Query 041241
Match_columns 145
No_of_seqs 132 out of 1205
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 05:09:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041241.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041241hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14291 DUF4371: Domain of un 100.0 7.9E-44 1.7E-48 272.9 9.5 140 5-145 90-229 (235)
2 PF04937 DUF659: Protein of un 98.0 1.9E-05 4.2E-10 57.0 6.7 72 67-145 32-105 (153)
3 KOG1121 Tam3-transposase (Ac f 96.8 0.018 3.9E-07 49.9 10.8 74 67-141 165-239 (641)
4 PF00600 Flu_NS1: Influenza no 61.3 24 0.00053 26.1 4.9 39 86-124 144-182 (217)
5 COG1069 AraB Ribulose kinase [ 52.9 14 0.00031 31.9 3.0 31 114-144 54-84 (544)
6 KOG0910 Thioredoxin-like prote 51.7 64 0.0014 23.2 5.7 62 56-124 82-148 (150)
7 COG0400 Predicted esterase [Ge 41.5 20 0.00044 27.0 2.0 36 110-145 77-112 (207)
8 PHA03056 putative myristoylate 39.3 57 0.0012 23.0 3.8 88 53-144 19-120 (165)
9 cd02988 Phd_like_VIAF Phosduci 38.8 1.2E+02 0.0027 22.3 5.8 61 57-119 124-187 (192)
10 PF01890 CbiG_C: Cobalamin syn 38.2 73 0.0016 21.7 4.2 31 109-139 10-40 (121)
11 TIGR03725 bact_YeaZ universal 35.9 1.1E+02 0.0025 22.5 5.3 33 107-139 28-60 (202)
12 PRK07027 cobalamin biosynthesi 32.6 55 0.0012 22.5 2.9 31 109-139 12-42 (126)
13 PF08154 NLE: NLE (NUC135) dom 31.7 1.1E+02 0.0023 18.4 3.8 37 87-124 2-39 (65)
14 cd01648 TERT TERT: Telomerase 31.4 1.4E+02 0.003 20.0 4.7 38 86-131 53-91 (119)
15 PF02196 RBD: Raf-like Ras-bin 30.8 58 0.0013 20.0 2.5 27 111-137 18-44 (71)
16 cd02980 TRX_Fd_family Thioredo 30.6 37 0.00081 20.5 1.6 34 111-144 14-53 (77)
17 cd03063 TRX_Fd_FDH_beta TRX-li 27.7 66 0.0014 21.1 2.5 32 110-141 13-48 (92)
18 PF06577 DUF1134: Protein of u 26.2 95 0.0021 22.6 3.2 33 110-142 17-49 (160)
19 cd03487 RT_Bac_retron_II RT_Ba 25.8 1.3E+02 0.0027 22.3 4.0 21 112-132 155-175 (214)
20 KOG0209 P-type ATPase [Inorgan 25.6 47 0.001 30.7 1.9 41 53-93 791-833 (1160)
21 cd01817 RGS12_RBD Ubiquitin do 24.4 72 0.0016 20.1 2.1 28 111-138 17-44 (73)
22 PF02801 Ketoacyl-synt_C: Beta 23.7 1.5E+02 0.0032 19.7 3.8 34 110-143 21-54 (119)
23 PF00872 Transposase_mut: Tran 23.3 44 0.00095 27.4 1.2 100 40-144 133-238 (381)
24 PF07872 DUF1659: Protein of u 22.5 1.6E+02 0.0035 16.6 4.2 34 86-119 7-44 (47)
25 TIGR00329 gcp_kae1 metallohydr 22.5 1.7E+02 0.0038 23.1 4.5 41 100-140 34-76 (305)
26 TIGR03723 bact_gcp putative gl 21.8 2E+02 0.0044 22.9 4.7 31 110-140 47-77 (314)
27 cd03082 TRX_Fd_NuoE_W_FDH_beta 21.6 28 0.00061 21.5 -0.2 34 111-144 15-50 (72)
28 PF02114 Phosducin: Phosducin; 21.3 4.1E+02 0.0088 20.8 7.8 73 56-132 167-242 (265)
29 PTZ00285 glucosamine-6-phospha 21.1 3.8E+02 0.0083 20.4 7.2 89 44-138 8-108 (253)
30 COG5400 Uncharacterized protei 20.8 1.1E+02 0.0024 22.7 2.7 30 110-139 62-91 (205)
31 cd01646 RT_Bac_retron_I RT_Bac 20.8 1.1E+02 0.0023 21.4 2.7 39 86-132 83-121 (158)
32 KOG0208 Cation transport ATPas 20.6 92 0.002 29.3 2.7 21 119-143 843-863 (1140)
33 COG0215 CysS Cysteinyl-tRNA sy 20.5 1.2E+02 0.0025 26.0 3.2 34 6-43 271-304 (464)
34 PF08811 DUF1800: Protein of u 20.4 1.8E+02 0.0039 24.6 4.4 45 6-52 139-189 (462)
No 1
>PF14291 DUF4371: Domain of unknown function (DUF4371)
Probab=100.00 E-value=7.9e-44 Score=272.86 Aligned_cols=140 Identities=33% Similarity=0.506 Sum_probs=134.7
Q ss_pred ccCCChHHHHHHhHhhcCHHHHHHHhhcCCCcccccCcchHHHHHHHHHHHHHHHHHhhhccceeEEEecccccccccce
Q 041241 5 IQANERIFLSFYFLVDHNEDINAVTFDNAPENLQMTSNEIKKDIVSCAAVETTNIIIKEMGDILFSILIDESCDIFTKEQ 84 (145)
Q Consensus 5 ~~~~gnf~~ll~l~~~~~~~l~~~~l~~~~~~~~y~S~~~~~~ii~~ia~~i~~~i~~~l~~~~fSi~~DettDis~~~q 84 (145)
-.|+|||++|+++++++||.+++|+.+..+.+..|+|+++|+++ +++|+.+++.|++++++++|||++|||||+++++|
T Consensus 90 s~n~GNFl~ll~l~~~~d~~l~~~~~~~~~~~~~~~s~~iq~~i-~~~a~~v~~~I~~~v~~~~FSii~DettDis~~eQ 168 (235)
T PF14291_consen 90 SLNNGNFLELLELLAKYDPELKKHLSKNAPKNAKYSSKTIQNEI-EILADHVRQSIVEEVKSKYFSIIVDETTDISNKEQ 168 (235)
T ss_pred ccccccHHHHHHHHHhhcccchhhhhcccccceeccHHHHHHHH-HHHHHHHHHHHHhhccccceeeeeeccccccccch
Confidence 35789999999999999999999966778888999999999998 99999999999999988999999999999999999
Q ss_pred eEEEEEEeecCCceeeeeecceecccCchhHHHHHHHHHHHHcCCCCCCeeEEeecCCCCC
Q 041241 85 MAVVLRYVDKNGYVVEHFIGIEHVTSTTSISLKEALDKLFSRHGLSMSRLHRQGYDEASNM 145 (145)
Q Consensus 85 l~i~vryv~~~~~i~e~fl~~~~~~~~tae~i~~~i~~~l~~~~l~~~~~~~~~~Dgas~M 145 (145)
|+|+||||+.++.|+|+||+|.+++++||++|+++|++.|.++|||+++|+||||||||+|
T Consensus 169 l~i~vRyv~~~~~i~E~Fl~f~~~~~~ta~~l~~~i~~~L~~~~l~~~~~~gq~yDgas~M 229 (235)
T PF14291_consen 169 LSICVRYVDKDGKIKERFLGFVELEDTTAESLFNAIKDVLEKLGLDLSNCRGQCYDGASNM 229 (235)
T ss_pred hhheeeeeccCcceeeeeeeeeccCCccHHHHHHHHHHHHHHcCCCHHHcCcccccChHhh
Confidence 9999999998889999999999999999999999999999999999999999999999998
No 2
>PF04937 DUF659: Protein of unknown function (DUF 659); InterPro: IPR007021 These are transposase-like proteins with no known function.
