Query psy10002
Match_columns 145
No_of_seqs 123 out of 1086
Neff 5.9
Searched_HMMs 46136
Date Fri Aug 16 15:23:22 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10002.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10002hhsearch_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 3.4E-37 7.3E-42 224.7 13.3 108 16-145 2-110 (110)
2 PRK09504 sufA iron-sulfur clus 100.0 6.2E-36 1.4E-40 221.0 13.3 114 6-145 8-122 (122)
3 PRK09502 iscA iron-sulfur clus 100.0 6.2E-36 1.3E-40 215.9 12.9 106 17-145 1-107 (107)
4 PRK13623 iron-sulfur cluster i 100.0 2.2E-35 4.7E-40 215.2 13.0 109 15-145 6-115 (115)
5 TIGR02011 IscA iron-sulfur clu 100.0 1.6E-34 3.6E-39 207.7 12.6 104 19-145 1-105 (105)
6 TIGR01997 sufA_proteo FeS asse 100.0 2E-34 4.4E-39 207.9 12.9 104 18-144 2-106 (107)
7 PLN03082 Iron-sulfur cluster a 100.0 3E-34 6.4E-39 221.8 12.7 108 17-145 53-162 (163)
8 TIGR00049 Iron-sulfur cluster 100.0 4.4E-32 9.5E-37 193.7 12.3 104 20-145 1-105 (105)
9 KOG1120|consensus 100.0 1.3E-31 2.8E-36 198.2 9.7 107 16-145 27-134 (134)
10 KOG1119|consensus 99.9 2.8E-27 6.1E-32 184.6 9.6 117 4-145 78-197 (199)
11 PRK11190 Fe/S biogenesis prote 99.9 1.1E-25 2.5E-30 177.9 12.5 95 18-135 1-98 (192)
12 TIGR01911 HesB_rel_seleno HesB 99.9 3E-25 6.5E-30 156.9 10.5 90 17-129 2-92 (92)
13 TIGR03341 YhgI_GntY IscR-regul 99.9 2.5E-24 5.4E-29 169.9 12.2 94 19-135 1-97 (190)
14 PF01521 Fe-S_biosyn: Iron-sul 99.9 2.2E-22 4.7E-27 144.7 9.5 100 17-141 1-112 (112)
15 COG4841 Uncharacterized protei 99.4 4.8E-13 1E-17 94.0 6.8 87 17-128 1-94 (95)
16 COG4918 Uncharacterized protei 98.1 7.2E-06 1.6E-10 59.3 5.7 81 17-121 1-86 (114)
17 COG3564 Uncharacterized protei 90.4 3.1 6.7E-05 30.2 8.1 87 18-133 6-100 (116)
18 PF05610 DUF779: Protein of un 88.5 3.2 6.9E-05 29.7 7.0 36 97-133 49-86 (95)
19 PHA02545 45 sliding clamp; Pro 53.7 1.2E+02 0.0027 24.8 9.1 95 18-118 115-213 (223)
20 cd01234 PH_CADPS CADPS (Ca2+-d 51.4 11 0.00025 27.7 1.9 20 103-122 45-64 (117)
21 KOG3348|consensus 47.0 57 0.0012 22.9 4.7 39 22-69 2-40 (85)
22 cd04482 RPA2_OBF_like RPA2_OBF 34.8 1.5E+02 0.0032 20.3 5.6 36 45-81 15-58 (91)
23 TIGR02588 conserved hypothetic 32.3 2.1E+02 0.0046 21.3 6.1 24 110-133 83-109 (122)
24 COG4647 AcxC Acetone carboxyla 31.2 27 0.00058 26.7 1.2 19 126-144 61-80 (165)
25 PF07610 DUF1573: Protein of u 31.1 23 0.0005 21.2 0.7 7 134-140 18-24 (45)
26 KOG4777|consensus 27.9 59 0.0013 27.9 2.8 39 95-133 114-152 (361)
27 cd03063 TRX_Fd_FDH_beta TRX-li 27.8 37 0.00081 23.8 1.4 13 49-61 32-44 (92)
28 PF00096 zf-C2H2: Zinc finger, 24.4 20 0.00043 17.8 -0.4 8 137-144 3-11 (23)
29 PF07305 DUF1454: Protein of u 22.1 1.4E+02 0.0031 24.0 3.8 49 18-67 138-186 (200)
30 PF09360 zf-CDGSH: Iron-bindin 21.4 37 0.00081 20.0 0.3 9 135-143 20-28 (38)
31 PF10571 UPF0547: Uncharacteri 21.3 54 0.0012 17.8 0.9 13 132-144 12-25 (26)
32 COG3369 Zinc finger domain con 21.0 36 0.00078 23.5 0.2 10 135-144 32-41 (78)
No 1
>COG0316 sufA Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.4e-37 Score=224.72 Aligned_cols=108 Identities=44% Similarity=0.769 Sum_probs=102.6
Q ss_pred ccceeeCHHHH-HHHHHHhhccccceeccCCCceEEEEEecCCCCCceeeEEeccCCCCCCeEEEecchhhhhhhhceee
Q psy10002 16 YTGINLSDDRT-QIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFH 94 (145)
Q Consensus 16 ~~~I~IT~~A~-~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~G~~y~l~l~~~~~~~D~vv~~~~~~~~~~~~~~~~ 94 (145)
+++|+|||+|+ +++++++.+. .++.+|||+|+++||+|++|.|.|++++.++|.+++.+
T Consensus 2 ~~~itlT~~Aa~~v~~ll~~~~-------~~~~~lRv~V~~gGCsG~~Y~~~~~~~~~~~D~v~e~~------------- 61 (110)
T COG0316 2 AMMITLTDAAAARVKALLAKEG-------EENLGLRVGVKGGGCSGFQYGLEFDDEINEDDTVFEQD------------- 61 (110)
T ss_pred CCceeeCHHHHHHHHHHHHhcc-------CCCceEEEEEeCCCCCCcEeEEEEcCCCCCCCEEEEeC-------------
Confidence 57899999995 8999999863 56889999999999999999999999889999999999
Q ss_pred cCceEEEEcccchhhcCCcEEEEeecCCCcceEEeCCCCCCCCCCCCCcCC
Q psy10002 95 VSGVRIFIDRKAQLTLLGTEMDYVENKLSSEFVFNNPNIKGTCGCGESFSV 145 (145)
Q Consensus 95 ~~gi~v~ID~~s~~~L~g~~IDy~e~~~g~gF~~~nP~~~~~CgCG~Sf~~ 145 (145)
|++|+||+.|+.||.|++|||+++.+|++|+|+|||++.+||||.||++
T Consensus 62 --g~~v~vD~~S~~~L~G~~IDyv~~~~g~~F~~~NPNA~~~CgCg~Sf~v 110 (110)
T COG0316 62 --GVKVVVDPKSLPYLEGTEIDYVEDLLGSGFTFKNPNAKSSCGCGESFSV 110 (110)
T ss_pred --CEEEEEChhhhhhhcCCEEEEEEcCcCCceEEECCCCCccccCCCCCCC
Confidence 9999999999999999999999999999999999999999999999985
No 2
>PRK09504 sufA iron-sulfur cluster assembly scaffold protein; Provisional
Probab=100.00 E-value=6.2e-36 Score=221.00 Aligned_cols=114 Identities=35% Similarity=0.707 Sum_probs=104.5
