~~~~~ 112 (112)
T PF01521_consen 78 WYLDEGLTIDYVEDLGGFGFKSDNPNLDSNCGCGD 112 (112)
T ss_dssp HHH-TTEEEEEEEETTEEEEEEETTTEEEEECECE
T ss_pred hhhhCCCEEEEEEccCccEEEECCCCcCceeccCC
Confidence 999 9999999999999999999999999999984
No 15
>COG4841 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=99.55 E-value=1.8e-14 Score=95.73 Aligned_cols=87 Identities=17% Similarity=0.253 Sum_probs=76.0
Q ss_pred hcccCHhHHHHHHHHHHHHhcCCCCcEEEEEecCCCC----CceeeeecccccccCCceeeeCCEEEEEccCchhhcCC-
Q 033078 9 AEKIGPAVRRQAVTVRHLLQQRQRPYLKLGVKARGCN----GLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIG- 83 (128)
Q Consensus 9 ~~~IT~~A~~~~~~ik~ll~~~~~~~IRI~v~~~GC~----G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g- 83 (128)
.++||+.|.+- +++.+...++..||++++-+||+ |++.++..+ .|+|--...+++|++|+|+.+.+||+++
T Consensus 2 ni~vtd~A~~w---fk~E~~l~~g~~vrffvRyGG~~~~~~GFS~gv~~e-~PkE~g~~q~~Dgltffiee~DlWYF~d~ 77 (95)
T COG4841 2 NIEVTDQALKW---FKEELDLEEGNKVRFFVRYGGCSSLQQGFSLGVAKE-VPKEIGYKQEYDGLTFFIEEKDLWYFDDH 77 (95)
T ss_pred ceEEcHHHHHH---HHHhcCCCCCCEEEEEEEEcCcccccCCcceeeecc-CchhhchheeecCeEEEEecCceEEEcCC
Confidence 36899999999 99999999999999999999998 566666554 4777677778999999999999999999
Q ss_pred -cEEEeeeCCCCceEEE
Q 033078 84 -TKMDFVDDKLRSEFVF 99 (128)
Q Consensus 84 -~~IDy~e~~~g~gF~i 99 (128)
++|||.++.....|+.
T Consensus 78 d~~v~y~~~~Dei~fs~ 94 (95)
T COG4841 78 DLKVDYSPDTDEISFSY 94 (95)
T ss_pred cEEEeccCCCCcceeec
Confidence 9999999988888765
No 16
>COG4918 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=97.68 E-value=9.3e-05 Score=50.77 Aligned_cols=78 Identities=14% Similarity=0.177 Sum_probs=60.5
Q ss_pred cccCHhHHHHHHHHHHHHhcCC--CCcEEEEEecCCCCC---ceeeeecccccccCCceeeeCCEEEEEccCchhhcCC-
Q 033078 10 EKIGPAVRRQAVTVRHLLQQRQ--RPYLKLGVKARGCNG---LSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIG- 83 (128)
Q Consensus 10 ~~IT~~A~~~~~~ik~ll~~~~--~~~IRI~v~~~GC~G---~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g- 83 (128)
+.+|++|+.. |+..+.... ...+|....+.+|.+ +.|.+ .++.+..|..++.++.++||-.-..-||++
T Consensus 3 Itftd~a~~~---l~~a~d~nl~~~~hl~ydtEgc~Ca~SGi~t~rl--vae~tg~d~~idsn~gPiyik~~~~~Ff~D~ 77 (114)
T COG4918 3 ITFTDKAADK---LKAAGDVNLVFDDHLLYDTEGCACAGSGISTYRL--VAEETGFDASIDSNFGPIYIKDYGSYFFQDE 77 (114)
T ss_pred EEecHHHHHH---HHHhhccCcCccceEEEeccccccccCCcceEEE--EEeccCcccccccCCCcEEEEecceeEecce
Confidence 5789999999 988887653 356777777777764 45555 445567899999999999998887777777
Q ss_pred cEEEeeeCC
Q 033078 84 TKMDFVDDK 92 (128)
Q Consensus 84 ~~IDy~e~~ 92 (128)
++|||.+..
T Consensus 78 mtidyN~~~ 86 (114)
T COG4918 78 MTIDYNPSY 86 (114)
T ss_pred eeeecCCcc
Confidence 999999864
No 17
>COG3564 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=96.57 E-value=0.023 Score=38.89 Aligned_cols=90 Identities=20% Similarity=0.184 Sum_probs=61.1
Q ss_pred hhcccCHhHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCceeeeeccc---ccccCCcee-eeCCEEEEEccCchhhcCC
Q 033078 8 AAEKIGPAVRRQAVTVRHLLQQRQRPYLKLGVKARGCNGLSYTLNYAD---ERAKFDELV-EDKGVKILIDPKALMHVIG 83 (128)
Q Consensus 8 ~~~~IT~~A~~~~~~ik~ll~~~~~~~IRI~v~~~GC~G~~y~l~l~~---~~~e~D~v~-~~~Gi~~~id~~~~~~L~g 83 (128)
+.|.+|++|.+- |+++..+.+. | +|-..+||+.=+--|.... -..+.|+.. +.+|++|||......+-+-
T Consensus 5 ~~V~aT~aAl~L---i~~l~~~hgp--v-mFHQSGGCCDGSsPMCYP~~~fivGd~DvlLG~i~gvPvyIs~~QyeaWKH 78 (116)
T COG3564 5 ARVLATPAALDL---IAELQAEHGP--V-MFHQSGGCCDGSSPMCYPRADFIVGDNDVLLGEIDGVPVYISGPQYEAWKH 78 (116)
T ss_pred cceecCHHHHHH---HHHHHHhcCC--E-EEeccCCccCCCCCccccccceeecCCceEEeeeCCEEEEecCcHHhhhhc
Confidence 568899999999 8877765432 3 3446788863333343321 112456555 6899999999988877665
Q ss_pred --cEEEeeeCCCCceEEEeCCCC
Q 033078 84 --TKMDFVDDKLRSEFVFINPNS 104 (128)
Q Consensus 84 --~~IDy~e~~~g~gF~i~nP~~ 104 (128)
++||.+... |+.|.+.|-..
T Consensus 79 TqLIIDVVpGR-GGmFSLdng~E 100 (116)
T COG3564 79 TQLIIDVVPGR-GGMFSLDNGRE 100 (116)
T ss_pred cEEEEEEecCC-CceeEccCCcc
Confidence 788988753 67899986544
No 18
>PF05610 DUF779: Protein of unknown function (DUF779); InterPro: IPR008497 This family consists of several bacterial proteins of unknown function.