Probab=98.03 E-value=1.9e-05 Score=56.95 Aligned_cols=72 Identities=24% Similarity=0.207 Sum_probs=58.6
Q ss_pred ceeEEEecccccccccceeEEEEEEeecCCceeeeeecceecc--cCchhHHHHHHHHHHHHcCCCCCCeeEEeecCCCC
Q 041241 67 ILFSILIDESCDIFTKEQMAVVLRYVDKNGYVVEHFIGIEHVT--STTSISLKEALDKLFSRHGLSMSRLHRQGYDEASN 144 (145)
Q Consensus 67 ~~fSi~~DettDis~~~ql~i~vryv~~~~~i~e~fl~~~~~~--~~tae~i~~~i~~~l~~~~l~~~~~~~~~~Dgas~ 144 (145)
.-.||++|+++|..+..-+.+.|..- .| .-||.-++.. ..||+.|++.+.+++++.| ..|++.+.+|+|++
T Consensus 32 ~Gcsi~~DgWtd~~~~~lInf~v~~~--~g---~~Flksvd~s~~~~~a~~l~~ll~~vIeeVG--~~nVvqVVTDn~~~ 104 (153)
T PF04937_consen 32 TGCSIMSDGWTDRKGRSLINFMVYCP--EG---TVFLKSVDASSIIKTAEYLFELLDEVIEEVG--EENVVQVVTDNASN 104 (153)
T ss_pred cCEEEEEecCcCCCCCeEEEEEEEcc--cc---cEEEEEEecccccccHHHHHHHHHHHHHHhh--hhhhhHHhccCchh
Confidence 45899999999998887777766442 22 4677777776 4799999999999999977 46999999999998
Q ss_pred C
Q 041241 145 M 145 (145)
Q Consensus 145 M 145 (145)
|
T Consensus 105 ~ 105 (153)
T PF04937_consen 105 M 105 (153)
T ss_pred H
Confidence 6
No 3
>KOG1121 consensus Tam3-transposase (Ac family) [Replication, recombination and repair]
Probab=96.80 E-value=0.018 Score=49.85 Aligned_cols=74 Identities=14% Similarity=0.166 Sum_probs=66.3
Q ss_pred ceeEEEecccccc-cccceeEEEEEEeecCCceeeeeecceecccCchhHHHHHHHHHHHHcCCCCCCeeEEeecC
Q 041241 67 ILFSILIDESCDI-FTKEQMAVVLRYVDKNGYVVEHFIGIEHVTSTTSISLKEALDKLFSRHGLSMSRLHRQGYDE 141 (145)
Q Consensus 67 ~~fSi~~DettDi-s~~~ql~i~vryv~~~~~i~e~fl~~~~~~~~tae~i~~~i~~~l~~~~l~~~~~~~~~~Dg 141 (145)
...++.+|.++|. ....++++..+|+|.+...+..++.+.-...++++.|...+..++.+++|. .++...+.|+
T Consensus 165 ~~v~lT~d~w~~~~~~~~y~~~t~h~id~~~~l~~~il~~~~~~~~~~~~i~~~~~~~~~~~~i~-~kv~~~~~~n 239 (641)
T KOG1121|consen 165 GRVSLTTDLWSDSGTDEGYMVLTAHYIDRDWELHNKILSFCIPPPHLGKALASVLNECLLEWGIE-KKVFSITVDN 239 (641)
T ss_pred CceEEEEeeecCCCCCcceEEEEEEEeccchHhhhheeeeecCCcchHHHHHHHHHHHHHhhChh-heEEEEeecc
Confidence 7899999999987 567889999999999899999999999556899999999999999999998 6777778877
No 4
>PF00600 Flu_NS1: Influenza non-structural protein (NS1); InterPro: IPR000256 NS1 is a homodimeric RNA-binding protein found in influenza virus that is required for viral replication. NS1 binds polyA tails of mRNA keeping them in the nucleus. NS1 inhibits pre-mRNA splicing by tightly binding to a specific stem-bulge of U6 snRNA [].; GO: 0003723 RNA binding; PDB: 2Z0A_C 3P39_E 3P38_C 3P31_C 3M8A_H 3M5R_D 3EE9_B 3KWI_A 3KWG_B 2RHK_A ....
Probab=61.29 E-value=24 Score=26.09 Aligned_cols=39 Identities=21% Similarity=0.346 Sum_probs=27.9
Q ss_pred EEEEEEeecCCceeeeeecceecccCchhHHHHHHHHHH
Q 041241 86 AVVLRYVDKNGYVVEHFIGIEHVTSTTSISLKEALDKLF 124 (145)
Q Consensus 86 ~i~vryv~~~~~i~e~fl~~~~~~~~tae~i~~~i~~~l 124 (145)
.+.+|-+.++|.++-+.--+..++.+|.|.+.+++--.+
T Consensus 144 LillRAFTeegaivgEIsPlpslpGht~EDVKnAigvli 182 (217)
T PF00600_consen 144 LILLRAFTEEGAIVGEISPLPSLPGHTNEDVKNAIGVLI 182 (217)
T ss_dssp EEEEEEEETTS-EEEEEEE-TTSS---HHHHHHHHHHHH
T ss_pred hhhhhhhccCCeeEeeeccCCCCCCCCchhHHHhhhhcc
Confidence 356788888899998888888888999999999886655
No 5
>COG1069 AraB Ribulose kinase [Energy production and conversion]
Probab=52.94 E-value=14 Score=31.89 Aligned_cols=31 Identities=13% Similarity=0.246 Sum_probs=26.4
Q ss_pred hHHHHHHHHHHHHcCCCCCCeeEEeecCCCC
Q 041241 114 ISLKEALDKLFSRHGLSMSRLHRQGYDEASN 144 (145)
Q Consensus 114 e~i~~~i~~~l~~~~l~~~~~~~~~~Dgas~ 144 (145)
+.+..++.+++++.|++...++|+|+|.+++
T Consensus 54 ~av~~aVr~~v~~agv~~~~V~gIGvDaTcS 84 (544)
T COG1069 54 EAVCAAVRDVVAKAGVDPADVVGIGVDATCS 84 (544)
T ss_pred HHHHHHHHHHHHHcCCChhHeeEEEEcceee
Confidence 4556777788899999999999999998865
No 6
>KOG0910 consensus Thioredoxin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=51.65 E-value=64 Score=23.24 Aligned_cols=62 Identities=21% Similarity=0.371 Sum_probs=42.6
Q ss_pred HHHHHHhhhcc--ceeEEEeccccccccc---ceeEEEEEEeecCCceeeeeecceecccCchhHHHHHHHHHH
Q 041241 56 TTNIIIKEMGD--ILFSILIDESCDIFTK---EQMAVVLRYVDKNGYVVEHFIGIEHVTSTTSISLKEALDKLF 124 (145)
Q Consensus 56 i~~~i~~~l~~--~~fSi~~DettDis~~---~ql~i~vryv~~~~~i~e~fl~~~~~~~~tae~i~~~i~~~l 124 (145)
+.+++.++..+ ++|-|=+|+..+...+ +.++.++-|- +|+.+++|+|..+- +.|-+.|++.+
T Consensus 82 ~l~~~~~~~~g~~k~~kvdtD~~~ela~~Y~I~avPtvlvfk--nGe~~d~~vG~~~~-----~~l~~~i~k~l 148 (150)
T KOG0910|consen 82 ILEELVSEYAGKFKLYKVDTDEHPELAEDYEISAVPTVLVFK--NGEKVDRFVGAVPK-----EQLRSLIKKFL 148 (150)
T ss_pred HHHHHHHhhcCeEEEEEEccccccchHhhcceeeeeEEEEEE--CCEEeeeecccCCH-----HHHHHHHHHHh
Confidence 34555666554 7889999998886654 5577777763 57888999887654 45555565554