Q ss_pred CCccccccccccceeeCHHHH-HHHHHHhhccccceeccCCCceEEEEEecCCCCCceeeEEeccCCCCCCeEEEecchh
Q psy10002 6 STPTAFIYHLYTGINLSDDRT-QIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKY 84 (145)
Q Consensus 6 ~~~~~~~~~~~~~I~IT~~A~-~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~G~~y~l~l~~~~~~~D~vv~~~~~~ 84 (145)
=.|+.. .|++|+|||+|+ +|+++++.+ ++..+|||.|+++||+|++|.|.++++++++|.+++.+
T Consensus 8 ~~~~~~---~~~~I~iT~~A~~~i~~l~~~~--------~~~~~LRi~v~~gGCsG~~Y~~~l~~e~~~~D~v~e~~--- 73 (122)
T PRK09504 8 FNPDDF---AWQGLTLTPAAAAHIRELMAKQ--------PGMKGVRLGVKQTGCAGFGYVLDSVSEPDKDDLVFEHD--- 73 (122)
T ss_pred eccCcC---CcCCEEECHHHHHHHHHHHhcC--------CCCceEEEEEECCCCCceEEEeeecCCCCCCCEEEEeC---
Confidence 356666 699999999995 899999764 34568999999999999999999998889999999999
Q ss_pred hhhhhhceeecCceEEEEcccchhhcCCcEEEEeecCCCcceEEeCCCCCCCCCCCCCcCC
Q psy10002 85 WALILTCFFHVSGVRIFIDRKAQLTLLGTEMDYVENKLSSEFVFNNPNIKGTCGCGESFSV 145 (145)
Q Consensus 85 ~~~~~~~~~~~~gi~v~ID~~s~~~L~g~~IDy~e~~~g~gF~~~nP~~~~~CgCG~Sf~~ 145 (145)
|++|+||+.++.||+|++|||++++.+++|+|.|||++++||||+||++
T Consensus 74 ------------g~~v~Id~~s~~~L~g~~IDy~~~~~~~gF~f~NPna~~~CgCG~SF~v 122 (122)
T PRK09504 74 ------------GAKLFVPLQAMPFIDGTEVDYVREGLNQIFKFHNPKAQNECGCGESFGV 122 (122)
T ss_pred ------------CEEEEEcHHHHHhhCCcEEEeecCCCcceEEEECCCCCCCcCCCCCeeC
Confidence 9999999999999999999999999999999999999999999999985
No 3
>PRK09502 iscA iron-sulfur cluster assembly protein; Provisional
Probab=100.00 E-value=6.2e-36 Score=215.94 Aligned_cols=106 Identities=37% Similarity=0.734 Sum_probs=98.4
Q ss_pred cceeeCHHHH-HHHHHHhhccccceeccCCCceEEEEEecCCCCCceeeEEeccCCCCCCeEEEecchhhhhhhhceeec
Q psy10002 17 TGINLSDDRT-QIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFHV 95 (145)
Q Consensus 17 ~~I~IT~~A~-~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~G~~y~l~l~~~~~~~D~vv~~~~~~~~~~~~~~~~~ 95 (145)
|+|+|||+|+ +|+++++.+ .+..+|||+|+++||+|++|.|.|++++.++|.+++.+
T Consensus 1 m~i~iT~~A~~~i~~l~~~~--------~~~~~LRi~v~~~GCsG~~Y~l~~~~~~~~~D~~~~~~-------------- 58 (107)
T PRK09502 1 MSITLSDSAAARVNTFLANR--------GKGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDK-------------- 58 (107)
T ss_pred CeEEECHHHHHHHHHHHhCc--------CCCceEEEEEECCCcCCeeeEeeecCCCCCCCEEEEcC--------------
Confidence 4699999995 899999764 34568999999999999999999988888999999998
Q ss_pred CceEEEEcccchhhcCCcEEEEeecCCCcceEEeCCCCCCCCCCCCCcCC
Q psy10002 96 SGVRIFIDRKAQLTLLGTEMDYVENKLSSEFVFNNPNIKGTCGCGESFSV 145 (145)
Q Consensus 96 ~gi~v~ID~~s~~~L~g~~IDy~e~~~g~gF~~~nP~~~~~CgCG~Sf~~ 145 (145)
|++|+||+.++.||+|++|||++++.+++|+|+|||++++||||+||++
T Consensus 59 -g~~v~id~~s~~~l~g~~IDy~~~~~~~~F~f~NPna~~~CgCG~Sf~~ 107 (107)
T PRK09502 59 -GVKVVVDGKSLQFLDGTQLDFVKEGLNEGFKFTNPNVKDECGCGESFHV 107 (107)
T ss_pred -CeEEEEeHHHHhHhCCCEEEEeeCCCCceEEEECCCCCCccCCCCCeeC
Confidence 9999999999999999999999999999999999999999999999975
No 4
>PRK13623 iron-sulfur cluster insertion protein ErpA; Provisional
Probab=100.00 E-value=2.2e-35 Score=215.17 Aligned_cols=109 Identities=30% Similarity=0.608 Sum_probs=100.2
Q ss_pred cccceeeCHHHH-HHHHHHhhccccceeccCCCceEEEEEecCCCCCceeeEEeccCCCCCCeEEEecchhhhhhhhcee
Q psy10002 15 LYTGINLSDDRT-QIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFF 93 (145)
Q Consensus 15 ~~~~I~IT~~A~-~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~G~~y~l~l~~~~~~~D~vv~~~~~~~~~~~~~~~ 93 (145)
..|+|+|||+|+ +|+++++.++ .+..+|||+|+++||+|++|.|.+++++.++|.+++.+
T Consensus 6 ~~~~i~iT~~A~~~i~~~~~~~~-------~~~~~LRi~v~~~GCsG~~y~l~l~~~~~~~D~v~e~~------------ 66 (115)
T PRK13623 6 VPLPLVFTDAAAAKVKELIEEEG-------NPDLKLRVYITGGGCSGFQYGFTFDEQVNEDDTTIEKQ------------ 66 (115)
T ss_pred cCcceEECHHHHHHHHHHHhhCC-------CCceEEEEEEeCCCCCCcEEEEEECCCCCCCCEEEEcC------------
Confidence 357899999995 7999997642 35578999999999999999999998888899999998
Q ss_pred ecCceEEEEcccchhhcCCcEEEEeecCCCcceEEeCCCCCCCCCCCCCcCC
Q psy10002 94 HVSGVRIFIDRKAQLTLLGTEMDYVENKLSSEFVFNNPNIKGTCGCGESFSV 145 (145)
Q Consensus 94 ~~~gi~v~ID~~s~~~L~g~~IDy~e~~~g~gF~~~nP~~~~~CgCG~Sf~~ 145 (145)
|++|+||+.+++||+|++|||++++.+++|+|+|||++++||||+||++
T Consensus 67 ---gv~v~id~~s~~~l~g~~IDy~~~~~~~~F~f~NPn~~~~CgCg~SF~~ 115 (115)
T PRK13623 67 ---GVTLVVDPMSLQYLVGAEVDYTEGLEGSRFVIKNPNAKTTCGCGSSFSI 115 (115)
T ss_pred ---CEEEEEcHHHHHHhCCCEEEeecCCCcceEEEECCCCCcCCCCCcCccC
Confidence 9999999999999999999999999999999999999999999999985
No 5
>TIGR02011 IscA iron-sulfur cluster assembly protein IscA. This clade is limited to the proteobacteria.
