Query 029283
Match_columns 196
No_of_seqs 159 out of 1032
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 10:25:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029283.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029283hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10678 moaE molybdopterin gu 100.0 6.9E-49 1.5E-53 319.6 18.6 136 11-146 6-142 (150)
2 COG0314 MoaE Molybdopterin con 100.0 3.9E-48 8.5E-53 314.9 17.7 138 10-147 5-143 (149)
3 cd00756 MoaE MoaE family. Memb 100.0 8.2E-47 1.8E-51 298.2 17.7 124 18-141 1-124 (124)
4 PLN02390 molybdopterin synthas 100.0 2.2E-45 4.7E-50 285.9 15.8 110 29-138 1-110 (111)
5 KOG3307 Molybdopterin converti 100.0 1.6E-45 3.5E-50 292.4 7.2 150 1-152 1-150 (150)
6 PRK14493 putative bifunctional 100.0 6E-41 1.3E-45 294.1 17.8 131 14-144 137-273 (274)
7 PF02391 MoaE: MoaE protein; 100.0 6.7E-40 1.5E-44 255.7 14.8 116 11-126 2-117 (117)
8 PRK11538 ribosome-associated p 83.4 11 0.00023 29.2 8.2 74 65-141 4-78 (105)
9 TIGR00090 iojap_ybeB iojap-lik 74.4 31 0.00067 26.1 8.2 70 68-141 3-73 (99)
10 COG1586 SpeD S-adenosylmethion 52.1 78 0.0017 26.0 7.0 77 48-127 15-115 (136)
11 PF02410 Oligomerisation: Olig 47.8 1.2E+02 0.0025 22.7 7.5 71 67-141 2-74 (100)
12 TIGR00134 gatE_arch glutamyl-t 33.6 1.7E+02 0.0038 29.4 7.5 70 50-125 298-392 (620)
13 PF00102 Y_phosphatase: Protei 31.7 2.7E+02 0.0059 22.3 7.7 66 49-127 133-202 (235)
14 COG2320 GrpB Uncharacterized c 30.7 1.8E+02 0.0039 25.0 6.2 64 54-124 18-87 (185)
15 TIGR02945 SUF_assoc FeS assemb 30.1 97 0.0021 22.6 4.1 67 20-86 6-76 (99)
16 PF04456 DUF503: Protein of un 29.6 2.4E+02 0.0052 21.0 7.4 62 64-128 21-82 (90)
17 smart00470 ParB ParB-like nucl 27.7 1.7E+02 0.0037 20.7 4.9 55 64-132 20-74 (89)
18 TIGR02159 PA_CoA_Oxy4 phenylac 25.6 93 0.002 25.3 3.5 58 28-85 2-62 (146)
19 PF02217 T_Ag_DNA_bind: Origin 24.6 1.2E+02 0.0026 23.4 3.7 51 52-112 23-73 (94)
20 cd00047 PTPc Protein tyrosine 23.8 2.6E+02 0.0057 23.0 6.0 67 47-125 126-196 (231)
21 PF05274 Baculo_E25: Occlusion 23.1 1.8E+02 0.0039 24.9 4.8 40 8-48 36-75 (182)
22 PF09035 Tn916-Xis: Excisionas 23.0 20 0.00043 25.8 -0.8 13 123-135 3-15 (67)
23 PRK14447 acylphosphatase; Prov 22.8 3.3E+02 0.0071 20.3 6.8 46 38-88 32-77 (95)
24 PF08541 ACP_syn_III_C: 3-Oxoa 21.3 79 0.0017 22.4 2.1 20 87-106 61-80 (90)
25 COG0799 Uncharacterized homolo 20.4 4.4E+02 0.0095 20.9 7.9 61 65-127 4-64 (115)
26 PRK14450 acylphosphatase; Prov 20.1 3.6E+02 0.0078 19.7 6.4 41 38-83 30-70 (91)
No 1
>PRK10678 moaE molybdopterin guanine dinucleotide biosynthesis protein MoaE; Provisional
Probab=100.00 E-value=6.9e-49 Score=319.57 Aligned_cols=136 Identities=32% Similarity=0.603 Sum_probs=129.0
Q ss_pred EEcccCCCCHHHHHHHhc-CCCccEEEEEEEEEcCCCCCeeeeEEEEEEehhhHHHHHHHHHHHHHhccCCceEEEEEEe
Q 029283 11 ILEENNPVDMTKYMTYVS-APQAGAIATFSGTTRDTFDGKIVVELRYESYVSMAIRCIKSICSLARSSWNLHSIAVAHRL 89 (196)
Q Consensus 11 i~~~~~piDl~~~~~~v~-~~~~GAIv~F~G~VR~~~~G~~V~~L~yEay~~mA~k~L~~I~~ea~~~~~l~~v~I~HR~ 89 (196)
+.++.+|||++++++.+. +|.+||+++|.|+||+.++|+.|++|+||+|+|||++.|++|+++++++|++.++.|+||+
T Consensus 6 v~it~~~id~~~~~~~~~~~~~~GAiv~F~G~VR~~~~g~~V~~L~yeay~~ma~k~l~~I~~ea~~~~~~~~v~i~HR~ 85 (150)
T PRK10678 6 IVVGPAPFSVGEEYPWLAERDEDGAVVTFTGKVRNHNLGDSVKALTLEHYPGMTEKALAEIVDEARSRWPLGRVTVIHRV 85 (150)
T ss_pred EEEEcCCCCHHHHHHHhccCCCCceEEEEEEEECCCCCCCceeEEEEEecCcHHHHHHHHHHHHHHHhCCCCcEEEEEeE
Confidence 456779999999888765 5788999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCeEEEEEeecCChHHHHHHHHHHHHHHHhcCceeeEEEecCCceeeecCcc
Q 029283 90 GPVPVGETSVFIAVSAVHRADALDACKFLIDELKASVPIWKKEVYSNGEVWKENSEF 146 (196)
Q Consensus 90 G~L~vGE~iV~VaVss~HR~eAF~A~~~iID~lK~~vPIWKkE~~~dG~~Wv~~~~~ 146 (196)
|.|+|||++|+|+|+|+||++||+||+|+||+||+++||||||+|.||++|+++++.
