Query 030533
Match_columns 175
No_of_seqs 160 out of 1231
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 15:10:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030533.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030533hhsearch_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 7.5E-37 1.6E-41 228.2 12.9 108 64-173 2-110 (110)
2 PLN03082 Iron-sulfur cluster a 100.0 6.5E-37 1.4E-41 242.8 12.4 113 60-174 48-163 (163)
3 PRK09502 iscA iron-sulfur clus 100.0 5E-36 1.1E-40 222.4 12.3 107 65-173 1-107 (107)
4 PRK13623 iron-sulfur cluster i 100.0 1E-35 2.2E-40 223.1 12.9 111 61-173 4-115 (115)
5 PRK09504 sufA iron-sulfur clus 100.0 3.7E-35 8E-40 222.8 12.5 109 63-173 14-122 (122)
6 TIGR02011 IscA iron-sulfur clu 100.0 5.7E-35 1.2E-39 216.0 12.1 105 67-173 1-105 (105)
7 TIGR01997 sufA_proteo FeS asse 100.0 8.9E-35 1.9E-39 215.6 12.5 106 66-173 2-107 (107)
8 KOG1120 Fe-S cluster biosynthe 100.0 9.7E-34 2.1E-38 213.7 10.8 130 41-173 5-134 (134)
9 TIGR00049 Iron-sulfur cluster 100.0 1.9E-32 4.1E-37 201.4 11.7 104 68-173 1-105 (105)
10 KOG1119 Mitochondrial Fe-S clu 99.9 4.4E-27 9.5E-32 187.3 9.3 108 64-175 91-199 (199)
11 PRK11190 Fe/S biogenesis prote 99.9 9.3E-26 2E-30 183.3 12.1 96 66-163 1-98 (192)
12 TIGR01911 HesB_rel_seleno HesB 99.9 2.8E-25 6E-30 161.2 9.9 90 65-157 2-92 (92)
13 TIGR03341 YhgI_GntY IscR-regul 99.9 8.5E-25 1.8E-29 177.4 12.0 97 67-163 1-97 (190)
14 PF01521 Fe-S_biosyn: Iron-sul 99.9 7.7E-24 1.7E-28 156.9 8.2 102 65-169 1-112 (112)
15 COG4841 Uncharacterized protei 99.6 6.6E-16 1.4E-20 110.3 8.2 88 65-156 1-94 (95)
16 COG4918 Uncharacterized protei 98.7 5E-08 1.1E-12 71.7 7.4 83 65-149 1-86 (114)
17 COG3564 Uncharacterized protei 97.6 0.00046 9.9E-09 50.7 8.5 93 63-161 3-100 (116)
18 PF05610 DUF779: Protein of un 96.5 0.019 4.1E-07 41.9 7.5 81 77-162 3-87 (95)
19 KOG3348 BolA (bacterial stress 44.1 64 0.0014 23.1 4.7 39 73-112 4-42 (85)
20 PF14135 DUF4302: Domain of un 37.7 77 0.0017 26.2 5.1 42 71-112 15-57 (235)
21 PF12677 DUF3797: Domain of un 37.1 24 0.00052 22.7 1.5 15 154-168 31-45 (49)
22 cd04482 RPA2_OBF_like RPA2_OBF 35.3 38 0.00083 23.9 2.6 17 114-130 48-64 (91)
23 cd01234 PH_CADPS CADPS (Ca2+-d 35.1 32 0.00069 25.9 2.1 15 135-149 49-63 (117)
24 KOG4777 Aspartate-semialdehyde 34.4 36 0.00078 29.8 2.6 39 123-161 114-152 (361)
25 cd03063 TRX_Fd_FDH_beta TRX-li 33.1 66 0.0014 23.1 3.5 25 74-102 20-44 (92)
26 PF11858 DUF3378: Domain of un 32.4 61 0.0013 22.7 3.2 35 66-100 4-41 (81)
27 TIGR02588 conserved hypothetic 31.2 2.4E+02 0.0052 21.5 7.4 24 138-161 83-109 (122)
28 COG4647 AcxC Acetone carboxyla 30.4 26 0.00057 27.3 1.1 21 153-173 60-81 (165)
29 COG5134 Uncharacterized conser 26.3 1.6E+02 0.0034 25.0 5.0 54 75-133 59-114 (272)
30 KOG0633 Histidinol phosphate a 24.8 80 0.0017 27.8 3.1 49 67-121 316-368 (375)
31 PRK01160 hypothetical protein; 24.4 96 0.0021 25.1 3.3 33 65-97 92-124 (178)
32 PF10571 UPF0547: Uncharacteri 22.5 49 0.0011 18.3 0.9 14 159-172 11-25 (26)
33 PF07610 DUF1573: Protein of u 22.2 60 0.0013 19.8 1.4 8 161-168 17-24 (45)
34 PRK01194 V-type ATP synthase s 21.4 90 0.0019 25.0 2.7 39 124-162 119-157 (185)
35 PF00096 zf-C2H2: Zinc finger, 21.2 26 0.00057 17.8 -0.3 9 165-173 3-12 (23)
36 cd00991 PDZ_archaeal_metallopr 20.6 91 0.002 20.8 2.2 16 114-129 28-43 (79)
37 PF11146 DUF2905: Protein of u 20.5 1E+02 0.0022 20.9 2.4 17 116-132 31-47 (64)
38 COG3369 Zinc finger domain con 20.0 41 0.00089 23.7 0.4 10 163-172 32-41 (78)
No 1
>COG0316 sufA Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=7.5e-37 Score=228.23 Aligned_cols=108 Identities=48% Similarity=0.919 Sum_probs=102.7
Q ss_pred CCceeeCHHHHHHHHHHHhcC-CCCceEEEEEecCCCCCceeeEEEecccCCCCCCceeeeCCEEEEEcccccccccCcE
Q 030533 64 KPAILLTEKALKHLSKMRSER-SEDLCLRIGVKQGGCSGMSYTMEFENRANARPDDSVIEYDGFVIVCDPKSLLFLFGMQ 142 (175)
Q Consensus 64 ~~~ItIT~~A~~~Lk~l~~~~-~~~~~LRI~v~~~GCsG~~y~l~l~~~~~~~~~D~vie~~Gi~v~iD~~s~~~L~g~~ 142 (175)
.++|+|||+|+++++++++++ +++.+|||+|+++||+|++|.|.|+++.+ ++|.++|.+|++|+||+.++.||+|++
T Consensus 2 ~~~itlT~~Aa~~v~~ll~~~~~~~~~lRv~V~~gGCsG~~Y~~~~~~~~~--~~D~v~e~~g~~v~vD~~S~~~L~G~~ 79 (110)
T COG0316 2 AMMITLTDAAAARVKALLAKEGEENLGLRVGVKGGGCSGFQYGLEFDDEIN--EDDTVFEQDGVKVVVDPKSLPYLEGTE 79 (110)
T ss_pred CCceeeCHHHHHHHHHHHHhccCCCceEEEEEeCCCCCCcEeEEEEcCCCC--CCCEEEEeCCEEEEEChhhhhhhcCCE
Confidence 478999999999999999887 56789999999999999999999999765 899999999999999999999999999
Q ss_pred EEeecCCCccceEEeCCCCCCCCCCCCCccc
Q 030533 143 LDYSDALIGGGFSFKNPNATQTCGCGKSFAA 173 (175)
Q Consensus 143 IDy~e~~~g~gF~~~nPn~~~~CGCG~SF~~ 173 (175)
|||+++..|++|+|+|||++..||||+||..