Probab=95.80 E-value=0.051 Score=36.85 Aligned_cols=65 Identities=22% Similarity=0.276 Sum_probs=47.3
Q ss_pred ecCCCCCceeeeeccc---ccccCCcee-eeCCEEEEEccCchhhcCC--cEEEeeeCCCCceEEEeCCCCC
Q 033078 40 KARGCNGLSYTLNYAD---ERAKFDELV-EDKGVKILIDPKALMHVIG--TKMDFVDDKLRSEFVFINPNSK 105 (128)
Q Consensus 40 ~~~GC~G~~y~l~l~~---~~~e~D~v~-~~~Gi~~~id~~~~~~L~g--~~IDy~e~~~g~gF~i~nP~~~ 105 (128)
..+||+.-+-=|-+.. ...+.|+.+ ++.|++|||.++...|.+. ++||-++. .+.+|.+.+|...
T Consensus 17 QSGGCCDGSaPmC~p~gef~~g~~DV~LG~i~g~~fym~~~qfeywkht~L~iDVv~G-rG~~FSLE~~~G~ 87 (95)
T PF05610_consen 17 QSGGCCDGSAPMCYPAGEFRVGDSDVLLGEIGGVPFYMSKDQFEYWKHTQLTIDVVPG-RGGGFSLEAPEGK 87 (95)
T ss_pred eCCCCCCCCcceeEeCCceecCCCcEEEEEecCeEEEEchHHHHHhhCcEEEEEEEec-CCCeeeccCCCCc
Confidence 5788874343444421 123556655 7899999999999999998 88898874 4789999988653
No 19
>cd01234 PH_CADPS CADPS (Ca2+-dependent activator protein) Pleckstrin homology (PH) domain. CADPS (Ca2+-dependent activator protein) Pleckstrin homology (PH) domain. CADPS is a calcium-dependent activator involved in secretion. It contains a central PH domain that binds to phosphoinositide 4,5 bisphosphate containing liposomes. However, membrane association may also be mediated by binding to phosphatidlyserine via general electrostatic interactions. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=64.76 E-value=5.4 Score=27.83 Aligned_cols=30 Identities=20% Similarity=0.439 Sum_probs=19.8
Q ss_pred ccCchhhcCCcEEEeeeCCCCceEEEeCCCCCCCCC
Q 033078 74 DPKALMHVIGTKMDFVDDKLRSEFVFINPNSKGQCG 109 (128)
Q Consensus 74 d~~~~~~L~g~~IDy~e~~~g~gF~i~nP~~~~~Cg 109 (128)
+|.-...|+|.||||.+...+ ||+..-.|-
T Consensus 45 ~P~e~~qldGyTvDy~~~~~~------~~~~~~~~~ 74 (117)
T cd01234 45 EPTEFIQLDGYTVDYMPESDP------DPNSELSLQ 74 (117)
T ss_pred CchhheeecceEEeccCCCCC------Ccccccccc
Confidence 455577899999999876543 455544444
No 20
>KOG4777 consensus Aspartate-semialdehyde dehydrogenase [Amino acid transport and metabolism]
Probab=57.05 E-value=11 Score=30.64 Aligned_cols=40 Identities=20% Similarity=0.338 Sum_probs=36.1
Q ss_pred eCCEEEEEccCchhhcCCcEEEeeeCCCCceEEEeCCCCC
Q 033078 66 DKGVKILIDPKALMHVIGTKMDFVDDKLRSEFVFINPNSK 105 (128)
Q Consensus 66 ~~Gi~~~id~~~~~~L~g~~IDy~e~~~g~gF~i~nP~~~ 105 (128)
.+|++++|+.---+.|+++.+-..+..++.||.|.|||-.
T Consensus 114 e~~VPLvvP~VNpehld~ik~~~~~~k~~~G~iI~nsNCS 153 (361)
T KOG4777|consen 114 EDGVPLVVPEVNPEHLDGIKVGLDTGKMGKGAIIANSNCS 153 (361)
T ss_pred CCCCceEecccCHHHhhhheeccccCCCCCceEEecCCCC
Confidence 5789999999888999999999999999999999999853
No 21
>COG1660 Predicted P-loop-containing kinase [General function prediction only]
Probab=53.97 E-value=32 Score=27.75 Aligned_cols=49 Identities=18% Similarity=0.325 Sum_probs=33.1
Q ss_pred HHHHHHhcCCCCcEEEEEecCCCCCceeeeecccccccCCceeeeCCEEEEEccCchhhc
Q 033078 22 TVRHLLQQRQRPYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHV 81 (128)
Q Consensus 22 ~ik~ll~~~~~~~IRI~v~~~GC~G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L 81 (128)
+|++.+.......++|.+... ||+||+ |.+.|.|++ ++|.=+|-..+-|
T Consensus 150 ~i~~~f~~~~~~~~~v~v~SF---GFKyGi-----P~DADlVFD---VRfLPNP~y~peL 198 (286)
T COG1660 150 RIRTRFLGKEERTLTVTVESF---GFKYGI-----PIDADLVFD---VRFLPNPHYDPEL 198 (286)
T ss_pred HHHHHHccCCCcceEEEEEec---ccccCC-----CCCcceEEE---ecccCCCcccccc
Confidence 477777766677899998876 488888 557788876 4454444443333
No 22
>COG5134 Uncharacterized conserved protein [Function unknown]
Probab=51.82 E-value=27 Score=27.33 Aligned_cols=51 Identities=12% Similarity=0.281 Sum_probs=35.9
Q ss_pred HHHHHhcCC---CCcEEEEEecCCCCCceeeeecccccccCCceeeeCCEEEEEccC
Q 033078 23 VRHLLQQRQ---RPYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPK 76 (128)
Q Consensus 23 ik~ll~~~~---~~~IRI~v~~~GC~G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~ 76 (128)
.++++.+.. ...-|+.+.-.+|+. ...+ ...|..+|.|++.+|++=+.+..