Probab=100.00 E-value=1.6e-34 Score=207.73 Aligned_cols=104 Identities=38% Similarity=0.750 Sum_probs=96.9
Q ss_pred eeeCHHHH-HHHHHHhhccccceeccCCCceEEEEEecCCCCCceeeEEeccCCCCCCeEEEecchhhhhhhhceeecCc
Q psy10002 19 INLSDDRT-QIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFHVSG 97 (145)
Q Consensus 19 I~IT~~A~-~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~G~~y~l~l~~~~~~~D~vv~~~~~~~~~~~~~~~~~~g 97 (145)
|+|||+|+ +|+++++.+ .+..+|||+|+.+||+|++|.|.|++++.++|.+++.+ |
T Consensus 1 I~iT~~A~~~i~~~~~~~--------~~~~~lRi~v~~~GCsG~~y~l~l~~~~~~~D~v~~~~---------------g 57 (105)
T TIGR02011 1 ITLTDSAAARVNTFLANR--------GKGFGLRLGVKTSGCSGMAYVLEFVDEPTPDDIVFEDK---------------G 57 (105)
T ss_pred CEECHHHHHHHHHHHhcc--------CCCceEEEEEeCCCCCCEEEEeeecCCCCCCCEEEEcC---------------C
Confidence 68999995 799999764 34568999999999999999999988888999999998 9
Q ss_pred eEEEEcccchhhcCCcEEEEeecCCCcceEEeCCCCCCCCCCCCCcCC
Q psy10002 98 VRIFIDRKAQLTLLGTEMDYVENKLSSEFVFNNPNIKGTCGCGESFSV 145 (145)
Q Consensus 98 i~v~ID~~s~~~L~g~~IDy~e~~~g~gF~~~nP~~~~~CgCG~Sf~~ 145 (145)
++|+||+.++.||+|++|||++++.+++|+|+|||++++||||+||++
T Consensus 58 ~~v~id~~s~~~l~g~~IDy~~~~~~~~F~~~nPna~~~CgCg~Sf~~ 105 (105)
T TIGR02011 58 VKIVIDGKSLQYLDGTQLDFVKEGLNEGFKFTNPNVKDECGCGESFHV 105 (105)
T ss_pred EEEEEcHHHhHHhCCCEEEEecCCCcceEEEECCCCCccCCCCCCccC
Confidence 999999999999999999999999999999999999999999999975
No 6
>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=2e-34 Score=207.86 Aligned_cols=104 Identities=38% Similarity=0.787 Sum_probs=97.5
Q ss_pred ceeeCHHHH-HHHHHHhhccccceeccCCCceEEEEEecCCCCCceeeEEeccCCCCCCeEEEecchhhhhhhhceeecC
Q psy10002 18 GINLSDDRT-QIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFHVS 96 (145)
Q Consensus 18 ~I~IT~~A~-~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~G~~y~l~l~~~~~~~D~vv~~~~~~~~~~~~~~~~~~ 96 (145)
+|+|||+|+ +|+++++.+ .+..+|||+|+.+||+|++|.|.++++++++|.+++.+
T Consensus 2 ~i~iT~~A~~~i~~l~~~~--------~~~~~lRi~v~~~GC~G~~y~~~l~~~~~~~D~v~~~~--------------- 58 (107)
T TIGR01997 2 VITLTDAAAIHIRELVAKR--------PEAVGIRLGVKKTGCAGMEYVLDLVSEPKKDDDLIEHD--------------- 58 (107)
T ss_pred eEEECHHHHHHHHHHHhcC--------CCCcEEEEEEECCCCCCcEEEeeecCCCCCCCEEEecC---------------
Confidence 599999995 899999864 34568999999999999999999988888999999998
Q ss_pred ceEEEEcccchhhcCCcEEEEeecCCCcceEEeCCCCCCCCCCCCCcC
Q psy10002 97 GVRIFIDRKAQLTLLGTEMDYVENKLSSEFVFNNPNIKGTCGCGESFS 144 (145)
Q Consensus 97 gi~v~ID~~s~~~L~g~~IDy~e~~~g~gF~~~nP~~~~~CgCG~Sf~ 144 (145)
|++|+||+.++.||+|++|||++++.+++|+|+|||+++.||||+||+
T Consensus 59 g~~v~id~~s~~~l~g~~IDy~~~~~~~~F~~~NPn~~~~CgCG~Sf~ 106 (107)
T TIGR01997 59 GAKVFVAPEAVLFILGTQVDFVRTTLRQGFKFNNPNATSACGCGESFE 106 (107)
T ss_pred CEEEEEcHHHHhhhCCCEEEEEEcCCcceEEEECCCCCCccCCCCCcc
Confidence 999999999999999999999999999999999999999999999997
No 7
>PLN03082 Iron-sulfur cluster assembly; Provisional
Probab=100.00 E-value=3e-34 Score=221.77 Aligned_cols=108 Identities=27% Similarity=0.551 Sum_probs=99.1
Q ss_pred cceeeCHHHH-HHHHHHhhccccceeccCCCceEEEEEecCCCCCceeeEEeccCCCCCCeEEEecchhhhhhhhceeec
Q psy10002 17 TGINLSDDRT-QIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFHV 95 (145)
Q Consensus 17 ~~I~IT~~A~-~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~G~~y~l~l~~~~~~~D~vv~~~~~~~~~~~~~~~~~ 95 (145)
+.|+|||+|+ +|+++++.++. .+..+|||+|+++||+|++|.|.|+++++++|.+++.+
T Consensus 53 ~~I~lTd~A~~~ik~l~~~~~~------~~~~~LRl~V~~gGCSG~~Y~~~ld~~~~~~D~v~e~~-------------- 112 (163)
T PLN03082 53 DAVHMTDNCIRRLKELQTSEPS------AEDKMLRLSVETGGCSGFQYVFELDDKTNSDDRVFEKD-------------- 112 (163)
T ss_pred CceEECHHHHHHHHHHHHhCCC------CCCceEEEEEecCCCCCceeeeEEccCCCCCCEEEecC--------------
Confidence 4699999995 89999987521 24578999999999999999999998888899999998
Q ss_pred CceEEEEcccchhhcCCcEEEEeecCCCcceEE-eCCCCCCCCCCCCCcCC
Q psy10002 96 SGVRIFIDRKAQLTLLGTEMDYVENKLSSEFVF-NNPNIKGTCGCGESFSV 145 (145)
Q Consensus 96 ~gi~v~ID~~s~~~L~g~~IDy~e~~~g~gF~~-~nP~~~~~CgCG~Sf~~ 145 (145)
|++|+||+.++.||+|++|||++++.+++|+| +|||++++||||+||++
T Consensus 113 -Gv~vvVD~~s~~~L~Gs~IDYve~l~~~gF~f~~NPna~~~CgCG~SF~v 162 (163)
T PLN03082 113 -GVKLVVDNISYDFVKGATVDYVEELIRSAFVVSTNPSAVGGCSCKSSFMV 162 (163)
T ss_pred -CeEEEECHHHHHHhCCCEEEeecCCCCCeeEEecCCCCCCCcCCCCCEeC
Confidence 99999999999999999999999999999999 99999999999999975
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=99.98 E-value=4.4e-32 Score=193.67 Aligned_cols=104 Identities=47% Similarity=0.830 Sum_probs=96.2
Q ss_pred eeCHHHH-HHHHHHhhccccceeccCCCceEEEEEecCCCCCceeeEEeccCCCCCCeEEEecchhhhhhhhceeecCce
Q psy10002 20 NLSDDRT-QIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFHVSGV 98 (145)
Q Consensus 20 ~IT~~A~-~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~G~~y~l~l~~~~~~~D~vv~~~~~~~~~~~~~~~~~~gi 98 (145)