No 7
>COG0400 Predicted esterase [General function prediction only]
Probab=41.50 E-value=20 Score=27.01 Aligned_cols=36 Identities=25% Similarity=0.414 Sum_probs=31.1
Q ss_pred cCchhHHHHHHHHHHHHcCCCCCCeeEEeecCCCCC
Q 041241 110 STTSISLKEALDKLFSRHGLSMSRLHRQGYDEASNM 145 (145)
Q Consensus 110 ~~tae~i~~~i~~~l~~~~l~~~~~~~~~~Dgas~M 145 (145)
...++.+.+.++...++++++.++++..+|.+.++|
T Consensus 77 ~~~~~~~~~~l~~~~~~~gi~~~~ii~~GfSqGA~i 112 (207)
T COG0400 77 DLETEKLAEFLEELAEEYGIDSSRIILIGFSQGANI 112 (207)
T ss_pred HHHHHHHHHHHHHHHHHhCCChhheEEEecChHHHH
Confidence 356788889999999999999999999999877654
No 8
>PHA03056 putative myristoylated protein; Provisional
Probab=39.34 E-value=57 Score=23.05 Aligned_cols=88 Identities=15% Similarity=0.169 Sum_probs=54.3
Q ss_pred HHHHHHHHHhhhccceeEEEecccccccccceeEEEEEEeecC-Ccee--eeeeccee--cccCchhHHHHHHHHHHHHc
Q 041241 53 AVETTNIIIKEMGDILFSILIDESCDIFTKEQMAVVLRYVDKN-GYVV--EHFIGIEH--VTSTTSISLKEALDKLFSRH 127 (145)
Q Consensus 53 a~~i~~~i~~~l~~~~fSi~~DettDis~~~ql~i~vryv~~~-~~i~--e~fl~~~~--~~~~tae~i~~~i~~~l~~~ 127 (145)
|+.+.++|+..+ .--+.||+.|-.+.++.-+--||=|-. ..++ .+|..+.. +.....+.+-+.|+..|.++
T Consensus 19 aemilekivdhi----vmyisdesrdennpeyidfrnrygdyrsliiksdheFsnLCKd~l~~~~p~T~~~~IK~Il~qy 94 (165)
T PHA03056 19 AEMILEKIVDHI----VMYISDESRDENNPEYIDFRNRYGDYRSLIIKSDHEFVKLCKDHAEKSSPETQQMIIKHIYEQY 94 (165)
T ss_pred HHHHHHHHHHHh----eeeecccccccCCchheehhhhccchhhhhhhccHHHHHHHHHHHHcCCchHHHHHHHHHHHHh
Confidence 444555555554 233679999988888887777775421 1222 23333322 12455666778899999999
Q ss_pred CCCC---------CCeeEEeecCCCC
Q 041241 128 GLSM---------SRLHRQGYDEASN 144 (145)
Q Consensus 128 ~l~~---------~~~~~~~~Dgas~ 144 (145)
.||- +-|=.++|-|+++
T Consensus 95 ~IP~S~Vvw~Pia~~cDiITYynCsd 120 (165)
T PHA03056 95 LIPVSEVLLKPMMSMGDIITYNGCKD 120 (165)
T ss_pred cCChhHHHHHHHHhhCCEeeecCCCc
Confidence 9993 2344566777764
No 9
>cd02988 Phd_like_VIAF Phosducin (Phd)-like family, Viral inhibitor of apoptosis (IAP)-associated factor (VIAF) subfamily; VIAF is a Phd-like protein that functions in caspase activation during apoptosis. It was identified as an IAP binding protein through a screen of a human B-cell library using a prototype IAP. VIAF lacks a consensus IAP binding motif and while it does not function as an IAP antagonist, it still plays a regulatory role in the complete activation of caspases. VIAF itself is a substrate for IAP-mediated ubiquitination, suggesting that it may be a target of IAPs in the prevention of cell death. The similarity of VIAF to Phd points to a potential role distinct from apoptosis regulation. Phd functions as a cytosolic regulator of G protein by specifically binding to G protein betagamma (Gbg)-subunits. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain.
Probab=38.78 E-value=1.2e+02 Score=22.33 Aligned_cols=61 Identities=21% Similarity=0.367 Sum_probs=40.8
Q ss_pred HHHHHhhhcc-ceeEEEecccccccccceeEEEEEEeecCCceeeeeecceecc--cCchhHHHHH
Q 041241 57 TNIIIKEMGD-ILFSILIDESCDIFTKEQMAVVLRYVDKNGYVVEHFIGIEHVT--STTSISLKEA 119 (145)
Q Consensus 57 ~~~i~~~l~~-~~fSi~~DettDis~~~ql~i~vryv~~~~~i~e~fl~~~~~~--~~tae~i~~~ 119 (145)
.+.+..+... +|+.|-+|....-.....+|-++=|- +|.+..++.|+.++. +.|.+.|-..
T Consensus 124 l~~LA~k~~~vkFvkI~ad~~~~~~~i~~lPTlliyk--~G~~v~~ivG~~~~gg~~~~~~~lE~~ 187 (192)
T cd02988 124 LSELARKFPDTKFVKIISTQCIPNYPDKNLPTILVYR--NGDIVKQFIGLLEFGGMNTTMEDLEWL 187 (192)
T ss_pred HHHHHHHCCCCEEEEEEhHHhHhhCCCCCCCEEEEEE--CCEEEEEEeCchhhCCCCCCHHHHHHH
Confidence 4445555555 78888888654444556677777774 578999999999996 4555555433
No 10
>PF01890 CbiG_C: Cobalamin synthesis G C-terminus; InterPro: IPR002750 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CbiG proteins are specific for anaerobic cobalamin biosynthesis. CbiG, which shows homology with CobE of the aerobic pathway, participates in the conversion of cobalt-precorrin 5 into cobalt-precorrin 6 []. CbiG is responsible for the opening of the delta-lactone ring and extrusion of the C2-unit []. The aerobic pathway uses molecular oxygen to trigger the events at C-20 leading to contraction and expulsion of the C2-unit as acetic acid from a metal-free intermediate, whereas the anaerobic route involves the internal delivery of oxygen from a carboxylic acid terminus to C-20 followed by extrusion of the C2-unit as acetaldehyde, using cobalt complexes as substrates []. This entry represents the core domain of CibG.; GO: 0009236 cobalamin biosynthetic process; PDB: 3BY5_A 2W6K_A 2W6L_A 3EEQ_B.