T Consensus 80 IDyv~~~~g~~F~~~NPNA~~~CgCg~Sf~v 110 (110)
T COG0316 80 IDYVEDLLGSGFTFKNPNAKSSCGCGESFSV 110 (110)
T ss_pred EEEEEcCcCCceEEECCCCCccccCCCCCCC
Confidence 9999999999999999999999999999973
No 2
>PLN03082 Iron-sulfur cluster assembly; Provisional
Probab=100.00 E-value=6.5e-37 Score=242.79 Aligned_cols=113 Identities=35% Similarity=0.677 Sum_probs=103.3
Q ss_pred CCCCCCceeeCHHHHHHHHHHHhcCC--CCceEEEEEecCCCCCceeeEEEecccCCCCCCceeeeCCEEEEEccccccc
Q 030533 60 TEDLKPAILLTEKALKHLSKMRSERS--EDLCLRIGVKQGGCSGMSYTMEFENRANARPDDSVIEYDGFVIVCDPKSLLF 137 (175)
Q Consensus 60 ~~~~~~~ItIT~~A~~~Lk~l~~~~~--~~~~LRI~v~~~GCsG~~y~l~l~~~~~~~~~D~vie~~Gi~v~iD~~s~~~ 137 (175)
..+..+.|+|||+|+++|++++++++ ++.+|||+|+++||+|++|.|.|+++.+ ++|.+++.+|++|+||+.++.|
T Consensus 48 ~~~~~~~I~lTd~A~~~ik~l~~~~~~~~~~~LRl~V~~gGCSG~~Y~~~ld~~~~--~~D~v~e~~Gv~vvVD~~s~~~ 125 (163)
T PLN03082 48 SSASLDAVHMTDNCIRRLKELQTSEPSAEDKMLRLSVETGGCSGFQYVFELDDKTN--SDDRVFEKDGVKLVVDNISYDF 125 (163)
T ss_pred ccccCCceEECHHHHHHHHHHHHhCCCCCCceEEEEEecCCCCCceeeeEEccCCC--CCCEEEecCCeEEEECHHHHHH
Confidence 33445679999999999999987754 3568999999999999999999998764 7999999999999999999999
Q ss_pred ccCcEEEeecCCCccceEE-eCCCCCCCCCCCCCcccc
Q 030533 138 LFGMQLDYSDALIGGGFSF-KNPNATQTCGCGKSFAAE 174 (175)
Q Consensus 138 L~g~~IDy~e~~~g~gF~~-~nPn~~~~CGCG~SF~~~ 174 (175)
|+|++|||++++.+.+|+| +|||++++||||+||+.|
T Consensus 126 L~Gs~IDYve~l~~~gF~f~~NPna~~~CgCG~SF~vk 163 (163)
T PLN03082 126 VKGATVDYVEELIRSAFVVSTNPSAVGGCSCKSSFMVK 163 (163)
T ss_pred hCCCEEEeecCCCCCeeEEecCCCCCCCcCCCCCEeCC
Confidence 9999999999999999999 999999999999999875
No 3
>PRK09502 iscA iron-sulfur cluster assembly protein; Provisional
Probab=100.00 E-value=5e-36 Score=222.44 Aligned_cols=107 Identities=41% Similarity=0.785 Sum_probs=99.7
Q ss_pred CceeeCHHHHHHHHHHHhcCCCCceEEEEEecCCCCCceeeEEEecccCCCCCCceeeeCCEEEEEcccccccccCcEEE
Q 030533 65 PAILLTEKALKHLSKMRSERSEDLCLRIGVKQGGCSGMSYTMEFENRANARPDDSVIEYDGFVIVCDPKSLLFLFGMQLD 144 (175)
Q Consensus 65 ~~ItIT~~A~~~Lk~l~~~~~~~~~LRI~v~~~GCsG~~y~l~l~~~~~~~~~D~vie~~Gi~v~iD~~s~~~L~g~~ID 144 (175)
|+|+|||+|+++|+++++++++..+|||+++++||+|++|.|.|++..+ ++|.+++.+|++|+||+.++.||+|++||
T Consensus 1 m~i~iT~~A~~~i~~l~~~~~~~~~LRi~v~~~GCsG~~Y~l~~~~~~~--~~D~~~~~~g~~v~id~~s~~~l~g~~ID 78 (107)
T PRK09502 1 MSITLSDSAAARVNTFLANRGKGFGLRLGVRTSGCSGMAYVLEFVDEPT--PEDIVFEDKGVKVVVDGKSLQFLDGTQLD 78 (107)
T ss_pred CeEEECHHHHHHHHHHHhCcCCCceEEEEEECCCcCCeeeEeeecCCCC--CCCEEEEcCCeEEEEeHHHHhHhCCCEEE
Confidence 4699999999999999987655668999999999999999999976654 89999999999999999999999999999
Q ss_pred eecCCCccceEEeCCCCCCCCCCCCCccc
Q 030533 145 YSDALIGGGFSFKNPNATQTCGCGKSFAA 173 (175)
Q Consensus 145 y~e~~~g~gF~~~nPn~~~~CGCG~SF~~ 173 (175)
|++++.+++|+|+|||++++||||+||+.
T Consensus 79 y~~~~~~~~F~f~NPna~~~CgCG~Sf~~ 107 (107)
T PRK09502 79 FVKEGLNEGFKFTNPNVKDECGCGESFHV 107 (107)
T ss_pred EeeCCCCceEEEECCCCCCccCCCCCeeC
Confidence 99999999999999999999999999973
No 4
>PRK13623 iron-sulfur cluster insertion protein ErpA; Provisional
Probab=100.00 E-value=1e-35 Score=223.09 Aligned_cols=111 Identities=41% Similarity=0.801 Sum_probs=102.0
Q ss_pred CCCCCceeeCHHHHHHHHHHHhcCC-CCceEEEEEecCCCCCceeeEEEecccCCCCCCceeeeCCEEEEEccccccccc
Q 030533 61 EDLKPAILLTEKALKHLSKMRSERS-EDLCLRIGVKQGGCSGMSYTMEFENRANARPDDSVIEYDGFVIVCDPKSLLFLF 139 (175)
Q Consensus 61 ~~~~~~ItIT~~A~~~Lk~l~~~~~-~~~~LRI~v~~~GCsG~~y~l~l~~~~~~~~~D~vie~~Gi~v~iD~~s~~~L~ 139 (175)
+...|+|+||++|+++|+++++.++ ++.+|||+|+++||+|++|.|.++++.+ ++|++++.+|++|+||+.+++||+
T Consensus 4 ~~~~~~i~iT~~A~~~i~~~~~~~~~~~~~LRi~v~~~GCsG~~y~l~l~~~~~--~~D~v~e~~gv~v~id~~s~~~l~ 81 (115)
T PRK13623 4 DDVPLPLVFTDAAAAKVKELIEEEGNPDLKLRVYITGGGCSGFQYGFTFDEQVN--EDDTTIEKQGVTLVVDPMSLQYLV 81 (115)
T ss_pred cccCcceEECHHHHHHHHHHHhhCCCCceEEEEEEeCCCCCCcEEEEEECCCCC--CCCEEEEcCCEEEEEcHHHHHHhC
Confidence 3566899999999999999997653 3467999999999999999999998654 799999999999999999999999
Q ss_pred CcEEEeecCCCccceEEeCCCCCCCCCCCCCccc
Q 030533 140 GMQLDYSDALIGGGFSFKNPNATQTCGCGKSFAA 173 (175)
Q Consensus 140 g~~IDy~e~~~g~gF~~~nPn~~~~CGCG~SF~~ 173 (175)
|++|||+++..+++|+|+|||++++||||+||+.
T Consensus 82 g~~IDy~~~~~~~~F~f~NPn~~~~CgCg~SF~~ 115 (115)
T PRK13623 82 GAEVDYTEGLEGSRFVIKNPNAKTTCGCGSSFSI 115 (115)
T ss_pred CCEEEeecCCCcceEEEECCCCCcCCCCCcCccC
Confidence 9999999999999999999999999999999974
No 5
>PRK09504 sufA iron-sulfur cluster assembly scaffold protein; Provisional
Probab=100.00 E-value=3.7e-35 Score=222.81 Aligned_cols=109 Identities=31% Similarity=0.594 Sum_probs=101.7
Q ss_pred CCCceeeCHHHHHHHHHHHhcCCCCceEEEEEecCCCCCceeeEEEecccCCCCCCceeeeCCEEEEEcccccccccCcE
Q 030533 63 LKPAILLTEKALKHLSKMRSERSEDLCLRIGVKQGGCSGMSYTMEFENRANARPDDSVIEYDGFVIVCDPKSLLFLFGMQ 142 (175)
Q Consensus 63 ~~~~ItIT~~A~~~Lk~l~~~~~~~~~LRI~v~~~GCsG~~y~l~l~~~~~~~~~D~vie~~Gi~v~iD~~s~~~L~g~~ 142 (175)
.+++|+|||+|+++|+++++++++..+|||+|+++||+|++|.|.++++.+ ++|.+++.+|++|+||+.++.||+|++
T Consensus 14 ~~~~I~iT~~A~~~i~~l~~~~~~~~~LRi~v~~gGCsG~~Y~~~l~~e~~--~~D~v~e~~g~~v~Id~~s~~~L~g~~ 91 (122)
T PRK09504 14 AWQGLTLTPAAAAHIRELMAKQPGMKGVRLGVKQTGCAGFGYVLDSVSEPD--KDDLVFEHDGAKLFVPLQAMPFIDGTE 91 (122)
T ss_pred CcCCEEECHHHHHHHHHHHhcCCCCceEEEEEECCCCCceEEEeeecCCCC--CCCEEEEeCCEEEEEcHHHHHhhCCcE
Confidence 458899999999999999987655568999999999999999999988765 899999999999999999999999999
Q ss_pred EEeecCCCccceEEeCCCCCCCCCCCCCccc
Q 030533 143 LDYSDALIGGGFSFKNPNATQTCGCGKSFAA 173 (175)
Q Consensus 143 IDy~e~~~g~gF~~~nPn~~~~CGCG~SF~~ 173 (175)
|||+++..++||+|+|||++++||||+||+.