+||++|+ +|+++++.++ .++.+|||+++.+||+|++|.|.+++.++++|.+++.+ |+
T Consensus 1 ~iT~~A~~~l~~~~~~~~-------~~~~~lRi~~~~~Gc~G~~~~l~l~~~~~~~D~~~~~~---------------gi 58 (105)
T TIGR00049 1 TLTDSAAKRIKALLAGEG-------EPNLGLRVGVKGGGCSGLQYGLEFDDEPNEDDEVFEQD---------------GV 58 (105)
T ss_pred CcCHHHHHHHHHHHhcCC-------CCceEEEEEEecCCCCCeEEEEeecCCCCCCCEEEEcC---------------CE
Confidence 5899995 8999998753 23578999999999999999999998788899999998 99
Q ss_pred EEEEcccchhhcCCcEEEEeecCCCcceEEeCCCCCCCCCCCCCcCC
Q psy10002 99 RIFIDRKAQLTLLGTEMDYVENKLSSEFVFNNPNIKGTCGCGESFSV 145 (145)
Q Consensus 99 ~v~ID~~s~~~L~g~~IDy~e~~~g~gF~~~nP~~~~~CgCG~Sf~~ 145 (145)
+|+||+.+++||+|++|||+++..+++|+|.|||++++||||+||++
T Consensus 59 ~~~id~~~~~~l~~~~IDy~~~~~~~~f~i~nPn~~~~c~cg~sf~~ 105 (105)
T TIGR00049 59 KVVVDPKSLPYLDGSEIDYVEELLGSGFTFTNPNAKGTCGCGKSFSV 105 (105)
T ss_pred EEEEeHHHHhhhCCCEEEEeecCCcceEEEECCCCCccCCCCcCccC
Confidence 99999999999999999999999999999999999999999999985
No 9
>KOG1120|consensus
Probab=99.97 E-value=1.3e-31 Score=198.23 Aligned_cols=107 Identities=64% Similarity=1.028 Sum_probs=101.5
Q ss_pred ccceeeCHHH-HHHHHHHhhccccceeccCCCceEEEEEecCCCCCceeeEEeccCCCCCCeEEEecchhhhhhhhceee
Q psy10002 16 YTGINLSDDR-TQIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFH 94 (145)
Q Consensus 16 ~~~I~IT~~A-~~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~G~~y~l~l~~~~~~~D~vv~~~~~~~~~~~~~~~~ 94 (145)
..-|++||.| .+|+++++.+ .+...|||.|+++||+|++|.|.|.+.+.+.|++|+++
T Consensus 27 k~~ltLTp~Av~~ik~ll~~~--------~e~~~lrigVk~rGCnGlsYtleY~~~kgkfDE~Veqd------------- 85 (134)
T KOG1120|consen 27 KAALTLTPSAVNHIKQLLSDK--------PEDVCLRIGVKQRGCNGLSYTLEYTKTKGKFDEVVEQD------------- 85 (134)
T ss_pred ccccccCHHHHHHHHHHHHhC--------CcCceeEEEEecCCcCcceeeeeeeccCCCCcceeeec-------------
Confidence 4569999999 5899999975 57899999999999999999999999988999999999
Q ss_pred cCceEEEEcccchhhcCCcEEEEeecCCCcceEEeCCCCCCCCCCCCCcCC
Q psy10002 95 VSGVRIFIDRKAQLTLLGTEMDYVENKLSSEFVFNNPNIKGTCGCGESFSV 145 (145)
Q Consensus 95 ~~gi~v~ID~~s~~~L~g~~IDy~e~~~g~gF~~~nP~~~~~CgCG~Sf~~ 145 (145)
|++|+|||+++..|-|+++||+++.++++|+|.|||+++.||||+||.+
T Consensus 86 --Gv~I~ie~KA~l~liGteMDyvddkL~Sefvf~npna~gtcGcgeSf~~ 134 (134)
T KOG1120|consen 86 --GVRIFIEPKALLTLIGTEMDYVDDKLSSEFVFSNPNAKGTCGCGESFSV 134 (134)
T ss_pred --CcEEEEcccceeeeccceehhhhhhhcCceEeeCCCccccccccccccC
Confidence 9999999999999999999999999999999999999999999999974
No 10
>KOG1119|consensus
Probab=99.94 E-value=2.8e-27 Score=184.58 Aligned_cols=117 Identities=26% Similarity=0.521 Sum_probs=101.1
Q ss_pred CCCCcccccccc-ccceeeCHHH-HHHHHHHhhccccceeccCCCceEEEEEecCCCCCceeeEEeccCCCCCCeEEEec
Q psy10002 4 AFSTPTAFIYHL-YTGINLSDDR-TQIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQD 81 (145)
Q Consensus 4 ~~~~~~~~~~~~-~~~I~IT~~A-~~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~G~~y~l~l~~~~~~~D~vv~~~ 81 (145)
++++|.+..+-. --.+.|+|+| ++++++.... ...|||.|++|||+||+|.|.+|....++|.++..+
T Consensus 78 ~~ss~~~~~e~~~~~~~~lsds~~krl~EI~~~~----------pe~LRl~VegGGCsGFQYkf~LD~~in~dD~vf~e~ 147 (199)
T KOG1119|consen 78 AFSSSSRIPEKSPGFNLHLSDSCSKRLKEIYENS----------PEFLRLTVEGGGCSGFQYKFRLDNKINNDDRVFVEN 147 (199)
T ss_pred hhcCcccCCccCCCceEEehhHHHHHHHHHHhCC----------cceEEEEEecCCccceEEEEEecCCCCCcceEEeeC
Confidence 445555554331 1238999999 5888888642 278999999999999999999999888999999988
Q ss_pred chhhhhhhhceeecCceEEEEcccchhhcCCcEEEEeecCCCcceEE-eCCCCCCCCCCCCCcCC
Q psy10002 82 VKYWALILTCFFHVSGVRIFIDRKAQLTLLGTEMDYVENKLSSEFVF-NNPNIKGTCGCGESFSV 145 (145)
Q Consensus 82 ~~~~~~~~~~~~~~~gi~v~ID~~s~~~L~g~~IDy~e~~~g~gF~~-~nP~~~~~CgCG~Sf~~ 145 (145)
|.+|+||..|+.+++|++|||+++++++.|++ .||.++.+|+||.||++
T Consensus 148 ---------------~arVVvD~~SL~~~kGatvdy~~ELIrSsF~ivnNP~A~~gCsCgSSF~i 197 (199)
T KOG1119|consen 148 ---------------GARVVVDNVSLNLLKGATVDYTNELIRSSFRIVNNPSAKQGCSCGSSFDI 197 (199)
T ss_pred ---------------CcEEEEeccchhhccCceeehHHHHhhhhheeecCcccccCCCCCccccc
Confidence 99999999999999999999999999999976 99999999999999985
No 11
>PRK11190 Fe/S biogenesis protein NfuA; Provisional
Probab=99.93 E-value=1.1e-25 Score=177.85 Aligned_cols=95 Identities=25% Similarity=0.372 Sum_probs=87.3
Q ss_pred ceeeCHHHH-HHHHHHhhccccceeccCCCceEEEEEecCCCCCceeeEEe--ccCCCCCCeEEEecchhhhhhhhceee
Q psy10002 18 GINLSDDRT-QIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNGLSYTLNY--AKDKEKMDEEVIQDVKYWALILTCFFH 94 (145)
Q Consensus 18 ~I~IT~~A~-~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~G~~y~l~l--~~~~~~~D~vv~~~~~~~~~~~~~~~~ 94 (145)
||+|||+|+ +|+++++.+ .+..+|||+|+++||+|++|+|.| ++++.++|.+++.+
T Consensus 1 ~i~iTd~A~~~i~~ll~~~--------~~~~~LRI~V~~gGCsG~~Y~~~~~~~~~~~~~D~v~e~~------------- 59 (192)