Probab=38.19 E-value=73 Score=21.75 Aligned_cols=31 Identities=16% Similarity=0.282 Sum_probs=23.4
Q ss_pred ccCchhHHHHHHHHHHHHcCCCCCCeeEEee
Q 041241 109 TSTTSISLKEALDKLFSRHGLSMSRLHRQGY 139 (145)
Q Consensus 109 ~~~tae~i~~~i~~~l~~~~l~~~~~~~~~~ 139 (145)
.+.+.+.|.+++...|.+.++++..+.++++
T Consensus 10 r~~~~~~i~~ai~~~l~~~~~~~~~i~~ias 40 (121)
T PF01890_consen 10 RGAPAEEIEEAIEQALAEAGLSPRSIAAIAS 40 (121)
T ss_dssp SS--HHHHHHHHHHHHHHCT--GGGEEEEEE
T ss_pred CCCCHHHHHHHHHHHHHHcCCChhhccEEEe
Confidence 4788999999999999999999888777754
No 11
>TIGR03725 bact_YeaZ universal bacterial protein YeaZ. This family describes a protein family, YeaZ, that appears to be universal in bacteria, but whose function is unknown. This family is related to the gcp (glycoprotease) protein family, also universal in bacteria and unknown in function. In Gram-positive lineages, members of these two related families often belong to the same operon, along with the ribosomal-protein-alanine acetyltransferase gene. Members of this family may occur as fusions with gcp or the ribosomal protein N-acetyltransferase rimI, and is frequently encoded next to rimI.
Probab=35.86 E-value=1.1e+02 Score=22.49 Aligned_cols=33 Identities=21% Similarity=0.284 Sum_probs=26.6
Q ss_pred ecccCchhHHHHHHHHHHHHcCCCCCCeeEEee
Q 041241 107 HVTSTTSISLKEALDKLFSRHGLSMSRLHRQGY 139 (145)
Q Consensus 107 ~~~~~tae~i~~~i~~~l~~~~l~~~~~~~~~~ 139 (145)
+....-++.|.-.+.+.|++.|+.++++-+++.
T Consensus 28 ~~~~~h~~~l~~~i~~~l~~~~~~~~~i~~iav 60 (202)
T TIGR03725 28 EAGRNHSEILLPMIEELLAEAGLSLQDLDAIAV 60 (202)
T ss_pred hhhHHHHHHHHHHHHHHHHHcCCCHHHCCEEEE
Confidence 344667899999999999999999987655543
No 12
>PRK07027 cobalamin biosynthesis protein CbiG; Provisional
Probab=32.59 E-value=55 Score=22.52 Aligned_cols=31 Identities=6% Similarity=0.129 Sum_probs=26.5
Q ss_pred ccCchhHHHHHHHHHHHHcCCCCCCeeEEee
Q 041241 109 TSTTSISLKEALDKLFSRHGLSMSRLHRQGY 139 (145)
Q Consensus 109 ~~~tae~i~~~i~~~l~~~~l~~~~~~~~~~ 139 (145)
.+.+.+.|.+.|...|.+.|+++.-+.++++
T Consensus 12 ~~~~~e~i~~ai~~~L~~~~l~~~si~~las 42 (126)
T PRK07027 12 RGVPAEQIEAAIRAALAQRPLASADVRVVAT 42 (126)
T ss_pred CCCCHHHHHHHHHHHHHHcCCCHHHhheeEe
Confidence 3678999999999999999999887777665
No 13
>PF08154 NLE: NLE (NUC135) domain; InterPro: IPR012972 This domain is located N-terminal to WD40 repeats(IPR001680 from INTERPRO). It is found in the microtubule-associated protein Q12024 from SWISSPROT [].
Probab=31.68 E-value=1.1e+02 Score=18.44 Aligned_cols=37 Identities=24% Similarity=0.261 Sum_probs=24.7
Q ss_pred EEEEEeecCCceeeeeecceecc-cCchhHHHHHHHHHH
Q 041241 87 VVLRYVDKNGYVVEHFIGIEHVT-STTSISLKEALDKLF 124 (145)
Q Consensus 87 i~vryv~~~~~i~e~fl~~~~~~-~~tae~i~~~i~~~l 124 (145)
|.|||+++++. .+.-=.-+.++ +.|.+.|-..+...|
T Consensus 2 v~v~F~t~~~~-~~~~~~~~~VP~~~t~~~Ls~LvN~LL 39 (65)
T PF08154_consen 2 VQVQFVTEDGE-YEVPGTPISVPSNITRKELSELVNQLL 39 (65)
T ss_pred EEEEEEcCCCC-ccCCCCCEEEeCCCCHHHHHHHHHHHh
Confidence 56899987652 11111334444 788999999998888
No 14
>cd01648 TERT TERT: Telomerase reverse transcriptase (TERT). Telomerase is a ribonucleoprotein (RNP) that synthesizes telomeric DNA repeats. The telomerase RNA subunit provides the template for synthesis of these repeats. The catalytic subunit of RNP is known as telomerase reverse transcriptase (TERT). The reverse transcriptase (RT) domain is located in the C-terminal region of the TERT polypeptide. Single amino acid substitutions in this region lead to telomere shortening and senescence. Telomerase is an enzyme that, in certain cells, maintains the physical ends of chromosomes (telomeres) during replication. In somatic cells, replication of the lagging strand requires the continual presence of an RNA primer approximately 200 nucleotides upstream, which is complementary to the template strand. Since there is a region of DNA less than 200 base pairs from the end of the chromosome where this is not possible, the chromosome is continually shortened. However, a surplus of repetitive DNA at
Probab=31.43 E-value=1.4e+02 Score=19.96 Aligned_cols=38 Identities=18% Similarity=0.245 Sum_probs=25.9
Q ss_pred EEEEEEeecCCceeeeeecceecccCchhHHHHHHHHHH-HHcCCCC
Q 041241 86 AVVLRYVDKNGYVVEHFIGIEHVTSTTSISLKEALDKLF-SRHGLSM 131 (145)
Q Consensus 86 ~i~vryv~~~~~i~e~fl~~~~~~~~tae~i~~~i~~~l-~~~~l~~ 131 (145)
..++||+|+- + +..-+...++...+.+...+ +++|+..
T Consensus 53 ~~~~rYaDD~-------l-i~~~~~~~~~~~~~~l~~~l~~~~gl~i 91 (119)
T cd01648 53 SLLLRLVDDF-------L-LITTSLDKAIKFLNLLLRGFINQYKTFV 91 (119)
T ss_pred ceEEEEeCcE-------E-EEeCCHHHHHHHHHHHHHhhHHhhCeEE
Confidence 4578999841 1 11112457888889999988 8888875
No 15
>PF02196 RBD: Raf-like Ras-binding domain; InterPro: IPR003116 This is the Ras-binding domain found in proteins related to Ras. It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.