T Consensus 61 vkE~~~dK~y~~~kiYRf~I~C~~C~n-~i~~--RTDPkN~~YV~EsGg~R~i~pq~ 114 (272)
T COG5134 61 VKEEIGDKSYYTTKIYRFSIKCHLCSN-PIDV--RTDPKNTEYVVESGGRRKIEPQD 114 (272)
T ss_pred HHHHhcccccceeEEEEEEEEccCCCC-ceee--ecCCCCceEEEecCceeecCccc
Confidence 456666553 246788899999975 3444 44578999999999998665443
No 23
>cd03063 TRX_Fd_FDH_beta TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of formate to carbon dioxide accompanied by the reduction of NAD to NADH. FDH is a heteromeric enzyme composed of four nonidentical subunits (alpha, beta, gamma and delta). The FDH beta subunit contains a NADH:ubiquinone oxidoreductase (Nuo) F domain C-terminal to a Fd-like domain without the active site cysteines. The absence of conserved metal-binding residues in the putative active site suggests that members of this subfamily have lost the ability to bind iron-sulfur clusters in the N-terminal Fd-like domain. The C-terminal NuoF domain is a component of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. NuoF contains one [4Fe-4S] c
Probab=43.42 E-value=45 Score=22.24 Aligned_cols=33 Identities=15% Similarity=0.225 Sum_probs=20.8
Q ss_pred cCHhHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCc
Q 033078 12 IGPAVRRQAVTVRHLLQQRQRPYLKLGVKARGCNGL 47 (128)
Q Consensus 12 IT~~A~~~~~~ik~ll~~~~~~~IRI~v~~~GC~G~ 47 (128)
|.-.|++-...|++.+++++ |++.+..-||-|+
T Consensus 12 iAaGA~~V~~al~~ei~~~g---l~v~v~~tGC~G~ 44 (92)
T cd03063 12 LALGADEVAEAIEAEAAARG---LAATIVRNGSRGM 44 (92)
T ss_pred hhhCHHHHHHHHHHHHHHcC---CeEEEEEecCcee
Confidence 33445555444666665543 3788889999886
No 24
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=41.08 E-value=15 Score=26.55 Aligned_cols=20 Identities=30% Similarity=0.687 Sum_probs=14.4
Q ss_pred eEEEeCCCCC-CCCCCCCCcC
Q 033078 96 EFVFINPNSK-GQCGCGESFM 115 (128)
Q Consensus 96 gF~i~nP~~~-~~CgCG~sf~ 115 (128)
-|+...|... .-|.||.||.
T Consensus 60 lfi~qs~~~rv~rcecghsf~ 80 (165)
T COG4647 60 LFICQSAQKRVIRCECGHSFG 80 (165)
T ss_pred EEEEecccccEEEEecccccc
Confidence 3666666554 4699999997
No 25
>KOG1667 consensus Zn2+-binding protein Melusin/RAR1, contains CHORD domain [General function prediction only]
Probab=40.77 E-value=22 Score=28.57 Aligned_cols=35 Identities=17% Similarity=0.538 Sum_probs=26.0
Q ss_pred hhcccCHhHHHHHHHHHHHHhcC-C---CCcEEEEE--ecCCCC
Q 033078 8 AAEKIGPAVRRQAVTVRHLLQQR-Q---RPYLKLGV--KARGCN 45 (128)
Q Consensus 8 ~~~~IT~~A~~~~~~ik~ll~~~-~---~~~IRI~v--~~~GC~ 45 (128)
..|.|||++... |+++|+.+ + ...|+|.. ++.||+
T Consensus 111 ~~~~~tp~isaa---le~~l~~kkea~q~~~I~iGtsCkN~GCs 151 (320)
T KOG1667|consen 111 LNVEVTPGISAA---LEKALKEKKEAAQSADIQIGTSCKNNGCS 151 (320)
T ss_pred cCcccCcchhHH---HHHHHHhcchhhcCcCceeCCcccCCCcc
Confidence 356799999999 88888743 2 24599986 588997
No 26
>PF07610 DUF1573: Protein of unknown function (DUF1573); InterPro: IPR011467 These hypothetical proteins from bacteria, such as Rhodopirellula baltica, Bacteroides thetaiotaomicron and Porphyromonas gingivalis, share a region of conserved sequence towards their N termini.
Probab=35.85 E-value=18 Score=20.59 Aligned_cols=9 Identities=33% Similarity=1.114 Sum_probs=6.0
Q ss_pred CCCCCCCCC
Q 033078 105 KGQCGCGES 113 (128)
Q Consensus 105 ~~~CgCG~s 113 (128)
..+|||=..
T Consensus 18 ~tsCgCt~~ 26 (45)
T PF07610_consen 18 QTSCGCTTA 26 (45)
T ss_pred eEccCCEEe
Confidence 358999543
No 27
>PF11146 DUF2905: Protein of unknown function (DUF2905); InterPro: IPR021320 This is a family of bacterial proteins conserved of unknown function.
Probab=33.72 E-value=44 Score=20.94 Aligned_cols=21 Identities=10% Similarity=0.004 Sum_probs=17.2
Q ss_pred cccCCceeeeCCEEEEEccCc
Q 033078 57 RAKFDELVEDKGVKILIDPKA 77 (128)
Q Consensus 57 ~~e~D~v~~~~Gi~~~id~~~ 77 (128)
.-++|+.++.+++++|.+=.+
T Consensus 29 rLPGDi~i~~~~~~fyfPi~s 49 (64)
T PF11146_consen 29 RLPGDIRIRRGNFTFYFPITS 49 (64)
T ss_pred CCCccEEEEECCEEEEEehHH
Confidence 348999999999999987543
No 28
>COG1395 Predicted transcriptional regulator [Transcription]
Probab=33.35 E-value=1.8e+02 Score=23.89 Aligned_cols=72 Identities=13% Similarity=0.138 Sum_probs=49.8
Q ss_pred ccCHhHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCceeeeecccccccCCceeeeCCEEEEEccCchhhcCCcEEEeee
Q 033078 11 KIGPAVRRQAVTVRHLLQQRQRPYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTKMDFVD 90 (128)
Q Consensus 11 ~IT~~A~~~~~~ik~ll~~~~~~~IRI~v~~~GC~G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g~~IDy~e 90 (128)
.|++.++++ |+.+-+.-....|-|..+..+ ++-++.+|++-.|++++=......|+.|-..=...