T PRK11190 1 MITISDAAQAHFAKLLANQ--------EEGTQIRVFVINPGTPNAECGVSYCPPDAVEATDTELKFD------------- 59 (192)
T ss_pred CcEECHHHHHHHHHHHhcC--------CCCceEEEEEECCCcCCceeeeEEeecCCCCCCCEEEEeC-------------
Confidence 589999995 899999864 335689999999999999999999 67777899999999
Q ss_pred cCceEEEEcccchhhcCCcEEEEeecCCCcceEEeCCCCCC
Q psy10002 95 VSGVRIFIDRKAQLTLLGTEMDYVENKLSSEFVFNNPNIKG 135 (145)
Q Consensus 95 ~~gi~v~ID~~s~~~L~g~~IDy~e~~~g~gF~~~nP~~~~ 135 (145)
|++|+||+.++.||+|++|||++++.+++|+|+|||+++
T Consensus 60 --gv~v~Vd~~S~~~L~G~~IDyve~~~g~gF~f~NPNa~~ 98 (192)
T PRK11190 60 --GFSAYVDELSAPFLEDAEIDFVTDQLGSQLTLKAPNAKM 98 (192)
T ss_pred --CEEEEECcchHhHhCCCEEEEeecCCCCceEEECCCCCC
Confidence 999999999999999999999999999999999999985
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=3e-25 Score=156.92 Aligned_cols=90 Identities=19% Similarity=0.313 Sum_probs=81.4
Q ss_pred cceeeCHHHH-HHHHHHhhccccceeccCCCceEEEEEecCCCCCceeeEEeccCCCCCCeEEEecchhhhhhhhceeec
Q psy10002 17 TGINLSDDRT-QIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFHV 95 (145)
Q Consensus 17 ~~I~IT~~A~-~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~G~~y~l~l~~~~~~~D~vv~~~~~~~~~~~~~~~~~ 95 (145)
.+|+|||+|+ +|+++++.++ .+..+|||+|+++||+|++|.|.+++ ++++|.+++.+
T Consensus 2 ~~i~lT~~A~~~i~~ll~~~~-------~~~~~LRi~v~~gGCsG~~Y~~~ld~-~~~~D~v~~~~-------------- 59 (92)
T TIGR01911 2 KIVAMSDDAYEEFKDFLKEND-------IDNDVIRIHFAGMGCMGPMFNLIADE-EKEGDEIEKIH-------------- 59 (92)
T ss_pred CceEECHHHHHHHHHHHHhCC-------CCCceEEEEEeCCCccCcccceEecC-CCCCCEEEEeC--------------
Confidence 4799999995 8999998753 33467999999999999999999987 47899999999
Q ss_pred CceEEEEcccchhhcCCcEEEEeecCCCcceEEe
Q psy10002 96 SGVRIFIDRKAQLTLLGTEMDYVENKLSSEFVFN 129 (145)
Q Consensus 96 ~gi~v~ID~~s~~~L~g~~IDy~e~~~g~gF~~~ 129 (145)
|++|+||+.++.||.|++|||++++.+++|+|+
T Consensus 60 -gv~v~vD~~s~~~l~G~~iDy~~~~~g~gF~~~ 92 (92)
T TIGR01911 60 -DLTFLIDKNLIDQFGGFSIECAEENFGAGFSLD 92 (92)
T ss_pred -CEEEEECHHHHHHhCCCEEEEecCCCCCcEEeC
Confidence 999999999999999999999999999999984
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=2.5e-24 Score=169.94 Aligned_cols=94 Identities=19% Similarity=0.344 Sum_probs=85.7
Q ss_pred eeeCHHHH-HHHHHHhhccccceeccCCCceEEEEEecCCCCCceeeEEe--ccCCCCCCeEEEecchhhhhhhhceeec
Q psy10002 19 INLSDDRT-QIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNGLSYTLNY--AKDKEKMDEEVIQDVKYWALILTCFFHV 95 (145)
Q Consensus 19 I~IT~~A~-~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~G~~y~l~l--~~~~~~~D~vv~~~~~~~~~~~~~~~~~ 95 (145)
|+|||+|+ +|+++++.+ .+..+|||+|+++||+|++|+|.| .+++.++|.+++.+
T Consensus 1 I~IT~~A~~~l~~ll~~~--------~~~~~LRv~V~~gGCsG~~Y~l~~~~~~~~~~~D~v~e~~-------------- 58 (190)
T TIGR03341 1 ITITEAAQAYLAKLLAKQ--------NEGTGIRVFVVNPGTPYAECCVSYCPPDEVEPSDIKLEFN-------------- 58 (190)
T ss_pred CEECHHHHHHHHHHHhhC--------CCCceEEEEEECCccCCceeeeEEcccCCCCCCCEEEEeC--------------
Confidence 68999995 799999864 345689999999999999999999 56667899999999
Q ss_pred CceEEEEcccchhhcCCcEEEEeecCCCcceEEeCCCCCC
Q psy10002 96 SGVRIFIDRKAQLTLLGTEMDYVENKLSSEFVFNNPNIKG 135 (145)
Q Consensus 96 ~gi~v~ID~~s~~~L~g~~IDy~e~~~g~gF~~~nP~~~~ 135 (145)
|++|+||+.++.||+|++|||++++.+++|+|+|||++.
T Consensus 59 -g~~v~Vd~~s~~~L~g~~IDyve~~~g~gF~f~NPna~~ 97 (190)
T TIGR03341 59 -GFSAYVDALSAPFLEDAVIDFVTDRMGGQLTLKAPNAKM 97 (190)
T ss_pred -CEEEEEccchhhHhCCCEEEEeecCCCceeEEeCCccCC
Confidence 999999999999999999999999999999999999874
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=99.88 E-value=2.2e-22 Score=144.70 Aligned_cols=100 Identities=32% Similarity=0.632 Sum_probs=90.2
Q ss_pred cceeeCHHHH-HHHHHHhhccccceeccCCCceEEEEEecCC--------CC-CceeeEEeccCC-CCCCeEEEecchhh
Q psy10002 17 TGINLSDDRT-QIHGLLKINKIHCIIFISSQAGLKVGVQQRG--------CN-GLSYTLNYAKDK-EKMDEEVIQDVKYW 85 (145)
Q Consensus 17 ~~I~IT~~A~-~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gG--------C~-G~~y~l~l~~~~-~~~D~vv~~~~~~~ 85 (145)
|.|+|||+|+ +|+++++.++ .. |||++..+| |+ |++|.|.+++++ .+.|.+++.+
T Consensus 1 M~I~iT~~A~~~l~~~~~~~~---------~~-irl~~~~gg~p~~~~~~C~~g~~y~l~~~~~~~~~~D~~~~~~---- 66 (112)
T PF01521_consen 1 MKITITDAAAERLKQLLKEDP---------KK-IRLFVDDGGSPYSREGCCSIGFSYSLALVDKPDEEYDIVIESN---- 66 (112)
T ss_dssp -EEEE-HHHHHHHHHHHHCTT---------ES-EEEEEEEESSCCGGSS-TTSEEEEEEEEESSTSTTSCEEEEET----
T ss_pred CEEEECHHHHHHHHHHHhcCC---------CE-EEEEEECCCcccccCCCCCCCcEEeEEEeecccccceEEEeee----
Confidence 6899999995 8999998742 22 999999998 99 999999999877 7899999999
Q ss_pred hhhhhceeecCceEEEEcccchhhc-CCcEEEEeecCCCcceEEeCCCCCCCCCCCC
Q psy10002 86 ALILTCFFHVSGVRIFIDRKAQLTL-LGTEMDYVENKLSSEFVFNNPNIKGTCGCGE 141 (145)
Q Consensus 86 ~~~~~~~~~~~gi~v~ID~~s~~~L-~g~~IDy~e~~~g~gF~~~nP~~~~~CgCG~ 141 (145)
|++|+|++.+++|| +|++|||.++..+.+|++.||+..+.|+||.