Probab=30.82 E-value=58 Score=20.03 Aligned_cols=27 Identities=19% Similarity=0.365 Sum_probs=20.7
Q ss_pred CchhHHHHHHHHHHHHcCCCCCCeeEE
Q 041241 111 TTSISLKEALDKLFSRHGLSMSRLHRQ 137 (145)
Q Consensus 111 ~tae~i~~~i~~~l~~~~l~~~~~~~~ 137 (145)
..|+++-+++..+++++||+.+.|.-+
T Consensus 18 rpg~ti~d~L~~~~~kr~L~~~~~~V~ 44 (71)
T PF02196_consen 18 RPGMTIRDALSKACKKRGLNPECCDVR 44 (71)
T ss_dssp -TTSBHHHHHHHHHHTTT--CCCEEEE
T ss_pred cCCCCHHHHHHHHHHHcCCCHHHEEEE
Confidence 457889999999999999999877654
No 16
>cd02980 TRX_Fd_family Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:ubiquinone oxidoreductase (NuoE). TRX-like Fds are soluble low-potential electron carriers containing a single [2Fe-2S] cluster. The exact role of TRX-like Fd is still unclear. It has been suggested that it may be involved in nitrogen fixation. Its homologous domains in large redox enzymes (such as Nuo and hydrogenases) function as electron carriers.
Probab=30.62 E-value=37 Score=20.52 Aligned_cols=34 Identities=18% Similarity=-0.052 Sum_probs=26.1
Q ss_pred CchhHHHHHHHHHHHHcCCC------CCCeeEEeecCCCC
Q 041241 111 TTSISLKEALDKLFSRHGLS------MSRLHRQGYDEASN 144 (145)
Q Consensus 111 ~tae~i~~~i~~~l~~~~l~------~~~~~~~~~Dgas~ 144 (145)
.-|+.+++++.+.+...+++ ...|.|.|..|..+
T Consensus 14 ~G~~~l~~~l~~~~~~~~~~~~v~v~~~~Clg~C~~~P~v 53 (77)
T cd02980 14 RGAEELLEALEKELGIRGGDGRVTVERVGCLGACGLAPVV 53 (77)
T ss_pred CCHHHHHHHHHHHHhhhcCCCeEEEEEcCCcCcccCCCEE
Confidence 34899999999999887653 35888888777653
No 17
>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=27.67 E-value=66 Score=21.06 Aligned_cols=32 Identities=16% Similarity=0.115 Sum_probs=25.5
Q ss_pred cCchhHHHHHHHHHHHHcCCC----CCCeeEEeecC
Q 041241 110 STTSISLKEALDKLFSRHGLS----MSRLHRQGYDE 141 (145)
Q Consensus 110 ~~tae~i~~~i~~~l~~~~l~----~~~~~~~~~Dg 141 (145)
..-|..+++++.+.+.+.||+ ..-|.|+|+-|
T Consensus 13 AaGA~~V~~al~~ei~~~gl~v~v~~tGC~G~C~~e 48 (92)
T cd03063 13 ALGADEVAEAIEAEAAARGLAATIVRNGSRGMYWLE 48 (92)
T ss_pred hhCHHHHHHHHHHHHHHcCCeEEEEEecCceecCCC
Confidence 466899999999999999873 24778888765
No 18
>PF06577 DUF1134: Protein of unknown function (DUF1134); InterPro: IPR008325 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=26.20 E-value=95 Score=22.57 Aligned_cols=33 Identities=21% Similarity=0.236 Sum_probs=27.6
Q ss_pred cCchhHHHHHHHHHHHHcCCCCCCeeEEeecCC
Q 041241 110 STTSISLKEALDKLFSRHGLSMSRLHRQGYDEA 142 (145)
Q Consensus 110 ~~tae~i~~~i~~~l~~~~l~~~~~~~~~~Dga 142 (145)
..++++|..++.++++++|.|-..+.|+-.-||
T Consensus 17 G~~s~gla~~ie~af~~~G~PngYI~G~E~sGA 49 (160)
T PF06577_consen 17 GSTSEGLAKVIEKAFKDYGRPNGYILGEEASGA 49 (160)
T ss_pred hhhhHHHHHHHHHHHHHcCCCceEEEeeecccc
Confidence 468999999999999999999878887755444
No 19
>cd03487 RT_Bac_retron_II RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA branches out from a small ssRNA molecule via a 2'-5'phosphodiester linkage. Bacterial retron RTs produce cDNA corresponding to only a small portion of the retron genome.
Probab=25.80 E-value=1.3e+02 Score=22.27 Aligned_cols=21 Identities=19% Similarity=0.351 Sum_probs=17.9
Q ss_pred chhHHHHHHHHHHHHcCCCCC
Q 041241 112 TSISLKEALDKLFSRHGLSMS 132 (145)
Q Consensus 112 tae~i~~~i~~~l~~~~l~~~ 132 (145)
.++.+.+.+...|.+.||.+.
T Consensus 155 ~~~~~~~~i~~~l~~~gL~ln 175 (214)
T cd03487 155 ALDKLLEIIRSILSEEGFKIN 175 (214)
T ss_pred HHHHHHHHHHHHHHHCCceeC
Confidence 688999999999999888853
No 20
>KOG0209 consensus P-type ATPase [Inorganic ion transport and metabolism]
Probab=25.56 E-value=47 Score=30.74 Aligned_cols=41 Identities=17% Similarity=0.229 Sum_probs=33.6
Q ss_pred HHHHHHHHHhhhcc-ceeEEEe-cccccccccceeEEEEEEee
Q 041241 53 AVETTNIIIKEMGD-ILFSILI-DESCDIFTKEQMAVVLRYVD 93 (145)
Q Consensus 53 a~~i~~~i~~~l~~-~~fSi~~-DettDis~~~ql~i~vryv~ 93 (145)
|+.-++.|+..++. .++.+|+ |+|.|++--+|--+-|--.+
T Consensus 791 aP~QKE~ii~tlK~~Gy~TLMCGDGTNDVGALK~AhVGVALL~ 833 (1160)
T KOG0209|consen 791 APKQKEFIITTLKKLGYVTLMCGDGTNDVGALKQAHVGVALLN 833 (1160)
T ss_pred ChhhHHHHHHHHHhcCeEEEEecCCCcchhhhhhcccceehhc
Confidence 56667899999999 9999997 89999999888766655554
No 21
>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.