T Consensus 52 ~l~~e~a~e---Lkkla~~l~aspivVg~r~~~------------~~LE~GVVY~R~gV~~vs~~Tf~~~~~Ge~P~v~a 116 (313)
T COG1395 52 GLSRETAEE---LKKLAKSLLASPIVVGLRTKN------------EPLEDGVVYERYGVPAVSPETFYDYVEGEPPYVYA 116 (313)
T ss_pred ccCHHHHHH---HHHHHHHhCCCceEEEEecCC------------CccccceEEEecCceeeCHHHHHHHhCCCCceEEe
Confidence 578888888 555554445566666665432 35688999999999999888888899986554444
Q ss_pred CCCCceEEE
Q 033078 91 DKLRSEFVF 99 (128)
Q Consensus 91 ~~~g~gF~i 99 (128)
+. +||.+
T Consensus 117 ~r--GG~yV 123 (313)
T COG1395 117 AR--GGFYV 123 (313)
T ss_pred cC--CeEEE
Confidence 43 34544
No 29
>PF00919 UPF0004: Uncharacterized protein family UPF0004; InterPro: IPR013848 The methylthiotransferase (MTTase) or miaB-like family is named after the (dimethylallyl)adenosine tRNA MTTase miaB protein, which catalyses a C-H to C-S bond conversion in the methylthiolation of tRNA. A related bacterial enzyme rimO performs a similar methylthiolation, but on a protein substrate. RimO acts on the ribosomal protein S12 and forms a separate MTTase subfamily. The miaB-subfamily includes mammalian CDK5 regulatory subunit-associated proteins and similar proteins in other eukaryotes. Two other subfamilies, yqeV and CDKAL1, are named after a Bacillus subtilis and a human protein, respectively. While yqeV-like proteins are found in bacteria, CDKAL1 subfamily members occur in eukaryotes and in archaebacteria. The likely MTTases from these 4 subfamilies contain an N-terminal MTTase domain, a central radical generating fold and a C-terminal TRAM domain (see PDOC50926 from PROSITEDOC). The core forms a radical SAM fold (or AdoMet radical), containing a cysteine motif CxxxCxxC that binds a [4Fe-4S] cluster [, , ]. A reducing equivalent from the [4Fe-4S]+ cluster is used to cleave S-adenosylmethionine (SAM) to generate methionine and a 5'-deoxyadenosyl radical. The latter is thought to produce a reactive substrate radical that is amenable to sulphur insertion [, ]. The N-terminal MTTase domain contains 3 cysteines that bind a second [4Fe-4S] cluster, in addition to the radical-generating [4Fe-4S] cluster, which could be involved in the thiolation reaction. The C-terminal TRAM domain is not shared with other radical SAM proteins outside the MTTase family. The TRAM domain can bind to RNA substrate and seems to be important for substrate recognition. The tertiary structure of the central radical SAM fold has six beta/alpha motifs resembling a three-quarter TIM barrel core (see PDOC00155 from PROSITEDOC) []. The N-terminal MTTase domain might form an additional [beta/alpha]2 TIM barrel unit []. ; GO: 0003824 catalytic activity, 0051539 4 iron, 4 sulfur cluster binding, 0009451 RNA modification
Probab=33.01 E-value=61 Score=21.58 Aligned_cols=42 Identities=19% Similarity=0.373 Sum_probs=25.0
Q ss_pred hcccCHhHHHHHHH-HHHHHhcCCCCcEEEEEecCCCCCceeeeec
Q 033078 9 AEKIGPAVRRQAVT-VRHLLQQRQRPYLKLGVKARGCNGLSYTLNY 53 (128)
Q Consensus 9 ~~~IT~~A~~~~~~-ik~ll~~~~~~~IRI~v~~~GC~G~~y~l~l 53 (128)
|+.+|++|.+++.. |+++.+.. ....+|.+ .||-.-.+.=.+
T Consensus 44 TC~V~~~Ae~k~~~~i~~l~~~~-~~~~~ivv--~GC~aq~~~~~l 86 (98)
T PF00919_consen 44 TCTVRESAEQKSRNRIRKLKKLK-KPGAKIVV--TGCMAQRYGEEL 86 (98)
T ss_pred cCCCCcHHHHHHHHHHHHHHHhc-CCCCEEEE--EeCccccChHHH
Confidence 67889999777333 33443333 35677776 568655554444
No 30
>PRK01194 V-type ATP synthase subunit E; Provisional
Probab=32.18 E-value=51 Score=24.51 Aligned_cols=39 Identities=13% Similarity=0.158 Sum_probs=31.2
Q ss_pred CCEEEEEccCchhhcCCcEEEeeeCCCCceEEEeCCCCC
Q 033078 67 KGVKILIDPKALMHVIGTKMDFVDDKLRSEFVFINPNSK 105 (128)
Q Consensus 67 ~Gi~~~id~~~~~~L~g~~IDy~e~~~g~gF~i~nP~~~ 105 (128)
++..|++.+.+...+....|-|.+...-+||++.+++..
T Consensus 119 ~~~~v~~~~~D~~~i~~~~l~~~~~~~~GGvil~s~dG~ 157 (185)
T PRK01194 119 EDCIIKVSESDKKKINNAKIKFADIDPYGGILAYSRDGK 157 (185)
T ss_pred CCeEEEEcHHhHHHHHhCceeeCCccccccEEEEeCCCc
Confidence 577888888888888888877776556789999887664
No 31
>KOG3348 consensus BolA (bacterial stress-induced morphogen)-related protein [Signal transduction mechanisms]
Probab=28.88 E-value=1.3e+02 Score=20.03 Aligned_cols=33 Identities=12% Similarity=0.317 Sum_probs=22.2
Q ss_pred HHHHHhcC-CCCcEEEEEecCCCCCceeeeecccc
Q 033078 23 VRHLLQQR-QRPYLKLGVKARGCNGLSYTLNYADE 56 (128)
Q Consensus 23 ik~ll~~~-~~~~IRI~v~~~GC~G~~y~l~l~~~ 56 (128)
|+++|.+. +...|++.=..+||+. +|.+.+..+
T Consensus 8 l~~~L~~~l~p~~v~V~D~SgGCG~-~F~v~IvS~ 41 (85)
T KOG3348|consen 8 LEELLTEALEPEHVEVQDVSGGCGS-MFDVVIVSA 41 (85)
T ss_pred HHHHHHhhcCceEEEEEEcCCCccc-eEEEEEEcc
Confidence 77777765 3446777666888864 687777543
No 32
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=27.58 E-value=35 Score=17.43 Aligned_cols=13 Identities=38% Similarity=0.764 Sum_probs=9.1
Q ss_pred CCCCCCC-CCCCcC
Q 033078 103 NSKGQCG-CGESFM 115 (128)
Q Consensus 103 ~~~~~Cg-CG~sf~ 115 (128)
.....|. ||-+|.