T Consensus 92 IDy~~~~~~~gF~f~NPna~~~CgCG~SF~v 122 (122)
T PRK09504 92 VDYVREGLNQIFKFHNPKAQNECGCGESFGV 122 (122)
T ss_pred EEeecCCCcceEEEECCCCCCCcCCCCCeeC
Confidence 9999999999999999999999999999973
No 6
>TIGR02011 IscA iron-sulfur cluster assembly protein IscA. This clade is limited to the proteobacteria.
Probab=100.00 E-value=5.7e-35 Score=216.01 Aligned_cols=105 Identities=45% Similarity=0.808 Sum_probs=98.4
Q ss_pred eeeCHHHHHHHHHHHhcCCCCceEEEEEecCCCCCceeeEEEecccCCCCCCceeeeCCEEEEEcccccccccCcEEEee
Q 030533 67 ILLTEKALKHLSKMRSERSEDLCLRIGVKQGGCSGMSYTMEFENRANARPDDSVIEYDGFVIVCDPKSLLFLFGMQLDYS 146 (175)
Q Consensus 67 ItIT~~A~~~Lk~l~~~~~~~~~LRI~v~~~GCsG~~y~l~l~~~~~~~~~D~vie~~Gi~v~iD~~s~~~L~g~~IDy~ 146 (175)
|+||++|+++|++++++++++.+|||+++++||+|++|.|.|+++.+ ++|++++.+|++|+||+.++.||+|++|||+
T Consensus 1 I~iT~~A~~~i~~~~~~~~~~~~lRi~v~~~GCsG~~y~l~l~~~~~--~~D~v~~~~g~~v~id~~s~~~l~g~~IDy~ 78 (105)
T TIGR02011 1 ITLTDSAAARVNTFLANRGKGFGLRLGVKTSGCSGMAYVLEFVDEPT--PDDIVFEDKGVKIVIDGKSLQYLDGTQLDFV 78 (105)
T ss_pred CEECHHHHHHHHHHHhccCCCceEEEEEeCCCCCCEEEEeeecCCCC--CCCEEEEcCCEEEEEcHHHhHHhCCCEEEEe
Confidence 78999999999999987665678999999999999999999977654 8999999999999999999999999999999
Q ss_pred cCCCccceEEeCCCCCCCCCCCCCccc
Q 030533 147 DALIGGGFSFKNPNATQTCGCGKSFAA 173 (175)
Q Consensus 147 e~~~g~gF~~~nPn~~~~CGCG~SF~~ 173 (175)
++..+++|+|+|||++++||||+||+.
T Consensus 79 ~~~~~~~F~~~nPna~~~CgCg~Sf~~ 105 (105)
T TIGR02011 79 KEGLNEGFKFTNPNVKDECGCGESFHV 105 (105)
T ss_pred cCCCcceEEEECCCCCccCCCCCCccC
Confidence 999999999999999999999999973
No 7
>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=8.9e-35 Score=215.64 Aligned_cols=106 Identities=40% Similarity=0.826 Sum_probs=99.2
Q ss_pred ceeeCHHHHHHHHHHHhcCCCCceEEEEEecCCCCCceeeEEEecccCCCCCCceeeeCCEEEEEcccccccccCcEEEe
Q 030533 66 AILLTEKALKHLSKMRSERSEDLCLRIGVKQGGCSGMSYTMEFENRANARPDDSVIEYDGFVIVCDPKSLLFLFGMQLDY 145 (175)
Q Consensus 66 ~ItIT~~A~~~Lk~l~~~~~~~~~LRI~v~~~GCsG~~y~l~l~~~~~~~~~D~vie~~Gi~v~iD~~s~~~L~g~~IDy 145 (175)
+|+|||+|+++|+++++++++..+|||+++++||+|++|.|.++++.+ ++|.+++.+|++|+||+.++.||+|++|||
T Consensus 2 ~i~iT~~A~~~i~~l~~~~~~~~~lRi~v~~~GC~G~~y~~~l~~~~~--~~D~v~~~~g~~v~id~~s~~~l~g~~IDy 79 (107)
T TIGR01997 2 VITLTDAAAIHIRELVAKRPEAVGIRLGVKKTGCAGMEYVLDLVSEPK--KDDDLIEHDGAKVFVAPEAVLFILGTQVDF 79 (107)
T ss_pred eEEECHHHHHHHHHHHhcCCCCcEEEEEEECCCCCCcEEEeeecCCCC--CCCEEEecCCEEEEEcHHHHhhhCCCEEEE
Confidence 599999999999999987665678999999999999999999977654 899999999999999999999999999999
Q ss_pred ecCCCccceEEeCCCCCCCCCCCCCccc
Q 030533 146 SDALIGGGFSFKNPNATQTCGCGKSFAA 173 (175)
Q Consensus 146 ~e~~~g~gF~~~nPn~~~~CGCG~SF~~ 173 (175)
+++..+++|+|+|||+++.||||+||+.
T Consensus 80 ~~~~~~~~F~~~NPn~~~~CgCG~Sf~~ 107 (107)
T TIGR01997 80 VRTTLRQGFKFNNPNATSACGCGESFEL 107 (107)
T ss_pred EEcCCcceEEEECCCCCCccCCCCCccC
Confidence 9999999999999999999999999973
No 8
>KOG1120 consensus Fe-S cluster biosynthesis protein ISA1 (contains a HesB-like domain) [Inorganic ion transport and metabolism]
Probab=100.00 E-value=9.7e-34 Score=213.66 Aligned_cols=130 Identities=43% Similarity=0.782 Sum_probs=118.0
Q ss_pred cccccceeccCCCCCCCCCCCCCCCceeeCHHHHHHHHHHHhcCCCCceEEEEEecCCCCCceeeEEEecccCCCCCCce
Q 030533 41 SRRYSVSVRSSSTSAVAPATEDLKPAILLTEKALKHLSKMRSERSEDLCLRIGVKQGGCSGMSYTMEFENRANARPDDSV 120 (175)
Q Consensus 41 ~~~~~~~~~~~~~~~~~~~~~~~~~~ItIT~~A~~~Lk~l~~~~~~~~~LRI~v~~~GCsG~~y~l~l~~~~~~~~~D~v 120 (175)
++...++.+... +++++++...++.|++||.|+++|+++++++++...|||.|+..||+|++|.|.+.+.+. ..|.+
T Consensus 5 ~~~~~~s~~~~~-~~a~~~~~~~k~~ltLTp~Av~~ik~ll~~~~e~~~lrigVk~rGCnGlsYtleY~~~kg--kfDE~ 81 (134)
T KOG1120|consen 5 NRSNALSPRNAR-APAARKLAPRKAALTLTPSAVNHIKQLLSDKPEDVCLRIGVKQRGCNGLSYTLEYTKTKG--KFDEV 81 (134)
T ss_pred cccccccccccc-ccccccccccccccccCHHHHHHHHHHHHhCCcCceeEEEEecCCcCcceeeeeeeccCC--CCcce
Confidence 344455555555 677778778889999999999999999999888899999999999999999999998875 68999
Q ss_pred eeeCCEEEEEcccccccccCcEEEeecCCCccceEEeCCCCCCCCCCCCCccc
Q 030533 121 IEYDGFVIVCDPKSLLFLFGMQLDYSDALIGGGFSFKNPNATQTCGCGKSFAA 173 (175)
Q Consensus 121 ie~~Gi~v~iD~~s~~~L~g~~IDy~e~~~g~gF~~~nPn~~~~CGCG~SF~~ 173 (175)
++++|++|+||++++..+-|+++||+++..+++|+|.|||+++.||||+||+.