T Consensus 67 -----------~~~i~i~~~~~~~l~~~~~iD~~~~~~~~~f~~~~~~~~~~~~~~~ 112 (112)
T PF01521_consen 67 -----------GFTIYIDKYSLWYLDEGLTIDYVEDLGGFGFKSDNPNLDSNCGCGD 112 (112)
T ss_dssp -----------TEEEEEEGGGHHHH-TTEEEEEEEETTEEEEEEETTTEEEEECECE
T ss_pred -----------EEEEEEeccHhhhhhCCCEEEEEEccCccEEEECCCCcCceeccCC
Confidence 99999999999999 9999999999999999999999999999984
No 15
>COG4841 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=99.42 E-value=4.8e-13 Score=93.96 Aligned_cols=87 Identities=18% Similarity=0.313 Sum_probs=69.4
Q ss_pred cceeeCHHHH-HHHHHHhhccccceeccCCCceEEEEEecCCCC----CceeeEEeccCCCCCCeEEEecchhhhhhhhc
Q psy10002 17 TGINLSDDRT-QIHGLLKINKIHCIIFISSQAGLKVGVQQRGCN----GLSYTLNYAKDKEKMDEEVIQDVKYWALILTC 91 (145)
Q Consensus 17 ~~I~IT~~A~-~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~----G~~y~l~l~~~~~~~D~vv~~~~~~~~~~~~~ 91 (145)
|+|+||+.|. -+++.+.. +++..||++|+.|||+ ||+.+++.+ .|++--...+.+
T Consensus 1 Mni~vtd~A~~wfk~E~~l---------~~g~~vrffvRyGG~~~~~~GFS~gv~~e-~PkE~g~~q~~D---------- 60 (95)
T COG4841 1 MNIEVTDQALKWFKEELDL---------EEGNKVRFFVRYGGCSSLQQGFSLGVAKE-VPKEIGYKQEYD---------- 60 (95)
T ss_pred CceEEcHHHHHHHHHhcCC---------CCCCEEEEEEEEcCcccccCCcceeeecc-Cchhhchheeec----------
Confidence 6899999996 49999876 5788999999999998 444544443 244444445667
Q ss_pred eeecCceEEEEcccchhhcCC--cEEEEeecCCCcceEE
Q psy10002 92 FFHVSGVRIFIDRKAQLTLLG--TEMDYVENKLSSEFVF 128 (145)
Q Consensus 92 ~~~~~gi~v~ID~~s~~~L~g--~~IDy~e~~~g~gF~~ 128 (145)
|++++|+.+.+||+++ .+|||+++.....|+.
T Consensus 61 -----gltffiee~DlWYF~d~d~~v~y~~~~Dei~fs~ 94 (95)
T COG4841 61 -----GLTFFIEEKDLWYFDDHDLKVDYSPDTDEISFSY 94 (95)
T ss_pred -----CeEEEEecCceEEEcCCcEEEeccCCCCcceeec
Confidence 9999999999999999 9999998877776754
No 16
>COG4918 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=98.11 E-value=7.2e-06 Score=59.34 Aligned_cols=81 Identities=16% Similarity=0.249 Sum_probs=63.2
Q ss_pred cceeeCHHHH-HHHHHHhhccccceeccCCCceEEEEEecCCCCC---ceeeEEeccCCCCCCeEEEecchhhhhhhhce
Q psy10002 17 TGINLSDDRT-QIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNG---LSYTLNYAKDKEKMDEEVIQDVKYWALILTCF 92 (145)
Q Consensus 17 ~~I~IT~~A~-~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~G---~~y~l~l~~~~~~~D~vv~~~~~~~~~~~~~~ 92 (145)
|.|++||+|+ +|+...+.+- ....+||+..++.||.| +.|.+. .+....|..++.+
T Consensus 1 M~Itftd~a~~~l~~a~d~nl-------~~~~hl~ydtEgc~Ca~SGi~t~rlv--ae~tg~d~~idsn----------- 60 (114)
T COG4918 1 MKITFTDKAADKLKAAGDVNL-------VFDDHLLYDTEGCACAGSGISTYRLV--AEETGFDASIDSN----------- 60 (114)
T ss_pred CeEEecHHHHHHHHHhhccCc-------CccceEEEeccccccccCCcceEEEE--EeccCcccccccC-----------
Confidence 6799999996 7999988764 24588999999999975 444444 4445678888888
Q ss_pred eecCceEEEEcccchhhcCC-cEEEEeecC
Q psy10002 93 FHVSGVRIFIDRKAQLTLLG-TEMDYVENK 121 (145)
Q Consensus 93 ~~~~gi~v~ID~~s~~~L~g-~~IDy~e~~ 121 (145)
+.+|+|-.-...||++ ++|||.+..
T Consensus 61 ----~gPiyik~~~~~Ff~D~mtidyN~~~ 86 (114)
T COG4918 61 ----FGPIYIKDYGSYFFQDEMTIDYNPSY 86 (114)
T ss_pred ----CCcEEEEecceeEecceeeeecCCcc
Confidence 9999998877777775 999998763
No 17
>COG3564 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=90.39 E-value=3.1 Score=30.22 Aligned_cols=87 Identities=20% Similarity=0.226 Sum_probs=52.8
Q ss_pred ceeeCHHHHH-HHHHHhhccccceeccCCCceEEEEEecCCCC-CceeeEEeccCC---CCCCeEE-Eecchhhhhhhhc
Q psy10002 18 GINLSDDRTQ-IHGLLKINKIHCIIFISSQAGLKVGVQQRGCN-GLSYTLNYAKDK---EKMDEEV-IQDVKYWALILTC 91 (145)
Q Consensus 18 ~I~IT~~A~~-l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~-G~~y~l~l~~~~---~~~D~vv-~~~~~~~~~~~~~ 91 (145)
.++.|++|.. |.++.+. -..+-+ -++|||. | +--|-+-... .+.|+.. +.+
T Consensus 6 ~V~aT~aAl~Li~~l~~~-----------hgpvmF-HQSGGCCDG-SsPMCYP~~~fivGd~DvlLG~i~---------- 62 (116)
T COG3564 6 RVLATPAALDLIAELQAE-----------HGPVMF-HQSGGCCDG-SSPMCYPRADFIVGDNDVLLGEID---------- 62 (116)
T ss_pred ceecCHHHHHHHHHHHHh-----------cCCEEE-eccCCccCC-CCCccccccceeecCCceEEeeeC----------
Confidence 4788999965 5555543 233444 4566665 4 3333332110 1234332 345
Q ss_pred eeecCceEEEEcccchhhcC--CcEEEEeecCCCcceEEeCCCC
Q psy10002 92 FFHVSGVRIFIDRKAQLTLL--GTEMDYVENKLSSEFVFNNPNI 133 (145)
Q Consensus 92 ~~~~~gi~v~ID~~s~~~L~--g~~IDy~e~~~g~gF~~~nP~~ 133 (145)
|++|+|.....++-+ ..+||-+.. -|+.|.++|-..