T Consensus 12 ~~~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 12 ESAKFCPHCGYDFE 25 (26)
T ss_pred hhcCcCCCCCCCCc
Confidence 3345687 998885
No 33
>PF03668 ATP_bind_2: P-loop ATPase protein family; InterPro: IPR005337 This entry represents UPF0042 nucleotide-binding proteins. This is a family of putative P-loop ATPases [], as they contain an ATP-binding site and display ATPase and GTPase activities.; GO: 0005524 ATP binding
Probab=27.24 E-value=88 Score=25.22 Aligned_cols=49 Identities=16% Similarity=0.335 Sum_probs=29.9
Q ss_pred HHHHHhcCCCCcEEEEEecCCCCCceeeeecccccccCCceeeeCCEEEEEccCchhhcC
Q 033078 23 VRHLLQQRQRPYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVI 82 (128)
Q Consensus 23 ik~ll~~~~~~~IRI~v~~~GC~G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L~ 82 (128)
|.+.+.......++|.+... |+.||+ |.+.|.|++ +++.=+|-..+-|+
T Consensus 150 i~~~~~~~~~~~l~v~i~SF---GfK~Gi-----P~dAD~VfD---vRfLpNP~y~~~Lr 198 (284)
T PF03668_consen 150 IRERFGGDKESRLTVTIQSF---GFKYGI-----PPDADLVFD---VRFLPNPYYVPELR 198 (284)
T ss_pred HHHHhccCCCCceEEEEEEe---ccccCC-----CCCCCEEEE---cCcCCCCCCChhhh
Confidence 44455444446788888776 477776 446788876 44555555544443
No 34
>PF05141 DIT1_PvcA: Pyoverdine/dityrosine biosynthesis protein; InterPro: IPR007817 This entry is found in DIT1, a protein is involved in the synthesis of dityrosine []. Dityrosine is a sporulation-specific component of the Saccharomyces cerevisiae ascospore wall that is essential for the resistance of the spores to adverse environmental conditions. Q9I1L5 from SWISSPROT is involved in the biosynthesis of pyoverdine [].; PDB: 3E59_C.
Probab=27.10 E-value=2.7e+02 Score=22.30 Aligned_cols=56 Identities=14% Similarity=0.214 Sum_probs=32.2
Q ss_pred HHHhcCCCCcEEEEEecCCCCCceeeeecccc--------cccCCceeeeCCEEEEEccCchhh
Q 033078 25 HLLQQRQRPYLKLGVKARGCNGLSYTLNYADE--------RAKFDELVEDKGVKILIDPKALMH 80 (128)
Q Consensus 25 ~ll~~~~~~~IRI~v~~~GC~G~~y~l~l~~~--------~~e~D~v~~~~Gi~~~id~~~~~~ 80 (128)
.+++..=...||+.+=.....++.|++.|-+. |..+-+++..+|--.++.+..+.-
T Consensus 205 ~lv~~~fP~~iRLSIH~~~~~~~K~gI~L~p~~~~~~~~TPWH~~v~~~~dg~~~~~~~~~~~~ 268 (278)
T PF05141_consen 205 NLVEERFPDHIRLSIHPSTNAGPKFGIRLLPTKDDFLIPTPWHSSVVVLADGEFILVHRSEVEK 268 (278)
T ss_dssp HHHHHHSTTSEEEESS---TTSSEEEB-SSTTS-TT--S-GGGSEEEE-ETTEEEEE-HHHHHH
T ss_pred HHHHHhCCCcEEEEEcCCCCCCceEEEEeCCCCCCCccCCCccceEEEEcCCeEEEEEHHHhhc
Confidence 44444334689999988888899999999632 222224444777766666665555
No 35
>PF03749 SfsA: Sugar fermentation stimulation protein; InterPro: IPR005224 The sugar fermentation stimulation protein is a probable regulatory factor involved in maltose metabolism. It contains a putative DNA-binding domain, and was isolated as a gene which enabled Escherichia coli W3110 (strain MK2001) to use maltose [].
Probab=26.91 E-value=62 Score=24.86 Aligned_cols=40 Identities=10% Similarity=0.039 Sum_probs=21.9
Q ss_pred cCHhHHHHHHHHHHHHhcCCCCcEEEEEecCCCCCceeee
Q 033078 12 IGPAVRRQAVTVRHLLQQRQRPYLKLGVKARGCNGLSYTL 51 (128)
Q Consensus 12 IT~~A~~~~~~ik~ll~~~~~~~IRI~v~~~GC~G~~y~l 51 (128)
.|++++++++.|.+++++.-...|=+.+...+|..+.-+-
T Consensus 138 pT~RG~kHL~eL~~l~~~G~ra~vlFvvqr~d~~~f~p~~ 177 (215)
T PF03749_consen 138 PTERGRKHLRELAELAEEGYRAAVLFVVQRPDAERFRPNR 177 (215)
T ss_pred cchHHHHHHHHHHHHHhccCcEEEEEEEECCCCCEEeECh
Confidence 6999999944343333332233455555566666544433
No 36
>KOG0259 consensus Tyrosine aminotransferase [Amino acid transport and metabolism]
Probab=25.52 E-value=73 Score=27.18 Aligned_cols=91 Identities=20% Similarity=0.319 Sum_probs=45.5
Q ss_pred HhHHHHHHHHHHHHhcCCC-----CcEEEEEecCCCC-CceeeeecccccccCCceeeeCCEEEEEccC--------chh
Q 033078 14 PAVRRQAVTVRHLLQQRQR-----PYLKLGVKARGCN-GLSYTLNYADERAKFDELVEDKGVKILIDPK--------ALM 79 (128)
Q Consensus 14 ~~A~~~~~~ik~ll~~~~~-----~~IRI~v~~~GC~-G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~--------~~~ 79 (128)
+.|+++ +.+.+.+.-. +.+-| ..||+ ++.+.+..-..| ...+++-.-|+..|--.. ...