T Consensus 82 VeqdGv~I~ie~KA~l~liGteMDyvddkL~Sefvf~npna~gtcGcgeSf~~ 134 (134)
T KOG1120|consen 82 VEQDGVRIFIEPKALLTLIGTEMDYVDDKLSSEFVFSNPNAKGTCGCGESFSV 134 (134)
T ss_pred eeecCcEEEEcccceeeeccceehhhhhhhcCceEeeCCCccccccccccccC
Confidence 99999999999999999999999999999999999999999999999999974
No 9
>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=1.9e-32 Score=201.40 Aligned_cols=104 Identities=50% Similarity=0.946 Sum_probs=96.7
Q ss_pred eeCHHHHHHHHHHHhcCC-CCceEEEEEecCCCCCceeeEEEecccCCCCCCceeeeCCEEEEEcccccccccCcEEEee
Q 030533 68 LLTEKALKHLSKMRSERS-EDLCLRIGVKQGGCSGMSYTMEFENRANARPDDSVIEYDGFVIVCDPKSLLFLFGMQLDYS 146 (175)
Q Consensus 68 tIT~~A~~~Lk~l~~~~~-~~~~LRI~v~~~GCsG~~y~l~l~~~~~~~~~D~vie~~Gi~v~iD~~s~~~L~g~~IDy~ 146 (175)
+||++|+++|++++++++ ++.+|||+++.+||+|++|.|.+++..+ ++|++++.+|++|+||+.+++||+|++|||+
T Consensus 1 ~iT~~A~~~l~~~~~~~~~~~~~lRi~~~~~Gc~G~~~~l~l~~~~~--~~D~~~~~~gi~~~id~~~~~~l~~~~IDy~ 78 (105)
T TIGR00049 1 TLTDSAAKRIKALLAGEGEPNLGLRVGVKGGGCSGLQYGLEFDDEPN--EDDEVFEQDGVKVVVDPKSLPYLDGSEIDYV 78 (105)
T ss_pred CcCHHHHHHHHHHHhcCCCCceEEEEEEecCCCCCeEEEEeecCCCC--CCCEEEEcCCEEEEEeHHHHhhhCCCEEEEe
Confidence 589999999999998765 3468999999999999999999997654 7899999999999999999999999999999
Q ss_pred cCCCccceEEeCCCCCCCCCCCCCccc
Q 030533 147 DALIGGGFSFKNPNATQTCGCGKSFAA 173 (175)
Q Consensus 147 e~~~g~gF~~~nPn~~~~CGCG~SF~~ 173 (175)
++..+++|+|+|||+++.||||+||+.
T Consensus 79 ~~~~~~~f~i~nPn~~~~c~cg~sf~~ 105 (105)
T TIGR00049 79 EELLGSGFTFTNPNAKGTCGCGKSFSV 105 (105)
T ss_pred ecCCcceEEEECCCCCccCCCCcCccC
Confidence 999999999999999999999999973
No 10
>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=99.94 E-value=4.4e-27 Score=187.34 Aligned_cols=108 Identities=35% Similarity=0.646 Sum_probs=101.3
Q ss_pred CCceeeCHHHHHHHHHHHhcCCCCceEEEEEecCCCCCceeeEEEecccCCCCCCceeeeCCEEEEEcccccccccCcEE
Q 030533 64 KPAILLTEKALKHLSKMRSERSEDLCLRIGVKQGGCSGMSYTMEFENRANARPDDSVIEYDGFVIVCDPKSLLFLFGMQL 143 (175)
Q Consensus 64 ~~~ItIT~~A~~~Lk~l~~~~~~~~~LRI~v~~~GCsG~~y~l~l~~~~~~~~~D~vie~~Gi~v~iD~~s~~~L~g~~I 143 (175)
.-.++|+|.|.++|+|+....+ ..|||.|++|||+||+|.+.+|...+ ++|.+++.+|.+|+||..++.|++|.+|
T Consensus 91 ~~~~~lsds~~krl~EI~~~~p--e~LRl~VegGGCsGFQYkf~LD~~in--~dD~vf~e~~arVVvD~~SL~~~kGatv 166 (199)
T KOG1119|consen 91 GFNLHLSDSCSKRLKEIYENSP--EFLRLTVEGGGCSGFQYKFRLDNKIN--NDDRVFVENGARVVVDNVSLNLLKGATV 166 (199)
T ss_pred CceEEehhHHHHHHHHHHhCCc--ceEEEEEecCCccceEEEEEecCCCC--CcceEEeeCCcEEEEeccchhhccCcee
Confidence 3469999999999999988765 57999999999999999999999876 8999999999999999999999999999
Q ss_pred EeecCCCccceEE-eCCCCCCCCCCCCCccccC
Q 030533 144 DYSDALIGGGFSF-KNPNATQTCGCGKSFAAEM 175 (175)
Q Consensus 144 Dy~e~~~g~gF~~-~nPn~~~~CGCG~SF~~~~ 175 (175)
||.+++++++|.+ .||.++++||||+||.+||
T Consensus 167 dy~~ELIrSsF~ivnNP~A~~gCsCgSSF~ikl 199 (199)
T KOG1119|consen 167 DYTNELIRSSFRIVNNPSAKQGCSCGSSFDIKL 199 (199)
T ss_pred ehHHHHhhhhheeecCcccccCCCCCcccccCC
Confidence 9999999999999 6799999999999999986
No 11
>PRK11190 Fe/S biogenesis protein NfuA; Provisional
Probab=99.93 E-value=9.3e-26 Score=183.27 Aligned_cols=96 Identities=23% Similarity=0.427 Sum_probs=88.4
Q ss_pred ceeeCHHHHHHHHHHHhcCCCCceEEEEEecCCCCCceeeEEE--ecccCCCCCCceeeeCCEEEEEcccccccccCcEE
Q 030533 66 AILLTEKALKHLSKMRSERSEDLCLRIGVKQGGCSGMSYTMEF--ENRANARPDDSVIEYDGFVIVCDPKSLLFLFGMQL 143 (175)
Q Consensus 66 ~ItIT~~A~~~Lk~l~~~~~~~~~LRI~v~~~GCsG~~y~l~l--~~~~~~~~~D~vie~~Gi~v~iD~~s~~~L~g~~I 143 (175)
||+|||+|+++|++++++++++.+|||+|+++||+|++|+|.| ++.. .++|.+++.+|++|+||+.++.||+|++|
T Consensus 1 ~i~iTd~A~~~i~~ll~~~~~~~~LRI~V~~gGCsG~~Y~~~~~~~~~~--~~~D~v~e~~gv~v~Vd~~S~~~L~G~~I 78 (192)
T PRK11190 1 MITISDAAQAHFAKLLANQEEGTQIRVFVINPGTPNAECGVSYCPPDAV--EATDTELKFDGFSAYVDELSAPFLEDAEI 78 (192)
T ss_pred CcEECHHHHHHHHHHHhcCCCCceEEEEEECCCcCCceeeeEEeecCCC--CCCCEEEEeCCEEEEECcchHhHhCCCEE
Confidence 5899999999999999876555689999999999999999999 4444 37999999999999999999999999999
Q ss_pred EeecCCCccceEEeCCCCCC
Q 030533 144 DYSDALIGGGFSFKNPNATQ 163 (175)
Q Consensus 144 Dy~e~~~g~gF~~~nPn~~~ 163 (175)
||+++..+++|+|+|||++.