Probab=24.40 E-value=72 Score=20.10 Aligned_cols=28 Identities=14% Similarity=0.246 Sum_probs=23.3
Q ss_pred CchhHHHHHHHHHHHHcCCCCCCeeEEe
Q 041241 111 TTSISLKEALDKLFSRHGLSMSRLHRQG 138 (145)
Q Consensus 111 ~tae~i~~~i~~~l~~~~l~~~~~~~~~ 138 (145)
..|+.|.+++...+++.||+...|--+-
T Consensus 17 rpG~ti~d~L~kllekRgl~~~~~~vf~ 44 (73)
T cd01817 17 RPGESIRDLLSGLCEKRGINYAAVDLFL 44 (73)
T ss_pred cCCCCHHHHHHHHHHHcCCChhHEEEEE
Confidence 4688999999999999999987665543
No 22
>PF02801 Ketoacyl-synt_C: Beta-ketoacyl synthase, C-terminal domain; InterPro: IPR014031 Beta-ketoacyl-ACP synthase 2.3.1.41 from EC (KAS) [] is the enzyme that catalyzes the condensation of malonyl-ACP with the growing fatty acid chain. It is found as a component of a number of enzymatic systems, including fatty acid synthetase (FAS), which catalyzes the formation of long-chain fatty acids from acetyl-CoA, malonyl-CoA and NADPH; the multi-functional 6-methysalicylic acid synthase (MSAS) from Penicillium patulum [], which is involved in the biosynthesis of a polyketide antibiotic; polyketide antibiotic synthase enzyme systems; Emericella nidulans multifunctional protein Wa, which is involved in the biosynthesis of conidial green pigment; Rhizobium nodulation protein nodE, which probably acts as a beta-ketoacyl synthase in the synthesis of the nodulation Nod factor fatty acyl chain; and yeast mitochondrial protein CEM1. The condensation reaction is a two step process, first the acyl component of an activated acyl primer is transferred to a cysteine residue of the enzyme and is then condensed with an activated malonyl donor with the concomitant release of carbon dioxide. This entry represents the C-terminal domain of beta-ketoacyl-ACP synthases. The active site is contained in a cleft betweeen N- and C-terminal domains, with residues from both domains contributing to substrate binding and catalysis [].; PDB: 2UV8_B 3HMJ_A 2VKZ_C 4EWG_A 1TQY_H 1E5M_A 1J3N_B 2VZ8_A 2VZ9_B 3O04_A ....
Probab=23.69 E-value=1.5e+02 Score=19.69 Aligned_cols=34 Identities=12% Similarity=0.208 Sum_probs=25.0
Q ss_pred cCchhHHHHHHHHHHHHcCCCCCCeeEEeecCCC
Q 041241 110 STTSISLKEALDKLFSRHGLSMSRLHRQGYDEAS 143 (145)
Q Consensus 110 ~~tae~i~~~i~~~l~~~~l~~~~~~~~~~Dgas 143 (145)
..++..+..++...|++.+++...+-.+..+|.+
T Consensus 21 ~p~~~~~~~~i~~al~~agi~~~~I~~i~~hg~G 54 (119)
T PF02801_consen 21 APNGAALARAIRRALADAGISPEDIDYIEAHGTG 54 (119)
T ss_dssp STTHHHHHHHHHHHHHHHTS-GGGEEEEE----S
T ss_pred CcCHHHHHHHHHHHHhhhccccccceeeeeeccc
Confidence 5678999999999999999998887777776654
No 23
>PF00872 Transposase_mut: Transposase, Mutator family; InterPro: IPR001207 Autonomous mobile genetic elements such as transposon or insertion sequences (IS) encode an enzyme, transposase, that is required for excising and inserting the mobile element. Transposases have been grouped into various families [, , ]. The mutator family of transposases consists of a number of elements that include, mutator from maize, IsT2 from Thiobacillus ferrooxidans, Is256 from Staphylococcus aureus, Is1201 from Lactobacillus helveticus, Is1081 from Mycobacterium bovis, IsRm3 from Rhizobium meliloti and others. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated
Probab=23.28 E-value=44 Score=27.45 Aligned_cols=100 Identities=12% Similarity=0.024 Sum_probs=62.4
Q ss_pred cCcchHHHHHHHHHHHHHHHHHhhhcc-ceeEEEecccccccc----cc-eeEEEEEEeecCCceeeeeecceecccCch
Q 041241 40 TSNEIKKDIVSCAAVETTNIIIKEMGD-ILFSILIDESCDIFT----KE-QMAVVLRYVDKNGYVVEHFIGIEHVTSTTS 113 (145)
Q Consensus 40 ~S~~~~~~ii~~ia~~i~~~i~~~l~~-~~fSi~~DettDis~----~~-ql~i~vryv~~~~~i~e~fl~~~~~~~~ta 113 (145)
.|+.+..++.+.+.+.+..--...+.. +|..|.+|++.=--. .. .-..++-=++.+| +-+.||+...+..+
T Consensus 133 ~S~s~vSri~~~~~~~~~~w~~R~L~~~~y~~l~iD~~~~kvr~~~~~~~~~~~v~iGi~~dG--~r~vLg~~~~~~Es- 209 (381)
T PF00872_consen 133 VSKSTVSRITKQLDEEVEAWRNRPLESEPYPYLWIDGTYFKVREDGRVVKKAVYVAIGIDEDG--RREVLGFWVGDRES- 209 (381)
T ss_pred cCchhhhhhhhhhhhhHHHHhhhccccccccceeeeeeecccccccccccchhhhhhhhhccc--ccceeeeecccCCc-
Confidence 677788888888888888777778877 488899998852111 11 1111112234444 45778888775443
Q ss_pred hHHHHHHHHHHHHcCCCCCCeeEEeecCCCC
Q 041241 114 ISLKEALDKLFSRHGLSMSRLHRQGYDEASN 144 (145)
Q Consensus 114 e~i~~~i~~~l~~~~l~~~~~~~~~~Dgas~ 144 (145)
..-...+..-|.+.|+. ...-+++||...
T Consensus 210 ~~~W~~~l~~L~~RGl~--~~~lvv~Dg~~g 238 (381)
T PF00872_consen 210 AASWREFLQDLKERGLK--DILLVVSDGHKG 238 (381)
T ss_pred cCEeeecchhhhhcccc--ccceeecccccc
Confidence 33344556667888886 355566788654
No 24
>PF07872 DUF1659: Protein of unknown function (DUF1659); InterPro: IPR012454 This family consists of hypothetical bacterial proteins of unknown function
Probab=22.52 E-value=1.6e+02 Score=16.57 Aligned_cols=34 Identities=21% Similarity=0.296 Sum_probs=26.0
Q ss_pred EEEEEEee---cCCceeeeeecceecc-cCchhHHHHH
Q 041241 86 AVVLRYVD---KNGYVVEHFIGIEHVT-STTSISLKEA 119 (145)
Q Consensus 86 ~i~vryv~---~~~~i~e~fl~~~~~~-~~tae~i~~~ 119 (145)
.+.++|.. .+|.+.-+--.|-.+. +.+.+.|++.
T Consensus 7 ~L~l~~~~G~d~~Gkpi~k~ks~~nvk~~Atdedl~~V 44 (47)
T PF07872_consen 7 SLRLKYQTGVDENGKPIFKTKSFSNVKPDATDEDLYDV 44 (47)
T ss_pred EEEEEEEcccCCCCCEEEEeeehhhcCCCCCHHHHHHH
Confidence 45556664 4688888888898887 8999999875
No 25
>TIGR00329 gcp_kae1 metallohydrolase, glycoprotease/Kae1 family. This subfamily includes the well-studied secreted O-sialoglycoprotein endopeptidase (glycoprotease, EC 3.4.24.57) of Pasteurella haemolytica, a pathogen. A member from Riemerella anatipestifer, associated with cohemolysin activity, likewise is exported without benefit of a classical signal peptide and shows glycoprotease activity on the test substrate glycophorin. However, archaeal members of this subfamily show unrelated activities as demonstrated in Pyrococcus abyssi: DNA binding, iron binding, apurinic endonuclease activity, genomic association with a kinase domain, and no glycoprotease activity. This family thus pulls together a set of proteins as a homology group that appears to be near-universal in life, yet heterogeneous in assayed function between bacteria and archaea.