T Consensus 106 ~~AR~A---VAeYl~~~l~~kl~a~DV~l---tsGC~qAIe~~i~~LA~p-~aNILlPrPGfp~Y~~~a~~~~lEVR~yd 178 (447)
T KOG0259|consen 106 LPARRA---VAEYLNRDLPNKLTADDVVL---TSGCSQAIELAISSLANP-GANILLPRPGFPLYDTRAIYSGLEVRYYD 178 (447)
T ss_pred HHHHHH---HHHHhhcCCCCccCcCceEE---eccchHHHHHHHHHhcCC-CCceecCCCCCchHHHhhhhcCceeEeec
Confidence 346666 7777765421 23433 56896 555555443233 234555556666552221 122
Q ss_pred hc--CCcEEEeee-----CCCCceEEEeCCCCCCCCCCCCCcC
Q 033078 80 HV--IGTKMDFVD-----DKLRSEFVFINPNSKGQCGCGESFM 115 (128)
Q Consensus 80 ~L--~g~~IDy~e-----~~~g~gF~i~nP~~~~~CgCG~sf~ 115 (128)
+| ++.+||+.. |+.-.-..|.||+.. ||+-|+
T Consensus 179 lLPe~~weIDL~~veal~DENT~AivviNP~NP----cGnVys 217 (447)
T KOG0259|consen 179 LLPEKDWEIDLDGVEALADENTVAIVVINPNNP----CGNVYS 217 (447)
T ss_pred ccCcccceechHHHHHhhccCeeEEEEeCCCCC----Cccccc
Confidence 22 235555443 122233455688885 787775
No 37
>PF07305 DUF1454: Protein of unknown function (DUF1454); InterPro: IPR009918 This family consists of several Enterobacterial sequences of around 200 residues in length, which are often known as YiiQ proteins. The function of this family is unknown.
Probab=25.19 E-value=2e+02 Score=22.02 Aligned_cols=48 Identities=21% Similarity=0.452 Sum_probs=30.7
Q ss_pred ChhhhhhhhcccCHh-HHHHHHHHHHHHhcCC--------CCcEEEEEecCCCCCceeee
Q 033078 1 MASFLAQAAEKIGPA-VRRQAVTVRHLLQQRQ--------RPYLKLGVKARGCNGLSYTL 51 (128)
Q Consensus 1 ~~~~~~~~~~~IT~~-A~~~~~~ik~ll~~~~--------~~~IRI~v~~~GC~G~~y~l 51 (128)
|+..+|+-.=.+|.. .++. +.++|.... ...||..|...|--|+.|.+
T Consensus 128 maAl~r~F~Ptls~eQs~~k---l~~lL~~gk~~~yy~q~~GAiRYVvad~gekglTFAV 184 (200)
T PF07305_consen 128 MAALMRQFEPTLSPEQSQEK---LQKLLTKGKGSRYYSQTEGAIRYVVADNGEKGLTFAV 184 (200)
T ss_pred HHHHHHHcCCcCCHHHHHHH---HHHHHHcCCCCcceeeccCceEEEEecCCCceeEEEe
Confidence 566777766666654 2444 777776532 24588877777777776655
No 38
>PRK00347 putative DNA-binding transcriptional regulator; Reviewed
Probab=25.16 E-value=72 Score=24.81 Aligned_cols=40 Identities=13% Similarity=0.135 Sum_probs=22.7
Q ss_pred cCHhHHHHHHHHHHHHhc--CCC-CcEEEEEecCCCCCceeeeecc
Q 033078 12 IGPAVRRQAVTVRHLLQQ--RQR-PYLKLGVKARGCNGLSYTLNYA 54 (128)
Q Consensus 12 IT~~A~~~~~~ik~ll~~--~~~-~~IRI~v~~~GC~G~~y~l~l~ 54 (128)
.|++++++ |++|.+. ++. ..|=+-+.-.+|..+.-+-..|
T Consensus 152 pT~RG~kH---l~eL~~l~~~G~ra~vlFvvqr~d~~~F~P~~~~D 194 (234)
T PRK00347 152 VTERGQKH---LRELIELAKEGHRAVLLFLVQRSDIKRFSPADEID 194 (234)
T ss_pred CcHHHHHH---HHHHHHHHHCCCcEEEEEEEeCCCCCEEeECcccC
Confidence 59999999 6666553 222 3344444555666554444333
No 39
>PRK05089 cytochrome C oxidase assembly protein; Provisional
Probab=24.52 E-value=1.3e+02 Score=22.73 Aligned_cols=22 Identities=18% Similarity=0.313 Sum_probs=20.2
Q ss_pred CEEEEEccCchhhcCCcEEEee
Q 033078 68 GVKILIDPKALMHVIGTKMDFV 89 (128)
Q Consensus 68 Gi~~~id~~~~~~L~g~~IDy~ 89 (128)
-+.|||||+...-++.+++.|.
T Consensus 149 PV~F~IDP~i~~dv~~iTLSYT 170 (188)
T PRK05089 149 PVVFYVDPDLPKDVKTITLSYT 170 (188)
T ss_pred CEEEEECCCcccccCEEEEEEE
Confidence 5899999999999999999986
No 40
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=24.01 E-value=56 Score=20.41 Aligned_cols=23 Identities=26% Similarity=0.665 Sum_probs=14.2
Q ss_pred eEEEeCCCC--CCCCCCCCCcCcCC
Q 033078 96 EFVFINPNS--KGQCGCGESFMTTS 118 (128)
Q Consensus 96 gF~i~nP~~--~~~CgCG~sf~~~~ 118 (128)
.|+|..-+. ...|.||-.|....
T Consensus 11 dftf~~e~~~ftyPCPCGDRFeIsL 35 (67)
T COG5216 11 DFTFSREEKTFTYPCPCGDRFEISL 35 (67)
T ss_pred eeEEcCCCceEEecCCCCCEeEEEH
Confidence 455543333 24799999998543
No 41
>COG5014 Predicted Fe-S oxidoreductase [General function prediction only]
Probab=23.56 E-value=95 Score=23.79 Aligned_cols=62 Identities=13% Similarity=0.196 Sum_probs=43.7
Q ss_pred HHHHHHHHHHhcCCCCcEEEEEecCCCC---CceeeeecccccccCCceeeeCCEEEEEccCchhhcCC
Q 033078 18 RQAVTVRHLLQQRQRPYLKLGVKARGCN---GLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIG 83 (128)
Q Consensus 18 ~~~~~ik~ll~~~~~~~IRI~v~~~GC~---G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g 83 (128)
+.++||.++-+..+.+.+||. ||- +...-+.+.+---+...|++-+|+-|=.|+..+..|-+
T Consensus 78 eVaeRL~ei~K~~g~d~vRiS----G~EP~l~~EHvlevIeLl~~~tFvlETNG~~~g~drslv~el~n 142 (228)
T COG5014 78 EVAERLLEISKKRGCDLVRIS----GAEPILGREHVLEVIELLVNNTFVLETNGLMFGFDRSLVDELVN 142 (228)
T ss_pred HHHHHHHHHHHhcCCcEEEee----CCCccccHHHHHHHHHhccCceEEEEeCCeEEecCHHHHHHHhc
Confidence 344558888888888899985 332 33334444433235678889999999999998887766
No 42
>PRK10234 DNA-binding transcriptional activator GutM; Provisional
Probab=23.27 E-value=59 Score=22.80 Aligned_cols=34 Identities=15% Similarity=0.354 Sum_probs=28.1
Q ss_pred ccCCceee---eCCEEEEEccCchhhcCCcEEEeeeC
Q 033078 58 AKFDELVE---DKGVKILIDPKALMHVIGTKMDFVDD 91 (128)
Q Consensus 58 ~e~D~v~~---~~Gi~~~id~~~~~~L~g~~IDy~e~ 91 (128)
++++.+.+ ..|++|+.-++..+-|.|..|++...