T Consensus 79 Dyve~~~g~gF~f~NPNa~~ 98 (192)
T PRK11190 79 DFVTDQLGSQLTLKAPNAKM 98 (192)
T ss_pred EEeecCCCCceEEECCCCCC
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=99.92 E-value=2.8e-25 Score=161.16 Aligned_cols=90 Identities=16% Similarity=0.346 Sum_probs=82.5
Q ss_pred CceeeCHHHHHHHHHHHhcCCC-CceEEEEEecCCCCCceeeEEEecccCCCCCCceeeeCCEEEEEcccccccccCcEE
Q 030533 65 PAILLTEKALKHLSKMRSERSE-DLCLRIGVKQGGCSGMSYTMEFENRANARPDDSVIEYDGFVIVCDPKSLLFLFGMQL 143 (175)
Q Consensus 65 ~~ItIT~~A~~~Lk~l~~~~~~-~~~LRI~v~~~GCsG~~y~l~l~~~~~~~~~D~vie~~Gi~v~iD~~s~~~L~g~~I 143 (175)
-+|+|||+|+++|++++++++. ..+|||+|+++||+|++|.|.++++ + ++|.+++.+|++|+||+.++.||.|++|
T Consensus 2 ~~i~lT~~A~~~i~~ll~~~~~~~~~LRi~v~~gGCsG~~Y~~~ld~~-~--~~D~v~~~~gv~v~vD~~s~~~l~G~~i 78 (92)
T TIGR01911 2 KIVAMSDDAYEEFKDFLKENDIDNDVIRIHFAGMGCMGPMFNLIADEE-K--EGDEIEKIHDLTFLIDKNLIDQFGGFSI 78 (92)
T ss_pred CceEECHHHHHHHHHHHHhCCCCCceEEEEEeCCCccCcccceEecCC-C--CCCEEEEeCCEEEEECHHHHHHhCCCEE
Confidence 3699999999999999977643 3579999999999999999999875 3 7999999999999999999999999999
Q ss_pred EeecCCCccceEEe
Q 030533 144 DYSDALIGGGFSFK 157 (175)
Q Consensus 144 Dy~e~~~g~gF~~~ 157 (175)
||+++..+++|+|+
T Consensus 79 Dy~~~~~g~gF~~~ 92 (92)
T TIGR01911 79 ECAEENFGAGFSLD 92 (92)
T ss_pred EEecCCCCCcEEeC
Confidence 99999999999984
No 13
>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=99.92 E-value=8.5e-25 Score=177.40 Aligned_cols=97 Identities=27% Similarity=0.411 Sum_probs=87.1
Q ss_pred eeeCHHHHHHHHHHHhcCCCCceEEEEEecCCCCCceeeEEEecccCCCCCCceeeeCCEEEEEcccccccccCcEEEee
Q 030533 67 ILLTEKALKHLSKMRSERSEDLCLRIGVKQGGCSGMSYTMEFENRANARPDDSVIEYDGFVIVCDPKSLLFLFGMQLDYS 146 (175)
Q Consensus 67 ItIT~~A~~~Lk~l~~~~~~~~~LRI~v~~~GCsG~~y~l~l~~~~~~~~~D~vie~~Gi~v~iD~~s~~~L~g~~IDy~ 146 (175)
|+||++|+++|++++++++++.+|||+|+++||+|++|+|.|....+.+++|.+++.+|++|+||+.++.||+|++|||+
T Consensus 1 I~IT~~A~~~l~~ll~~~~~~~~LRv~V~~gGCsG~~Y~l~~~~~~~~~~~D~v~e~~g~~v~Vd~~s~~~L~g~~IDyv 80 (190)
T TIGR03341 1 ITITEAAQAYLAKLLAKQNEGTGIRVFVVNPGTPYAECCVSYCPPDEVEPSDIKLEFNGFSAYVDALSAPFLEDAVIDFV 80 (190)
T ss_pred CEECHHHHHHHHHHHhhCCCCceEEEEEECCccCCceeeeEEcccCCCCCCCEEEEeCCEEEEEccchhhHhCCCEEEEe
Confidence 68999999999999987655568999999999999999999942222348999999999999999999999999999999
Q ss_pred cCCCccceEEeCCCCCC
Q 030533 147 DALIGGGFSFKNPNATQ 163 (175)
Q Consensus 147 e~~~g~gF~~~nPn~~~ 163 (175)
++..+++|+|+|||++.
T Consensus 81 e~~~g~gF~f~NPna~~ 97 (190)
T TIGR03341 81 TDRMGGQLTLKAPNAKM 97 (190)
T ss_pred ecCCCceeEEeCCccCC
Confidence 99999999999999864
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=99.90 E-value=7.7e-24 Score=156.89 Aligned_cols=102 Identities=38% Similarity=0.713 Sum_probs=92.7
Q ss_pred CceeeCHHHHHHHHHHHhcCCCCceEEEEEecCC--------CC-CceeeEEEecccCCCCCCceeeeCCEEEEEccccc
Q 030533 65 PAILLTEKALKHLSKMRSERSEDLCLRIGVKQGG--------CS-GMSYTMEFENRANARPDDSVIEYDGFVIVCDPKSL 135 (175)
Q Consensus 65 ~~ItIT~~A~~~Lk~l~~~~~~~~~LRI~v~~~G--------Cs-G~~y~l~l~~~~~~~~~D~vie~~Gi~v~iD~~s~ 135 (175)
|.|+||++|+++|++++.+++.. |||+++.+| |+ |++|.|.+++..+ .+.|.+++.+|++|+|++.+.
T Consensus 1 M~I~iT~~A~~~l~~~~~~~~~~--irl~~~~gg~p~~~~~~C~~g~~y~l~~~~~~~-~~~D~~~~~~~~~i~i~~~~~ 77 (112)
T PF01521_consen 1 MKITITDAAAERLKQLLKEDPKK--IRLFVDDGGSPYSREGCCSIGFSYSLALVDKPD-EEYDIVIESNGFTIYIDKYSL 77 (112)
T ss_dssp -EEEE-HHHHHHHHHHHHCTTES--EEEEEEEESSCCGGSS-TTSEEEEEEEEESSTS-TTSCEEEEETTEEEEEEGGGH
T ss_pred CEEEECHHHHHHHHHHHhcCCCE--EEEEEECCCcccccCCCCCCCcEEeEEEeeccc-ccceEEEeeeEEEEEEeccHh
Confidence 68999999999999999987543 999999999 99 9999999998762 279999999999999999999
Q ss_pred ccc-cCcEEEeecCCCccceEEeCCCCCCCCCCCC
Q 030533 136 LFL-FGMQLDYSDALIGGGFSFKNPNATQTCGCGK 169 (175)
Q Consensus 136 ~~L-~g~~IDy~e~~~g~gF~~~nPn~~~~CGCG~ 169 (175)
+|| ++++|||.++..+.+|++.||+....|+||+
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=99.65 E-value=6.6e-16 Score=110.27 Aligned_cols=88 Identities=28% Similarity=0.379 Sum_probs=74.1
Q ss_pred CceeeCHHHHHHHHHHHhcCCCCceEEEEEecCCCC----CceeeEEEecccCCCCCCceeeeCCEEEEEcccccccccC
Q 030533 65 PAILLTEKALKHLSKMRSERSEDLCLRIGVKQGGCS----GMSYTMEFENRANARPDDSVIEYDGFVIVCDPKSLLFLFG 140 (175)
Q Consensus 65 ~~ItIT~~A~~~Lk~l~~~~~~~~~LRI~v~~~GCs----G~~y~l~l~~~~~~~~~D~vie~~Gi~v~iD~~s~~~L~g 140 (175)
|+|+||+.|++|+++.+.-.. +..||++++.|||+ ||+.++..+.+. |--...+++|++|+|+.+++||+++
T Consensus 1 Mni~vtd~A~~wfk~E~~l~~-g~~vrffvRyGG~~~~~~GFS~gv~~e~Pk---E~g~~q~~Dgltffiee~DlWYF~d 76 (95)
T COG4841 1 MNIEVTDQALKWFKEELDLEE-GNKVRFFVRYGGCSSLQQGFSLGVAKEVPK---EIGYKQEYDGLTFFIEEKDLWYFDD 76 (95)
T ss_pred CceEEcHHHHHHHHHhcCCCC-CCEEEEEEEEcCcccccCCcceeeeccCch---hhchheeecCeEEEEecCceEEEcC
Confidence 689999999999999987764 45799999999999 677666666554 3344557999999999999999999
Q ss_pred --cEEEeecCCCccceEE
Q 030533 141 --MQLDYSDALIGGGFSF 156 (175)
Q Consensus 141 --~~IDy~e~~~g~gF~~ 156 (175)
++|||.++.....|+.