Probab=22.47 E-value=1.7e+02 Score=23.06 Aligned_cols=41 Identities=10% Similarity=0.203 Sum_probs=30.3
Q ss_pred eeeecceecc--cCchhHHHHHHHHHHHHcCCCCCCeeEEeec
Q 041241 100 EHFIGIEHVT--STTSISLKEALDKLFSRHGLSMSRLHRQGYD 140 (145)
Q Consensus 100 e~fl~~~~~~--~~tae~i~~~i~~~l~~~~l~~~~~~~~~~D 140 (145)
+.|=|+.|.. ..-++.|...+..+|++.|++++++-++++-
T Consensus 34 ~~~gGi~p~~~~~~H~~~l~~~i~~~l~~~~~~~~did~iav~ 76 (305)
T TIGR00329 34 AKYGGVVPEEASRHHAENIPPLLERALIESNVDKSEIDLIAYT 76 (305)
T ss_pred cccCCcCcchhHHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEe
Confidence 4444555554 4668999999999999999998866555543
No 26
>TIGR03723 bact_gcp putative glycoprotease GCP. This model represents bacterial members of a protein family that is widely distributed. In a few pathogenic species, the protein is exported in a way that may represent an exceptional secondary function. This model plus companion (archaeal) model TIGR03722 together span the prokaryotic member sequences of TIGR00329, a protein family that appears universal in life, and whose broad function is unknown. A member of TIGR03722 has been characterized as a DNA-binding protein with apurinic endopeptidase activity. In contrast, the rare characterized members of the present family show O-sialoglycoprotein endopeptidase (EC. 3.4.24.57) activity after export. These include glycoprotease (gcp) from Pasteurella haemolytica A1 and a cohemolysin from Riemerella anatipestifer (GB|AAG39646.1). The member from Staphylococcus aureus is essential and is related to cell wall dynamics and the modulation of autolysis, but members are also found in the Mycoplasmas
Probab=21.84 E-value=2e+02 Score=22.89 Aligned_cols=31 Identities=10% Similarity=0.238 Sum_probs=25.7
Q ss_pred cCchhHHHHHHHHHHHHcCCCCCCeeEEeec
Q 041241 110 STTSISLKEALDKLFSRHGLSMSRLHRQGYD 140 (145)
Q Consensus 110 ~~tae~i~~~i~~~l~~~~l~~~~~~~~~~D 140 (145)
..-++.|...+.+.|++.+++++++-++++-
T Consensus 47 ~~H~~~l~~~i~~~l~~~~~~~~~id~iav~ 77 (314)
T TIGR03723 47 RAHLEAIPPLIEEALAEAGLTLSDIDAIAVT 77 (314)
T ss_pred HHHHHHHHHHHHHHHHHcCCCHHHCCEEEEe
Confidence 5678999999999999999998876666543
No 27
>cd03082 TRX_Fd_NuoE_W_FDH_beta TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH is a heterodimeric NAD-dependent enzyme catalyzing the conversion of formate to carbon dioxide. The beta subunit is a fusion protein containing an N-terminal NuoE domain and a C-terminal NuoF domain. NuoE and NuoF are components of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster in NuoE and the [4Fe-4S] cluster in NuoF. In addition, NuoF is also the NADH- and FMN-binding subunit. Similarly, the beta subunit of W-FDH is most likely involved in the electron transport chain during the NAD-dependen
Probab=21.63 E-value=28 Score=21.50 Aligned_cols=34 Identities=9% Similarity=-0.044 Sum_probs=25.4
Q ss_pred CchhHHHHHHHHHHHH--cCCCCCCeeEEeecCCCC
Q 041241 111 TTSISLKEALDKLFSR--HGLSMSRLHRQGYDEASN 144 (145)
Q Consensus 111 ~tae~i~~~i~~~l~~--~~l~~~~~~~~~~Dgas~ 144 (145)
.-++.+++.++..|.. ..+....|.|.|..|..+
T Consensus 15 ~Ga~~l~~~l~~~L~~~~v~l~~~~ClG~C~~gP~v 50 (72)
T cd03082 15 AGAEELLAALEAGLGPEGVRVVRAPCVGRCERAPAA 50 (72)
T ss_pred CCHHHHHHHHHHHhCCCeEEEEecCcCCccCCCCeE
Confidence 4688899999988853 345567899999877654
No 28
>PF02114 Phosducin: Phosducin; InterPro: IPR024253 The outer and inner segments of vertebrate rod photoreceptor cells contain phosducin, a soluble phosphoprotein that complexes with the beta/gamma-subunits of the GTP-binding protein, transducin. Light-induced changes in cyclic nucleotide levels modulate the phosphorylation of phosducin by protein kinase A []. The protein is thought to participate in the regulation of visual phototransduction or in the integration of photo-receptor metabolism. Similar proteins have been isolated from the pineal gland and it is believed that the functional role of the protein is the same in both retina and pineal gland []. This entry represents a domain found in members of the phosducin family. This domain has a thioredoxin-like fold [].; PDB: 2DBC_A 1A0R_P 1B9Y_C 1B9X_C 2TRC_P 3EVI_B.
Probab=21.25 E-value=4.1e+02 Score=20.79 Aligned_cols=73 Identities=15% Similarity=0.322 Sum_probs=45.7
Q ss_pred HHHHHHhhhcc-ceeEEEecccc--cccccceeEEEEEEeecCCceeeeeecceecccCchhHHHHHHHHHHHHcCCCCC
Q 041241 56 TTNIIIKEMGD-ILFSILIDESC--DIFTKEQMAVVLRYVDKNGYVVEHFIGIEHVTSTTSISLKEALDKLFSRHGLSMS 132 (145)
Q Consensus 56 i~~~i~~~l~~-~~fSi~~Dett--Dis~~~ql~i~vryv~~~~~i~e~fl~~~~~~~~tae~i~~~i~~~l~~~~l~~~ 132 (145)
....+..+-.. +|..|...... .--..+.||-++-|- +|.+...|+++.+.-+. +--..-|...|.++|+=..
T Consensus 167 ~L~~LA~kyp~vKFvkI~a~~~~~~~~f~~~~LPtllvYk--~G~l~~~~V~l~~~~g~--df~~~dlE~~L~~~G~l~~ 242 (265)
T PF02114_consen 167 CLECLARKYPEVKFVKIRASKCPASENFPDKNLPTLLVYK--NGDLIGNFVGLTDLLGD--DFFTEDLEAFLIEYGVLPE 242 (265)
T ss_dssp HHHHHHHH-TTSEEEEEEECGCCTTTTS-TTC-SEEEEEE--TTEEEEEECTGGGCT-T--T--HHHHHHHHHTTTSSS-
T ss_pred HHHHHHHhCCceEEEEEehhccCcccCCcccCCCEEEEEE--CCEEEEeEEehHHhcCC--CCCHHHHHHHHHHcCCCCC
Confidence 44556666666 77788877643 223346788888885 57899999999887531 1223457888999987543
No 29
>PTZ00285 glucosamine-6-phosphate isomerase; Provisional
Probab=21.10 E-value=3.8e+02 Score=20.43 Aligned_cols=89 Identities=9% Similarity=0.026 Sum_probs=48.8
Q ss_pred hHHHHHHHHHHHHHHHHHh-hhcc-ceeEEEecccccccccceeEEEEEEeec---C-Cce-----eeeeecceecccCc
Q 041241 44 IKKDIVSCAAVETTNIIIK-EMGD-ILFSILIDESCDIFTKEQMAVVLRYVDK---N-GYV-----VEHFIGIEHVTSTT 112 (145)
Q Consensus 44 ~~~~ii~~ia~~i~~~i~~-~l~~-~~fSi~~DettDis~~~ql~i~vryv~~---~-~~i-----~e~fl~~~~~~~~t 112 (145)
...++.+.++..+.+.+.+ .++. +.|.|.+-+-+... ..+...++.+.. + ..+ -||+ .++...