T Consensus 60 D~~~~I~d~~~M~G~TVFARfk~~~~~~G~~i~~l~~ 96 (118)
T PRK10234 60 DEQQRVVDTLFMKGLTVFARPQKIPALTGLHLGDLQP 96 (118)
T ss_pred CCCCcEEeeEEEccEEEEecccchhhhcCCcHHHcCH
Confidence 35566654 67999999999999999999997665
No 43
>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional
Probab=22.98 E-value=1.5e+02 Score=23.69 Aligned_cols=52 Identities=17% Similarity=0.234 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHhcCCCCcEEEEEecCCCCCceeeeecccccccCCceeeeCCEEEEEccCchh
Q 033078 16 VRRQAVTVRHLLQQRQRPYLKLGVKARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALM 79 (128)
Q Consensus 16 A~~~~~~ik~ll~~~~~~~IRI~v~~~GC~G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~ 79 (128)
+.+.++.|.+++.. ....++|.+... |+.||+ |.+.|.|++.- +.=+|-..+
T Consensus 147 ~~el~e~I~~~l~~-~~~~~~i~~~SF---g~k~g~-----p~dad~vfDvR---~lpNP~~~~ 198 (288)
T PRK05416 147 VHQLRERIRERFGG-RERGLTVTVESF---GFKYGI-----PLDADLVFDVR---FLPNPHYDP 198 (288)
T ss_pred HHHHHHHHHHHHhc-CCCceEEEEEee---cccCCC-----CCCCCEEEEeC---cCCCCCCCh
Confidence 33333336666655 445688888775 477775 44668887644 444444333
No 44
>PTZ00469 60S ribosomal subunit protein L18; Provisional
Probab=22.56 E-value=1.2e+02 Score=22.97 Aligned_cols=33 Identities=12% Similarity=0.040 Sum_probs=24.9
Q ss_pred hhhcccCHhHHHHHHH-------HHHHHhcCC-CCcEEEEE
Q 033078 7 QAAEKIGPAVRRQAVT-------VRHLLQQRQ-RPYLKLGV 39 (128)
Q Consensus 7 ~~~~~IT~~A~~~~~~-------ik~ll~~~~-~~~IRI~v 39 (128)
=+|+.+|++|++.++. |.+++...+ +..++|--
T Consensus 99 VaAL~fS~~Ar~kI~~AGGe~lT~dqLa~~~P~G~nv~Ll~ 139 (187)
T PTZ00469 99 VCALRFTETARKRILDAGGECLTFDQLALKYPTGQKCILLR 139 (187)
T ss_pred EEEEecCHHHHHHHHHhCCEEEeHHHHHHHCCCCCceEEEE
Confidence 4789999999998766 778877664 46677743
No 45
>KOG1282 consensus Serine carboxypeptidases (lysosomal cathepsin A) [Posttranslational modification, protein turnover, chaperones; Amino acid transport and metabolism]
Probab=22.28 E-value=77 Score=27.21 Aligned_cols=62 Identities=23% Similarity=0.300 Sum_probs=40.2
Q ss_pred CcEEEEEe-cCCCCCceeeeecccccccCCceeeeCCEEEEEccCchhhcCCcEEEeeeCCCCceEEEeC
Q 033078 33 PYLKLGVK-ARGCNGLSYTLNYADERAKFDELVEDKGVKILIDPKALMHVIGTKMDFVDDKLRSEFVFIN 101 (128)
Q Consensus 33 ~~IRI~v~-~~GC~G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~~~L~g~~IDy~e~~~g~gF~i~n 101 (128)
+.|-|=+. ++||+.+. |+-. +. +=..+..+|-+++.++-++ -+-.-|=|.|.+.|-||...|
T Consensus 73 dPlvLWLnGGPGCSSl~-G~~~--E~--GPf~v~~~G~tL~~N~ySW--nk~aNiLfLd~PvGvGFSYs~ 135 (454)
T KOG1282|consen 73 DPLVLWLNGGPGCSSLG-GLFE--EN--GPFRVKYNGKTLYLNPYSW--NKEANILFLDQPVGVGFSYSN 135 (454)
T ss_pred CCEEEEeCCCCCccchh-hhhh--hc--CCeEEcCCCCcceeCCccc--cccccEEEEecCCcCCccccC
Confidence 44555554 55888765 5522 22 2233446777777777655 455667799999999999964
No 46
>PF03852 Vsr: DNA mismatch endonuclease Vsr; InterPro: IPR004603 This entry represents VSR (very short patch repair) endonucleases, which occur in a variety of bacteria. VSR recognises a TG mismatched base pair, generated after spontaneous deamination of methylated cytosines, and cleaves the phosphate backbone on the 5' side of the thymine []. GT mismatches can lead to C-to-T transition mutations if not repaired. VSR repairs the mismatches in favour of the G-containing strand. In Escherichia coli, this endonuclease nicks double-stranded DNA within the sequence CT(AT)GN or NT(AT)GG next to the thymidine residue, which is mismatched to 2'-deoxyguanosine []. The incision is mismatch-dependent and strand specific. The structure of VSR is similar to the core structure of restriction endonucleases, which have a 3-layer alpha/beta/alpha topology []. ; GO: 0004519 endonuclease activity, 0006298 mismatch repair; PDB: 1ODG_A 1VSR_A 1CW0_A.