T Consensus 63 -----gvPvyIs~~QyeaWKHTqLIIDVVpG-RGGmFSLdng~E 100 (116)
T COG3564 63 -----GVPVYISGPQYEAWKHTQLIIDVVPG-RGGMFSLDNGRE 100 (116)
T ss_pred -----CEEEEecCcHHhhhhccEEEEEEecC-CCceeEccCCcc
Confidence 999999999887766 588998854 567899987543
No 18
>PF05610 DUF779: Protein of unknown function (DUF779); InterPro: IPR008497 This family consists of several bacterial proteins of unknown function.
Probab=88.55 E-value=3.2 Score=29.73 Aligned_cols=36 Identities=17% Similarity=0.248 Sum_probs=31.3
Q ss_pred ceEEEEcccchhhcCC--cEEEEeecCCCcceEEeCCCC
Q psy10002 97 GVRIFIDRKAQLTLLG--TEMDYVENKLSSEFVFNNPNI 133 (145)
Q Consensus 97 gi~v~ID~~s~~~L~g--~~IDy~e~~~g~gF~~~nP~~ 133 (145)
|++|+|.+...+|.+. .+||-++ ..|++|.+.+|..
T Consensus 49 g~~fym~~~qfeywkht~L~iDVv~-GrG~~FSLE~~~G 86 (95)
T PF05610_consen 49 GVPFYMSKDQFEYWKHTQLTIDVVP-GRGGGFSLEAPEG 86 (95)
T ss_pred CeEEEEchHHHHHhhCcEEEEEEEe-cCCCeeeccCCCC
Confidence 9999999999999996 7899876 4678999999864
No 19
>PHA02545 45 sliding clamp; Provisional
Probab=53.66 E-value=1.2e+02 Score=24.80 Aligned_cols=95 Identities=13% Similarity=0.249 Sum_probs=58.2
Q ss_pred ceeeCHHH-HHHHHHHhhccccceeccCCCceEEEEE---ecCCCCCceeeEEeccCCCCCCeEEEecchhhhhhhhcee
Q psy10002 18 GINLSDDR-TQIHGLLKINKIHCIIFISSQAGLKVGV---QQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFF 93 (145)
Q Consensus 18 ~I~IT~~A-~~l~~~l~~~~~~~~~~~~~~~~LRi~v---~~gGC~G~~y~l~l~~~~~~~D~vv~~~~~~~~~~~~~~~ 93 (145)
.+.||..- +||.+.-+.-+++-+-..+.+..|++.+ ...+-+.-+|.+.+.+-..+.+-.+..+.++.+++
T Consensus 115 ~f~L~aedl~ql~kas~~l~l~dl~~~~~~G~ivi~~~~~~~~~~~sn~ys~~vge~~g~~~F~f~~~~~Nmk~~----- 189 (223)
T PHA02545 115 EFELKAEDLQQLLKASRVLGLDDLAITNIDGKIVINLFNEDDKNDTSNSYSLEVGEYDGDNEFNFIIKIENMKLV----- 189 (223)
T ss_pred EEEEcHHHHHHHHHHHHhcCCCeEEEEeeCCEEEEEEEeccCCCCCCCcEEEEeecccCCcceEEEEEeceeEec-----
Confidence 46778777 5777776666665555556777777775 34455667888888654332233344443332222
Q ss_pred ecCceEEEEcccchhhcCCcEEEEe
Q psy10002 94 HVSGVRIFIDRKAQLTLLGTEMDYV 118 (145)
Q Consensus 94 ~~~gi~v~ID~~s~~~L~g~~IDy~ 118 (145)
.+.-+|-+-++-+..++|..+-|+
T Consensus 190 -~gdY~v~is~~g~a~F~~~~~~Y~ 213 (223)
T PHA02545 190 -PGDYKVSISKKGAAKFEGENLSYV 213 (223)
T ss_pred -CCCeEEEEEccccceeecCCeeEE
Confidence 245677777777777777777775
No 20
>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=51.40 E-value=11 Score=27.71 Aligned_cols=20 Identities=20% Similarity=0.317 Sum_probs=15.3
Q ss_pred cccchhhcCCcEEEEeecCC
Q psy10002 103 DRKAQLTLLGTEMDYVENKL 122 (145)
Q Consensus 103 D~~s~~~L~g~~IDy~e~~~ 122 (145)
||..+..|+|-||||.+...
T Consensus 45 ~P~e~~qldGyTvDy~~~~~ 64 (117)
T cd01234 45 EPTEFIQLDGYTVDYMPESD 64 (117)
T ss_pred CchhheeecceEEeccCCCC
Confidence 45557789999999997654
No 21
>KOG3348|consensus
Probab=47.04 E-value=57 Score=22.89 Aligned_cols=39 Identities=13% Similarity=0.227 Sum_probs=27.1
Q ss_pred CHHHHHHHHHHhhccccceeccCCCceEEEEEecCCCCCceeeEEecc
Q psy10002 22 SDDRTQIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNGLSYTLNYAK 69 (145)
Q Consensus 22 T~~A~~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~G~~y~l~l~~ 69 (145)
+..+++|+++|.+. -+...++|.=.++||++ .|.+....
T Consensus 2 ~~~e~~l~~~L~~~--------l~p~~v~V~D~SgGCG~-~F~v~IvS 40 (85)
T KOG3348|consen 2 TVTEERLEELLTEA--------LEPEHVEVQDVSGGCGS-MFDVVIVS 40 (85)
T ss_pred cchHHHHHHHHHhh--------cCceEEEEEEcCCCccc-eEEEEEEc
Confidence 34456788888763 25677888778999865 67776654
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=34.79 E-value=1.5e+02 Score=20.27 Aligned_cols=36 Identities=6% Similarity=-0.010 Sum_probs=18.1
Q ss_pred CCceEEEEEecCCCCCceeeE--------EeccCCCCCCeEEEec
Q psy10002 45 SQAGLKVGVQQRGCNGLSYTL--------NYAKDKEKMDEEVIQD 81 (145)
Q Consensus 45 ~~~~LRi~v~~gGC~G~~y~l--------~l~~~~~~~D~vv~~~ 81 (145)
.+.++-+.++..+ +.+...| .+.....++|.+....
T Consensus 15 ~sGH~yFtlkD~~-~~i~cv~f~~~g~~~~~~~~l~~Gd~V~v~G 58 (91)
T cd04482 15 EGGHVFFKISDGT-GEIDCAAYEPTKEFRDVVRLLIPGDEVTVYG 58 (91)
T ss_pred CCCCEEEEEECCC-cEEEEEEECcccccccccCCCCCCCEEEEEE
Confidence 4556777776654 2222111 1222345778777666
No 23
>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=32.28 E-value=2.1e+02 Score=21.29 Aligned_cols=24 Identities=17% Similarity=0.430 Sum_probs=16.7
Q ss_pred cCCcEEEEeecCC--CcceEE-eCCCC
Q psy10002 110 LLGTEMDYVENKL--SSEFVF-NNPNI 133 (145)
Q Consensus 110 L~g~~IDy~e~~~--g~gF~~-~nP~~ 133 (145)
-...+|||..... ...|+| +||..