T Consensus 77 ~d~~v~y~~~~Dei~fs~ 94 (95)
T COG4841 77 HDLKVDYSPDTDEISFSY 94 (95)
T ss_pred CcEEEeccCCCCcceeec
Confidence 9999999988887765
No 16
>COG4918 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=98.73 E-value=5e-08 Score=71.74 Aligned_cols=83 Identities=20% Similarity=0.171 Sum_probs=65.9
Q ss_pred CceeeCHHHHHHHHHHHhcC-CCCceEEEEEecCCCCC-ceeeEEEecccCCCCCCceeeeCCEEEEEcccccccccC-c
Q 030533 65 PAILLTEKALKHLSKMRSER-SEDLCLRIGVKQGGCSG-MSYTMEFENRANARPDDSVIEYDGFVIVCDPKSLLFLFG-M 141 (175)
Q Consensus 65 ~~ItIT~~A~~~Lk~l~~~~-~~~~~LRI~v~~~GCsG-~~y~l~l~~~~~~~~~D~vie~~Gi~v~iD~~s~~~L~g-~ 141 (175)
|+|++|++|+++|+.....+ ..+..+|+..++.||.| =-+.+.++++.. ..|..++.|+.+|+|-.....||++ +
T Consensus 1 M~Itftd~a~~~l~~a~d~nl~~~~hl~ydtEgc~Ca~SGi~t~rlvae~t--g~d~~idsn~gPiyik~~~~~Ff~D~m 78 (114)
T COG4918 1 MKITFTDKAADKLKAAGDVNLVFDDHLLYDTEGCACAGSGISTYRLVAEET--GFDASIDSNFGPIYIKDYGSYFFQDEM 78 (114)
T ss_pred CeEEecHHHHHHHHHhhccCcCccceEEEeccccccccCCcceEEEEEecc--CcccccccCCCcEEEEecceeEeccee
Confidence 68999999999999877654 34567888888888874 224666666554 5788999999999999998888886 9
Q ss_pred EEEeecCC
Q 030533 142 QLDYSDAL 149 (175)
Q Consensus 142 ~IDy~e~~ 149 (175)
+|||.+..
T Consensus 79 tidyN~~~ 86 (114)
T COG4918 79 TIDYNPSY 86 (114)
T ss_pred eeecCCcc
Confidence 99998764
No 17
>COG3564 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=97.64 E-value=0.00046 Score=50.75 Aligned_cols=93 Identities=23% Similarity=0.354 Sum_probs=63.6
Q ss_pred CCCceeeCHHHHHHHHHHHhcCCCCceEEEEEecCCCC-CceeeEEEecc-cCCCCCCcee-eeCCEEEEEccccccccc
Q 030533 63 LKPAILLTEKALKHLSKMRSERSEDLCLRIGVKQGGCS-GMSYTMEFENR-ANARPDDSVI-EYDGFVIVCDPKSLLFLF 139 (175)
Q Consensus 63 ~~~~ItIT~~A~~~Lk~l~~~~~~~~~LRI~v~~~GCs-G~~y~l~l~~~-~~~~~~D~vi-e~~Gi~v~iD~~s~~~L~ 139 (175)
+...++.|++|++-|.++..+.++ | +|-..+||. |-+ -|-+-.. .-..+.|+.+ +.+|++|||...+..+-+
T Consensus 3 ~~~~V~aT~aAl~Li~~l~~~hgp---v-mFHQSGGCCDGSs-PMCYP~~~fivGd~DvlLG~i~gvPvyIs~~QyeaWK 77 (116)
T COG3564 3 MPARVLATPAALDLIAELQAEHGP---V-MFHQSGGCCDGSS-PMCYPRADFIVGDNDVLLGEIDGVPVYISGPQYEAWK 77 (116)
T ss_pred CCcceecCHHHHHHHHHHHHhcCC---E-EEeccCCccCCCC-CccccccceeecCCceEEeeeCCEEEEecCcHHhhhh
Confidence 345689999999999999988753 2 444567776 321 2222111 0011456655 799999999999988877
Q ss_pred C--cEEEeecCCCccceEEeCCCC
Q 030533 140 G--MQLDYSDALIGGGFSFKNPNA 161 (175)
Q Consensus 140 g--~~IDy~e~~~g~gF~~~nPn~ 161 (175)
. +.||.+.. .|+.|.++|-..
T Consensus 78 HTqLIIDVVpG-RGGmFSLdng~E 100 (116)
T COG3564 78 HTQLIIDVVPG-RGGMFSLDNGRE 100 (116)
T ss_pred ccEEEEEEecC-CCceeEccCCcc
Confidence 5 88999865 478899987443
No 18
>PF05610 DUF779: Protein of unknown function (DUF779); InterPro: IPR008497 This family consists of several bacterial proteins of unknown function.
Probab=96.48 E-value=0.019 Score=41.95 Aligned_cols=81 Identities=20% Similarity=0.417 Sum_probs=53.8
Q ss_pred HHHHHhcCCCCceEEEEEecCCCCCceeeEEEeccc-CCCCCCcee-eeCCEEEEEcccccccccC--cEEEeecCCCcc
Q 030533 77 LSKMRSERSEDLCLRIGVKQGGCSGMSYTMEFENRA-NARPDDSVI-EYDGFVIVCDPKSLLFLFG--MQLDYSDALIGG 152 (175)
Q Consensus 77 Lk~l~~~~~~~~~LRI~v~~~GCsG~~y~l~l~~~~-~~~~~D~vi-e~~Gi~v~iD~~s~~~L~g--~~IDy~e~~~g~ 152 (175)
|+++.++.+ + | ++-..+||..-+-=|-+.... .+.+.|+.+ +..|++|+|.+++..|.+. ++||.++. .|.
T Consensus 3 i~~L~~~HG-~--l-mFhQSGGCCDGSaPmC~p~gef~~g~~DV~LG~i~g~~fym~~~qfeywkht~L~iDVv~G-rG~ 77 (95)
T PF05610_consen 3 IRRLKAKHG-P--L-MFHQSGGCCDGSAPMCYPAGEFRVGDSDVLLGEIGGVPFYMSKDQFEYWKHTQLTIDVVPG-RGG 77 (95)
T ss_pred HHHHHHhcC-C--E-EEEeCCCCCCCCcceeEeCCceecCCCcEEEEEecCeEEEEchHHHHHhhCcEEEEEEEec-CCC
Confidence 445555543 2 3 344567877222233332221 123567665 8999999999999999987 89999874 578
Q ss_pred ceEEeCCCCC
Q 030533 153 GFSFKNPNAT 162 (175)
Q Consensus 153 gF~~~nPn~~ 162 (175)
+|.+++|..+
T Consensus 78 ~FSLE~~~G~ 87 (95)
T PF05610_consen 78 GFSLEAPEGK 87 (95)
T ss_pred eeeccCCCCc
Confidence 9999999753
No 19
>KOG3348 consensus BolA (bacterial stress-induced morphogen)-related protein [Signal transduction mechanisms]
Probab=44.13 E-value=64 Score=23.11 Aligned_cols=39 Identities=18% Similarity=0.321 Sum_probs=27.3
Q ss_pred HHHHHHHHHhcCCCCceEEEEEecCCCCCceeeEEEeccc
Q 030533 73 ALKHLSKMRSERSEDLCLRIGVKQGGCSGMSYTMEFENRA 112 (175)
Q Consensus 73 A~~~Lk~l~~~~~~~~~LRI~v~~~GCsG~~y~l~l~~~~ 112 (175)
..++|++++.+.=+...|+|.=..+||++ .|.+.+..+.
T Consensus 4 ~e~~l~~~L~~~l~p~~v~V~D~SgGCG~-~F~v~IvS~~ 42 (85)
T KOG3348|consen 4 TEERLEELLTEALEPEHVEVQDVSGGCGS-MFDVVIVSAA 42 (85)
T ss_pred hHHHHHHHHHhhcCceEEEEEEcCCCccc-eEEEEEEccc
Confidence 45778888877644567777767789875 4777776553
No 20
>PF14135 DUF4302: Domain of unknown function (DUF4302)
Probab=37.70 E-value=77 Score=26.21 Aligned_cols=42 Identities=19% Similarity=0.323 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHhcCCCCceEEEEEecCC-CCCceeeEEEeccc
Q 030533 71 EKALKHLSKMRSERSEDLCLRIGVKQGG-CSGMSYTMEFENRA 112 (175)
Q Consensus 71 ~~A~~~Lk~l~~~~~~~~~LRI~v~~~G-CsG~~y~l~l~~~~ 112 (175)
.+++++++++|...+.++.+-++.+... =+|+.|-|.|.+..