Probab=21.87 E-value=74 Score=20.61 Aligned_cols=33 Identities=30% Similarity=0.348 Sum_probs=19.6
Q ss_pred CceeeeecccccccCCceeeeCCEEEEEccCch
Q 033078 46 GLSYTLNYADERAKFDELVEDKGVKILIDPKAL 78 (128)
Q Consensus 46 G~~y~l~l~~~~~e~D~v~~~~Gi~~~id~~~~ 78 (128)
|+.|-+....-|..-|+++.-..+-||||---+
T Consensus 35 G~RyR~~~~~lpG~PDiv~~~~k~aIFVdGCFW 67 (75)
T PF03852_consen 35 GLRYRLNRKDLPGKPDIVFPKYKIAIFVDGCFW 67 (75)
T ss_dssp T--EEES-TTSTT--SEEEGGGTEEEEEE-TTT
T ss_pred CCEEEEccCcCCCCCCEEECCCCEEEEEeccee
Confidence 455655554455667999998899999986533
No 47
>PF04442 CtaG_Cox11: Cytochrome c oxidase assembly protein CtaG/Cox11; InterPro: IPR007533 Cytochrome c oxidase assembly protein is essential for the assembly of functional cytochrome oxidase protein. In eukaryotes it is an integral protein of the mitochondrial inner membrane. Cox11 is essential for the insertion of Cu(I) ions to form the CuB site. This is essential for the stability of other structures in subunit I, for example haems a and a3, and the magnesium/manganese centre. Cox11 is probably only required in sub-stoichiometric amounts relative to the structural units []. The C-terminal region of the protein is known to form a dimer. Each monomer coordinates one Cu(I) ion via three conserved cysteine residues (111, 208 and 210) in Saccharomyces cerevisiae (P19516 from SWISSPROT). Met 224 is also thought to play a role in copper transfer or stabilising the copper site [].; GO: 0005507 copper ion binding; PDB: 1SO9_A 1SP0_A.
Probab=21.26 E-value=92 Score=22.79 Aligned_cols=22 Identities=23% Similarity=0.324 Sum_probs=15.6
Q ss_pred CEEEEEccCchhh-----cCCcEEEee
Q 033078 68 GVKILIDPKALMH-----VIGTKMDFV 89 (128)
Q Consensus 68 Gi~~~id~~~~~~-----L~g~~IDy~ 89 (128)
-+.|||||+...- ++.+++.|.
T Consensus 122 Pv~F~IDp~i~~d~~~~~v~~iTLSYT 148 (152)
T PF04442_consen 122 PVVFYIDPDIPEDPDMKDVKTITLSYT 148 (152)
T ss_dssp EEEEEE-GGGGSSTTTTT--BEEEEEE
T ss_pred EEEEEECCcccCCcccCCcCEEEEEEE
Confidence 3789999998888 888888875
No 48
>COG2200 Rtn c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]
Probab=21.04 E-value=50 Score=25.53 Aligned_cols=91 Identities=18% Similarity=0.265 Sum_probs=51.9
Q ss_pred hcccCHhHH-HHHHHHHHHHhcCCCCcEEEEEecCCCC--Cceeeeec-------c----ccc--ccCCc-ee-------
Q 033078 9 AEKIGPAVR-RQAVTVRHLLQQRQRPYLKLGVKARGCN--GLSYTLNY-------A----DER--AKFDE-LV------- 64 (128)
Q Consensus 9 ~~~IT~~A~-~~~~~ik~ll~~~~~~~IRI~v~~~GC~--G~~y~l~l-------~----~~~--~e~D~-v~------- 64 (128)
.++|||++. .....++.++..-...++||.+...|++ +++|=-.+ | ... ...+. ++
T Consensus 123 ~lEitE~~~~~~~~~~~~~l~~L~~~G~~ialDDFGtG~ssl~~L~~l~~d~iKID~~fi~~i~~~~~~~~iv~~iv~la 202 (256)
T COG2200 123 VLEITESALIDDLDTALALLRQLRELGVRIALDDFGTGYSSLSYLKRLPPDILKIDRSFVRDLETDARDQAIVRAIVALA 202 (256)
T ss_pred EEEEeCchhhcCHHHHHHHHHHHHHCCCeEEEECCCCCHHHHHHHhhCCCCeEEECHHHHhhcccCcchHHHHHHHHHHH
Confidence 478898885 2222245555544456899999999986 33322211 1 000 01111 11
Q ss_pred eeCCEEEEEc----cCchhhcCCcEEEeeeCCCCceEEEeCCCC
Q 033078 65 EDKGVKILID----PKALMHVIGTKMDFVDDKLRSEFVFINPNS 104 (128)
Q Consensus 65 ~~~Gi~~~id----~~~~~~L~g~~IDy~e~~~g~gF~i~nP~~ 104 (128)
..-|++++++ ++.+.+|...-+||. .||.|..|..
T Consensus 203 ~~l~~~vvaEGVEt~~ql~~L~~~G~~~~-----QGylf~~P~~ 241 (256)
T COG2200 203 HKLGLTVVAEGVETEEQLDLLRELGCDYL-----QGYLFSRPLP 241 (256)
T ss_pred HHCCCEEEEeecCCHHHHHHHHHcCCCeE-----eeccccCCCC
Confidence 2446777664 456668888888876 4788877643
No 49
>PF09865 DUF2092: Predicted periplasmic protein (DUF2092); InterPro: IPR019207 This entry represents various hypothetical prokaryotic proteins of unknown function.
Probab=20.77 E-value=2.2e+02 Score=21.79 Aligned_cols=52 Identities=17% Similarity=0.184 Sum_probs=42.0
Q ss_pred CEEEEEccCchhhcCCcEEEeeeCCCCceEEEe------CCCCCCCCCCCCCcCcCCCCCccc
Q 033078 68 GVKILIDPKALMHVIGTKMDFVDDKLRSEFVFI------NPNSKGQCGCGESFMTTSSSGASK 124 (128)
Q Consensus 68 Gi~~~id~~~~~~L~g~~IDy~e~~~g~gF~i~------nP~~~~~CgCG~sf~~~~~~~~~~ 124 (128)
.+.|-|.....++..-+.|.|........|... +|... -..|.++++.|+.+
T Consensus 152 DwQiWI~~g~~PLP~k~vIT~k~~~~~PQy~~~~~~W~~~p~~~-----~~~F~F~pP~gA~~ 209 (214)
T PF09865_consen 152 DWQIWIADGDKPLPRKYVITYKTDPGSPQYSAEFSDWNLDPKLP-----ADTFTFTPPAGARK 209 (214)
T ss_pred eEEEEEcCCCcceeeEEEEEECCCCCCceEEEEEecccCCCCCC-----cceeEEcCCCCCEE
Confidence 488999999999999999999999888887763 44443 46799999998875
Done!