T Consensus 83 ~~e~tiDfl~g~e~~~G~~IF~~dP~~ 109 (122)
T TIGR02588 83 NAEVTIDYLASGSKENGTLIFRSDPRN 109 (122)
T ss_pred EeeEEEEEcCCCCeEeEEEEEccCccc
Confidence 3458999997654 568999 55543
No 24
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=31.19 E-value=27 Score=26.73 Aligned_cols=19 Identities=32% Similarity=0.817 Sum_probs=13.0
Q ss_pred eEEeCCCCC-CCCCCCCCcC
Q psy10002 126 FVFNNPNIK-GTCGCGESFS 144 (145)
Q Consensus 126 F~~~nP~~~-~~CgCG~Sf~ 144 (145)
|+...|..+ -.|.||.||.
T Consensus 61 fi~qs~~~rv~rcecghsf~ 80 (165)
T COG4647 61 FICQSAQKRVIRCECGHSFG 80 (165)
T ss_pred EEEecccccEEEEecccccc
Confidence 555555443 4799999996
No 25
>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=31.06 E-value=23 Score=21.19 Aligned_cols=7 Identities=43% Similarity=1.445 Sum_probs=5.2
Q ss_pred CCCCCCC
Q psy10002 134 KGTCGCG 140 (145)
Q Consensus 134 ~~~CgCG 140 (145)
..+|||=
T Consensus 18 ~tsCgCt 24 (45)
T PF07610_consen 18 QTSCGCT 24 (45)
T ss_pred eEccCCE
Confidence 4689994
No 26
>KOG4777|consensus
Probab=27.91 E-value=59 Score=27.88 Aligned_cols=39 Identities=18% Similarity=0.245 Sum_probs=34.8
Q ss_pred cCceEEEEcccchhhcCCcEEEEeecCCCcceEEeCCCC
Q psy10002 95 VSGVRIFIDRKAQLTLLGTEMDYVENKLSSEFVFNNPNI 133 (145)
Q Consensus 95 ~~gi~v~ID~~s~~~L~g~~IDy~e~~~g~gF~~~nP~~ 133 (145)
..|++++|..---+-|++..+-..+..++.||.|.|||-
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 368999998888899999999999999999999999984
No 27
>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=27.83 E-value=37 Score=23.82 Aligned_cols=13 Identities=23% Similarity=0.575 Sum_probs=11.0
Q ss_pred EEEEEecCCCCCc
Q psy10002 49 LKVGVQQRGCNGL 61 (145)
Q Consensus 49 LRi~v~~gGC~G~ 61 (145)
|++.|..-||.|+
T Consensus 32 l~v~v~~tGC~G~ 44 (92)
T cd03063 32 LAATIVRNGSRGM 44 (92)
T ss_pred CeEEEEEecCcee
Confidence 3888899999986
No 28
>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=24.43 E-value=20 Score=17.83 Aligned_cols=8 Identities=75% Similarity=1.688 Sum_probs=5.9
Q ss_pred CC-CCCCcC
Q psy10002 137 CG-CGESFS 144 (145)
Q Consensus 137 Cg-CG~Sf~ 144 (145)
|. ||++|.
T Consensus 3 C~~C~~~f~ 11 (23)
T PF00096_consen 3 CPICGKSFS 11 (23)
T ss_dssp ETTTTEEES
T ss_pred CCCCCCccC
Confidence 55 888885
No 29
>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=22.10 E-value=1.4e+02 Score=24.05 Aligned_cols=49 Identities=14% Similarity=0.259 Sum_probs=26.0
Q ss_pred ceeeCHHHHHHHHHHhhccccceeccCCCceEEEEEecCCCCCceeeEEe
Q psy10002 18 GINLSDDRTQIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNGLSYTLNY 67 (145)
Q Consensus 18 ~I~IT~~A~~l~~~l~~~~~~~~~~~~~~~~LRi~v~~gGC~G~~y~l~l 67 (145)
.++....-+++..++...+-+.--. ..-+.||..|...|-.|+.|.+..
T Consensus 138 tls~eQs~~kl~~lL~~gk~~~yy~-q~~GAiRYVvad~gekglTFAVEP 186 (200)
T PF07305_consen 138 TLSPEQSQEKLQKLLTKGKGSRYYS-QTEGAIRYVVADNGEKGLTFAVEP 186 (200)
T ss_pred cCCHHHHHHHHHHHHHcCCCCccee-eccCceEEEEecCCCceeEEEeee
Confidence 3443333356888886543111111 124567777777777776665543
No 30
>PF09360 zf-CDGSH: Iron-binding zinc finger CDGSH type; InterPro: IPR018967 This entry represents iron-sulphur domain containing proteins that have a CDGSH sequence motif (although the Ser residue can also be an Ala or Thr), and is found in proteins from a wide range of organisms with the exception of fungi. The CDGSH-type domain binds a redox-active pH-labile 2Fe-2S cluster. The conserved sequence C-X-C-X2-(S/T)-X3-P-X-C-D-G-(S/A/T)-H is a defining feature of this family []. CDGSH-type domains are found in mitoNEET, an iron-containing integral protein of the outer mitochondrian membrane (OMM). MitoNEET forms a dimeric structure with a NEET fold, and contains two domains: a beta-cap region and a cluster-binding domain that coordinated two acid-labile 2Fe-2S clusters (one bound to each protomer) []. The CDGSH iron-sulphur domain is oriented towards the cytoplasm and is tethered to the mitochondrial membrane by a more N-terminal domain found in higher vertebrates, (IPR019610 from INTERPRO) [, ]. The whole protein regulates oxidative capacity and may function in electron transfer, for instance in redox reactions with metabolic intermediates, cofactors and/or proteins localized at the OMM. ; GO: 0051537 2 iron, 2 sulfur cluster binding, 0043231 intracellular membrane-bounded organelle; PDB: 3TBO_A 3FNV_B 3TBM_B 3TBN_A 3S2R_A 3S2Q_A 3LPQ_A 2QH7_A 3EW0_A 2R13_A ....
Probab=21.42 E-value=37 Score=19.96 Aligned_cols=9 Identities=44% Similarity=1.032 Sum_probs=4.3
Q ss_pred CCCCCCCCc
Q psy10002 135 GTCGCGESF 143 (145)
Q Consensus 135 ~~CgCG~Sf 143 (145)
.-|.||.|=
T Consensus 20 ~lC~Cg~S~ 28 (38)
T PF09360_consen 20 ALCRCGKSK 28 (38)
T ss_dssp EE-SSS--T
T ss_pred EEecCCCCC
Confidence 469999874
No 31
>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=21.32 E-value=54 Score=17.76 Aligned_cols=13 Identities=31% Similarity=0.728 Sum_probs=9.4
Q ss_pred CCCCCCC-CCCCcC
Q psy10002 132 NIKGTCG-CGESFS 144 (145)
Q Consensus 132 ~~~~~Cg-CG~Sf~ 144 (145)
.....|. ||.+|.
T Consensus 12 ~~~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 12 ESAKFCPHCGYDFE 25 (26)
T ss_pred hhcCcCCCCCCCCc
Confidence 3445788 999985
No 32
>COG3369 Zinc finger domain containing protein (CDGSH-type) [Function unknown]
Probab=20.96 E-value=36 Score=23.51 Aligned_cols=10 Identities=40% Similarity=0.913 Sum_probs=7.6
Q ss_pred CCCCCCCCcC
Q psy10002 135 GTCGCGESFS 144 (145)
Q Consensus 135 ~~CgCG~Sf~ 144 (145)
.-|+||.|-+
T Consensus 32 ~LCrCG~S~N 41 (78)
T COG3369 32 ALCRCGHSEN 41 (78)
T ss_pred EEEeccCcCC
Confidence 4699999854
Done!