T Consensus 15 ~e~~~~~k~~L~~a~~GW~~~yyp~~~~~~GGy~f~~kF~~~~ 57 (235)
T PF14135_consen 15 NEALAEYKKILTSAPNGWKLEYYPKTDQSYGGYTFLMKFDDDG 57 (235)
T ss_pred HHHHHHHHHHHhcCCCceEEEEECCCCccCCcEEEEEEECCCC
Confidence 4567778888877766788888876532 35899999998754
No 21
>PF12677 DUF3797: Domain of unknown function (DUF3797); InterPro: IPR024256 This presumed domain is functionally uncharacterised. This domain family is found in bacteria and viruses, and is approximately 50 amino acids in length. There is a conserved CGN sequence motif.
Probab=37.14 E-value=24 Score=22.75 Aligned_cols=15 Identities=27% Similarity=0.722 Sum_probs=9.1
Q ss_pred eEEeCCCCCCCCCCC
Q 030533 154 FSFKNPNATQTCGCG 168 (175)
Q Consensus 154 F~~~nPn~~~~CGCG 168 (175)
..|+---.+..|+||
T Consensus 31 liV~edtfkRtCkCG 45 (49)
T PF12677_consen 31 LIVEEDTFKRTCKCG 45 (49)
T ss_pred EEEeccceeeeeccc
Confidence 444434456788888
No 22
>cd04482 RPA2_OBF_like RPA2_OBF_like: A subgroup of uncharacterized archaeal OB folds with similarity to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle depende
Probab=35.30 E-value=38 Score=23.92 Aligned_cols=17 Identities=24% Similarity=0.196 Sum_probs=12.7
Q ss_pred CCCCCceeeeCCEEEEE
Q 030533 114 ARPDDSVIEYDGFVIVC 130 (175)
Q Consensus 114 ~~~~D~vie~~Gi~v~i 130 (175)
+++||.|.-.+++.++-
T Consensus 48 l~~Gd~V~v~G~v~~y~ 64 (91)
T cd04482 48 LIPGDEVTVYGSVRPGT 64 (91)
T ss_pred CCCCCEEEEEEEEecCC
Confidence 34789888788877775
No 23
>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=35.06 E-value=32 Score=25.91 Aligned_cols=15 Identities=27% Similarity=0.406 Sum_probs=8.7
Q ss_pred cccccCcEEEeecCC
Q 030533 135 LLFLFGMQLDYSDAL 149 (175)
Q Consensus 135 ~~~L~g~~IDy~e~~ 149 (175)
...|+|-+|||.+..
T Consensus 49 ~~qldGyTvDy~~~~ 63 (117)
T cd01234 49 FIQLDGYTVDYMPES 63 (117)
T ss_pred heeecceEEeccCCC
Confidence 445666666776543
No 24
>KOG4777 consensus Aspartate-semialdehyde dehydrogenase [Amino acid transport and metabolism]
Probab=34.37 E-value=36 Score=29.76 Aligned_cols=39 Identities=23% Similarity=0.313 Sum_probs=35.0
Q ss_pred eCCEEEEEcccccccccCcEEEeecCCCccceEEeCCCC
Q 030533 123 YDGFVIVCDPKSLLFLFGMQLDYSDALIGGGFSFKNPNA 161 (175)
Q Consensus 123 ~~Gi~v~iD~~s~~~L~g~~IDy~e~~~g~gF~~~nPn~ 161 (175)
.+|++++|..---..|+++.+-.++...+.||.|.|||-
T Consensus 114 e~~VPLvvP~VNpehld~ik~~~~~~k~~~G~iI~nsNC 152 (361)
T KOG4777|consen 114 EDGVPLVVPEVNPEHLDGIKVGLDTGKMGKGAIIANSNC 152 (361)
T ss_pred CCCCceEecccCHHHhhhheeccccCCCCCceEEecCCC
Confidence 478999999888889999999888888999999999994
No 25
>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=33.05 E-value=66 Score=23.11 Aligned_cols=25 Identities=20% Similarity=0.369 Sum_probs=17.2
Q ss_pred HHHHHHHHhcCCCCceEEEEEecCCCCCc
Q 030533 74 LKHLSKMRSERSEDLCLRIGVKQGGCSGM 102 (175)
Q Consensus 74 ~~~Lk~l~~~~~~~~~LRI~v~~~GCsG~ 102 (175)
.+.|++.+++++ |++.+...||-|+
T Consensus 20 ~~al~~ei~~~g----l~v~v~~tGC~G~ 44 (92)
T cd03063 20 AEAIEAEAAARG----LAATIVRNGSRGM 44 (92)
T ss_pred HHHHHHHHHHcC----CeEEEEEecCcee
Confidence 455555565542 3788888999987
No 26
>PF11858 DUF3378: Domain of unknown function (DUF3378); InterPro: IPR024568 Ribonuclease HIII 3.1.26 from EC cleaves RNA from DNA-RNA hybrids. It catalyses endonucleolytic cleavage to 5'-phospho-monoesters. Two types of ribonuclease H in Bacillus subtilis, RNase HII (rnhB) and RNase HIII (rnhC), are both known experimentally and are quite similar to each other []. The only RNase H homologue in the Mycoplasmas resembles rnhC. Archaeal forms resemble HII more closely than HIII. This entry represents the uncharacterised N-terminal domain of bacterial RNase HIII.; PDB: 3ASM_A 2D0C_A 2D0B_A 2D0A_A.
Probab=32.42 E-value=61 Score=22.72 Aligned_cols=35 Identities=20% Similarity=0.221 Sum_probs=24.5
Q ss_pred ceeeCHHHHHHHHHHHhcC---CCCceEEEEEecCCCC
Q 030533 66 AILLTEKALKHLSKMRSER---SEDLCLRIGVKQGGCS 100 (175)
Q Consensus 66 ~ItIT~~A~~~Lk~l~~~~---~~~~~LRI~v~~~GCs 100 (175)
-|++|+...++|+..+... ....+.++.++..||.
T Consensus 4 vlkl~~~~i~~l~~~y~~~~~~~~~p~~~f~aK~~~~t 41 (81)
T PF11858_consen 4 VLKLTSEQIEKLKKYYKPYLTSSKPPYAVFQAKYNGVT 41 (81)
T ss_dssp EEE--HHHHHHHHHHSTT-B-SS--TTEEEEEEETTEE
T ss_pred EEECCHHHHHHHHHHHHHhcccCCCCCEEEEEeCCCeE
Confidence 3789999999999987432 3446799999999886
No 27
>TIGR02588 conserved hypothetical protein TIGR02588. The function of this protein is unknown. It is always found as part of a two-gene operon with TIGR02587, a protein that appears to span the membrane seven times. It is found in Nostoc sp. PCC 7120, Agrobacterium tumefaciens, Sinorhizobium meliloti, and Gloeobacter violaceus, so far, all of which are bacterial.
Probab=31.23 E-value=2.4e+02 Score=21.53 Aligned_cols=24 Identities=21% Similarity=0.403 Sum_probs=17.3
Q ss_pred ccCcEEEeecCCC--ccceEEe-CCCC
Q 030533 138 LFGMQLDYSDALI--GGGFSFK-NPNA 161 (175)
Q Consensus 138 L~g~~IDy~e~~~--g~gF~~~-nPn~ 161 (175)
-...+|||..... .++|+|. ||..
T Consensus 83 ~~e~tiDfl~g~e~~~G~~IF~~dP~~ 109 (122)
T TIGR02588 83 NAEVTIDYLASGSKENGTLIFRSDPRN 109 (122)
T ss_pred EeeEEEEEcCCCCeEeEEEEEccCccc
Confidence 3458999997765 4689995 5654
No 28
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=30.44 E-value=26 Score=27.30 Aligned_cols=21 Identities=29% Similarity=0.627 Sum_probs=14.3
Q ss_pred ceEEeCCCCC-CCCCCCCCccc
Q 030533 153 GFSFKNPNAT-QTCGCGKSFAA 173 (175)
Q Consensus 153 gF~~~nPn~~-~~CGCG~SF~~ 173 (175)
-|+...|..+ -.|.||.||..