T Consensus 8 ~~~~~~~~~a~~i~~~i~~~~~~~~~~~~i~lsgG~tP~--~~y~~L~~~~~~~~i~w~~v~if~~DEr~----~Vp~~~ 81 (253)
T PTZ00285 8 DADAVADYTSNYIIKRINDFKPTSDRPFVLGLPTGSTPL--PTYQELIRAYREGRVSFSNVVTFNMDEYV----GLPRDH 81 (253)
T ss_pred CHHHHHHHHHHHHHHHHHHHhhhcCCCeEEEEcCCCCHH--HHHHHHHHHHhhcCCchhHeEEECCcEEe----cCCCCc
Confidence 3467778888888887776 6655 67777766543211 111111110000 0 011 2443 255556
Q ss_pred hhHHHHHHHHHH-HHcCCCCCCeeEEe
Q 041241 113 SISLKEALDKLF-SRHGLSMSRLHRQG 138 (145)
Q Consensus 113 ae~i~~~i~~~l-~~~~l~~~~~~~~~ 138 (145)
.++-+..+.+.| ...+++..|+...-
T Consensus 82 ~~Sn~~~~~~~l~~~~~ip~~~~~~~~ 108 (253)
T PTZ00285 82 PQSYHYFMKENFFDHVDIKEENRHILN 108 (253)
T ss_pred hHHHHHHHHHHHhccCCCCHhhEEcCC
Confidence 778888888765 56677777776653
No 30
>COG5400 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.82 E-value=1.1e+02 Score=22.66 Aligned_cols=30 Identities=23% Similarity=0.238 Sum_probs=25.0
Q ss_pred cCchhHHHHHHHHHHHHcCCCCCCeeEEee
Q 041241 110 STTSISLKEALDKLFSRHGLSMSRLHRQGY 139 (145)
Q Consensus 110 ~~tae~i~~~i~~~l~~~~l~~~~~~~~~~ 139 (145)
..|+.++..+++..++++|+|--.+.|+--
T Consensus 62 G~Tsggla~vvEkaF~~yGlPnGYilGeEG 91 (205)
T COG5400 62 GETSGGLAKVVEKAFQSYGLPNGYILGEEG 91 (205)
T ss_pred ccccchHHHHHHHHHHhcCCCCceEecccc
Confidence 468899999999999999999777766543
No 31
>cd01646 RT_Bac_retron_I RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA branches out from a small ssRNA molecule via a 2'-5'phosphodiester linkage. Bacterial retron RTs produce cDNA corresponding to only a small portion of the retron genome.
Probab=20.76 E-value=1.1e+02 Score=21.43 Aligned_cols=39 Identities=23% Similarity=0.377 Sum_probs=25.8
Q ss_pred EEEEEEeecCCceeeeeecceecccCchhHHHHHHHHHHHHcCCCCC
Q 041241 86 AVVLRYVDKNGYVVEHFIGIEHVTSTTSISLKEALDKLFSRHGLSMS 132 (145)
Q Consensus 86 ~i~vryv~~~~~i~e~fl~~~~~~~~tae~i~~~i~~~l~~~~l~~~ 132 (145)
..++||+|+ ..+ +. -.....+.+.+.+.+.+++.|+.+.
T Consensus 83 ~~~~RY~DD-~~i------~~-~~~~~~~~~~~~i~~~l~~~gL~ln 121 (158)
T cd01646 83 VDYVRYVDD-IRI------FA-DSKEEAEEILEELKEFLAELGLSLN 121 (158)
T ss_pred ceEEEecCc-EEE------Ec-CCHHHHHHHHHHHHHHHHHCCCEEC
Confidence 567799984 111 11 1123457789999999999988863
No 32
>KOG0208 consensus Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=20.59 E-value=92 Score=29.34 Aligned_cols=21 Identities=14% Similarity=-0.072 Sum_probs=15.3
Q ss_pred HHHHHHHHcCCCCCCeeEEeecCCC
Q 041241 119 ALDKLFSRHGLSMSRLHRQGYDEAS 143 (145)
Q Consensus 119 ~i~~~l~~~~l~~~~~~~~~~Dgas 143 (145)
.+...|++. ..++|+|-|||+
T Consensus 843 ~Lie~lQkl----~y~VgfCGDGAN 863 (1140)
T KOG0208|consen 843 ELIEALQKL----GYKVGFCGDGAN 863 (1140)
T ss_pred HHHHHHHhc----CcEEEecCCCcc
Confidence 344555554 588999999996
No 33
>COG0215 CysS Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=20.49 E-value=1.2e+02 Score=26.01 Aligned_cols=34 Identities=6% Similarity=-0.046 Sum_probs=25.4
Q ss_pred cCCChHHHHHHhHhhcCHHHHHHHhhcCCCcccccCcc
Q 041241 6 QANERIFLSFYFLVDHNEDINAVTFDNAPENLQMTSNE 43 (145)
Q Consensus 6 ~~~gnf~~ll~l~~~~~~~l~~~~l~~~~~~~~y~S~~ 43 (145)
..-|||.-+-+++.+++|+..++++- ..+|.++-
T Consensus 271 KSLGNfiti~d~l~~~~p~~lR~~ll----s~HYR~pl 304 (464)
T COG0215 271 KSLGNFITVRDLLKKYDPEVLRLFLL----SSHYRSPL 304 (464)
T ss_pred cccCCeeEHHHHHhhcCHHHHHHHHH----HHHhCCcc
Confidence 34589999999999999987776543 25566653
No 34
>PF08811 DUF1800: Protein of unknown function (DUF1800); InterPro: IPR014917 This is an entry of large bacterial proteins of unknown function.
Probab=20.43 E-value=1.8e+02 Score=24.56 Aligned_cols=45 Identities=7% Similarity=0.041 Sum_probs=31.4
Q ss_pred cCCChHHHHHHhHhhcCHHHHHHHhhcCCC------cccccCcchHHHHHHHH
Q 041241 6 QANERIFLSFYFLVDHNEDINAVTFDNAPE------NLQMTSNEIKKDIVSCA 52 (145)
Q Consensus 6 ~~~gnf~~ll~l~~~~~~~l~~~~l~~~~~------~~~y~S~~~~~~ii~~i 52 (145)
+.-|||++|++-+++ +|.+..+ |.+... .......+.-.|+++..
T Consensus 139 ha~GnFrdLL~av~~-~PAMl~Y-Ld~~~n~~~~~~~~~~pNENyARElmELf 189 (462)
T PF08811_consen 139 HALGNFRDLLKAVAK-HPAMLIY-LDNVQNRKADPRRKRGPNENYARELMELF 189 (462)
T ss_pred hccCCHHHHHHHHhC-CHHHHHH-HCCCcCcccccccCCCCCccHHHHHHHHh
Confidence 456999999999985 6877776 654322 34556667778887643
Done!