T Consensus 60 lfi~qs~~~rv~rcecghsf~d 81 (165)
T COG4647 60 LFICQSAQKRVIRCECGHSFGD 81 (165)
T ss_pred EEEEecccccEEEEeccccccC
Confidence 3555655543 47999999963
No 29
>COG5134 Uncharacterized conserved protein [Function unknown]
Probab=26.26 E-value=1.6e+02 Score=25.01 Aligned_cols=54 Identities=15% Similarity=0.188 Sum_probs=34.9
Q ss_pred HHHHHHHhcCC--CCceEEEEEecCCCCCceeeEEEecccCCCCCCceeeeCCEEEEEccc
Q 030533 75 KHLSKMRSERS--EDLCLRIGVKQGGCSGMSYTMEFENRANARPDDSVIEYDGFVIVCDPK 133 (175)
Q Consensus 75 ~~Lk~l~~~~~--~~~~LRI~v~~~GCsG~~y~l~l~~~~~~~~~D~vie~~Gi~v~iD~~ 133 (175)
+..++++.++. .-..-|+.+.-.||+.. ..+.-|+. .+|.|+|.+|++=+....
T Consensus 59 NavkE~~~dK~y~~~kiYRf~I~C~~C~n~-i~~RTDPk----N~~YV~EsGg~R~i~pq~ 114 (272)
T COG5134 59 NAVKEEIGDKSYYTTKIYRFSIKCHLCSNP-IDVRTDPK----NTEYVVESGGRRKIEPQD 114 (272)
T ss_pred hHHHHHhcccccceeEEEEEEEEccCCCCc-eeeecCCC----CceEEEecCceeecCccc
Confidence 45666776653 12346888888899843 34433433 489999999998655443
No 30
>KOG0633 consensus Histidinol phosphate aminotransferase [Amino acid transport and metabolism]
Probab=24.78 E-value=80 Score=27.81 Aligned_cols=49 Identities=16% Similarity=0.278 Sum_probs=34.2
Q ss_pred eeeC----HHHHHHHHHHHhcCCCCceEEEEEecCCCCCceeeEEEecccCCCCCCcee
Q 030533 67 ILLT----EKALKHLSKMRSERSEDLCLRIGVKQGGCSGMSYTMEFENRANARPDDSVI 121 (175)
Q Consensus 67 ItIT----~~A~~~Lk~l~~~~~~~~~LRI~v~~~GCsG~~y~l~l~~~~~~~~~D~vi 121 (175)
|++| ..|.+.+++++... +..+|+.-...||.|+ ..++...+. ++++.+
T Consensus 316 i~v~~~~n~~akkly~q~at~~--gVvVRfrgse~~c~G~-lRitvGt~E---entvL~ 368 (375)
T KOG0633|consen 316 IEVTGGDNGMAKKLYKQDATKM--GVVVRFRGSEEGCKGY-LRITVGTPE---ENTVLM 368 (375)
T ss_pred EEEcCCCcHHHHHHHHHHHHhc--ceEEEEcCCcccccee-EEEEcCCcc---cchHHH
Confidence 6777 55666666666654 4678998888999997 577776653 466554
No 31
>PRK01160 hypothetical protein; Provisional
Probab=24.35 E-value=96 Score=25.12 Aligned_cols=33 Identities=24% Similarity=0.164 Sum_probs=24.2
Q ss_pred CceeeCHHHHHHHHHHHhcCCCCceEEEEEecC
Q 030533 65 PAILLTEKALKHLSKMRSERSEDLCLRIGVKQG 97 (175)
Q Consensus 65 ~~ItIT~~A~~~Lk~l~~~~~~~~~LRI~v~~~ 97 (175)
|.=+||+++.+.+++.+..-..+...+|.|+|.
T Consensus 92 PpGtIt~el~~ai~~a~~~~~~~~~~~I~VdGE 124 (178)
T PRK01160 92 PPGTITLALLRAIKKAFSLIERGKKVRIEVNGE 124 (178)
T ss_pred CCCcccHHHHHHHHHHHHhhhcCCeEEEEEcCh
Confidence 556899999999999854322345588998864
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=22.53 E-value=49 Score=18.29 Aligned_cols=14 Identities=36% Similarity=1.020 Sum_probs=10.1
Q ss_pred CCCCCCCC-CCCCcc
Q 030533 159 PNATQTCG-CGKSFA 172 (175)
Q Consensus 159 Pn~~~~CG-CG~SF~ 172 (175)
|.....|. ||..|.
T Consensus 11 ~~~~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 11 PESAKFCPHCGYDFE 25 (26)
T ss_pred hhhcCcCCCCCCCCc
Confidence 34446887 999986
No 33
>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=22.17 E-value=60 Score=19.79 Aligned_cols=8 Identities=38% Similarity=1.252 Sum_probs=5.8
Q ss_pred CCCCCCCC
Q 030533 161 ATQTCGCG 168 (175)
Q Consensus 161 ~~~~CGCG 168 (175)
...+|||=
T Consensus 17 v~tsCgCt 24 (45)
T PF07610_consen 17 VQTSCGCT 24 (45)
T ss_pred eeEccCCE
Confidence 44799994
No 34
>PRK01194 V-type ATP synthase subunit E; Provisional
Probab=21.42 E-value=90 Score=25.00 Aligned_cols=39 Identities=10% Similarity=0.128 Sum_probs=27.6
Q ss_pred CCEEEEEcccccccccCcEEEeecCCCccceEEeCCCCC
Q 030533 124 DGFVIVCDPKSLLFLFGMQLDYSDALIGGGFSFKNPNAT 162 (175)
Q Consensus 124 ~Gi~v~iD~~s~~~L~g~~IDy~e~~~g~gF~~~nPn~~ 162 (175)
+++.|++.+.+...+....|-|.+...-+||++.+++.+
T Consensus 119 ~~~~v~~~~~D~~~i~~~~l~~~~~~~~GGvil~s~dG~ 157 (185)
T PRK01194 119 EDCIIKVSESDKKKINNAKIKFADIDPYGGILAYSRDGK 157 (185)
T ss_pred CCeEEEEcHHhHHHHHhCceeeCCccccccEEEEeCCCc
Confidence 456677777777777766666665556789999877653
No 35
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=21.21 E-value=26 Score=17.76 Aligned_cols=9 Identities=67% Similarity=1.575 Sum_probs=6.7
Q ss_pred CC-CCCCccc
Q 030533 165 CG-CGKSFAA 173 (175)
Q Consensus 165 CG-CG~SF~~ 173 (175)
|. ||++|..
T Consensus 3 C~~C~~~f~~ 12 (23)
T PF00096_consen 3 CPICGKSFSS 12 (23)
T ss_dssp ETTTTEEESS
T ss_pred CCCCCCccCC
Confidence 54 9998864
No 36
>cd00991 PDZ_archaeal_metalloprotease PDZ domain of archaeal zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=20.57 E-value=91 Score=20.79 Aligned_cols=16 Identities=19% Similarity=0.293 Sum_probs=13.7
Q ss_pred CCCCCceeeeCCEEEE
Q 030533 114 ARPDDSVIEYDGFVIV 129 (175)
Q Consensus 114 ~~~~D~vie~~Gi~v~ 129 (175)
++++|+++..||.++-
T Consensus 28 L~~GDiI~~Ing~~v~ 43 (79)
T cd00991 28 LHTGDVIYSINGTPIT 43 (79)
T ss_pred CCCCCEEEEECCEEcC
Confidence 4579999999999886
No 37
>PF11146 DUF2905: Protein of unknown function (DUF2905); InterPro: IPR021320 This is a family of bacterial proteins conserved of unknown function.
Probab=20.53 E-value=1e+02 Score=20.86 Aligned_cols=17 Identities=24% Similarity=0.286 Sum_probs=15.0
Q ss_pred CCCceeeeCCEEEEEcc
Q 030533 116 PDDSVIEYDGFVIVCDP 132 (175)
Q Consensus 116 ~~D~vie~~Gi~v~iD~ 132 (175)
|+|..++.+|+++|..=
T Consensus 31 PGDi~i~~~~~~fyfPi 47 (64)
T PF11146_consen 31 PGDIRIRRGNFTFYFPI 47 (64)
T ss_pred CccEEEEECCEEEEEeh
Confidence 89999999999998753
No 38
>COG3369 Zinc finger domain containing protein (CDGSH-type) [Function unknown]
Probab=20.00 E-value=41 Score=23.70 Aligned_cols=10 Identities=40% Similarity=0.856 Sum_probs=7.8
Q ss_pred CCCCCCCCcc
Q 030533 163 QTCGCGKSFA 172 (175)
Q Consensus 163 ~~CGCG~SF~ 172 (175)
.-|+||.|-+
T Consensus 32 ~LCrCG~S~N 41 (78)
T COG3369 32 ALCRCGHSEN 41 (78)
T ss_pred EEEeccCcCC
Confidence 4699999854
Done!