T Consensus 86 G~l~~Ge~~v~Vav~s~HR~~Af~A~~~~id~lK~~vPIWKkE~~~dG~~Wv~~~~~ 142 (150)
T PRK10678 86 GELWPGDEIVFVGVTSAHRSSAFEAGQFIMDYLKTRAPFWKREATPEGDRWVEARDS 142 (150)
T ss_pred ecccCCCEEEEEEEECCCHHHHHHHHHHHHHHHhhcCCeEEeEEcCCCCEEecCCcc
Confidence 999999999999999999999999999999999999999999999999999997643
No 2
>COG0314 MoaE Molybdopterin converting factor, large subunit [Coenzyme metabolism]
Probab=100.00 E-value=3.9e-48 Score=314.86 Aligned_cols=138 Identities=38% Similarity=0.731 Sum_probs=131.4
Q ss_pred EEEcccCCCCHHHHHHHhcCCC-ccEEEEEEEEEcCCCCCeeeeEEEEEEehhhHHHHHHHHHHHHHhccCCceEEEEEE
Q 029283 10 EILEENNPVDMTKYMTYVSAPQ-AGAIATFSGTTRDTFDGKIVVELRYESYVSMAIRCIKSICSLARSSWNLHSIAVAHR 88 (196)
Q Consensus 10 ~i~~~~~piDl~~~~~~v~~~~-~GAIv~F~G~VR~~~~G~~V~~L~yEay~~mA~k~L~~I~~ea~~~~~l~~v~I~HR 88 (196)
.+.++.+|||++++++.+..+. +|||++|+|+||+.++|++|..|+||+|++||+++|.+|+++++++|++.++.++||
T Consensus 5 ~~~v~~~~~~~~~~i~~~~~~~~~GAivtF~G~VR~~~~G~~v~~L~yEaY~~ma~k~l~~I~~e~~~k~~~~~v~i~Hr 84 (149)
T COG0314 5 RVAVTEEPFDVEELIEALSEPSEAGAIVTFVGIVREENDGRRVEALEYEAYPEMAEKELEEIAAEAKEKWGLLRVAIIHR 84 (149)
T ss_pred eEEEecCCCCHHHHHHHHhCcccCceEEEEEEEEecCCCCceeeeEEEecCHHHHHHHHHHHHHHHHHhCCceeEEEEEe
Confidence 4455678999999999998877 999999999999999999999999999999999999999999999999999999999
Q ss_pred eccCCCCCeEEEEEeecCChHHHHHHHHHHHHHHHhcCceeeEEEecCCceeeecCcch
Q 029283 89 LGPVPVGETSVFIAVSAVHRADALDACKFLIDELKASVPIWKKEVYSNGEVWKENSEFM 147 (196)
Q Consensus 89 ~G~L~vGE~iV~VaVss~HR~eAF~A~~~iID~lK~~vPIWKkE~~~dG~~Wv~~~~~~ 147 (196)
+|.|.|||.+|+|+|+|+||++||+||+|+||+||+++||||+|++.||+.|+..+.-.
T Consensus 85 iG~l~~Ge~~v~v~v~s~HR~~Af~a~~~~id~lK~~aPiWKkE~~~dg~~Wv~~~~~~ 143 (149)
T COG0314 85 IGELKIGEAIVLVGVASAHRKEAFEACEYIIDRLKHRAPIWKKEHTEDGERWVGDREHD 143 (149)
T ss_pred eccccCCCcEEEEEEecccHHHHHHHHHHHHHHHHhhCCceEEEecCCCCeEEeccccc
Confidence 99999999999999999999999999999999999999999999999999999876543
No 3
>cd00756 MoaE MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), which carries the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase in the second major step in Moco biosynthesis. MPT synthase is a heterotetramer consisting of two large (MoaE) and two small (MoaD) subunits.
Probab=100.00 E-value=8.2e-47 Score=298.24 Aligned_cols=124 Identities=45% Similarity=0.832 Sum_probs=121.4
Q ss_pred CCHHHHHHHhcCCCccEEEEEEEEEcCCCCCeeeeEEEEEEehhhHHHHHHHHHHHHHhccCCceEEEEEEeccCCCCCe
Q 029283 18 VDMTKYMTYVSAPQAGAIATFSGTTRDTFDGKIVVELRYESYVSMAIRCIKSICSLARSSWNLHSIAVAHRLGPVPVGET 97 (196)
Q Consensus 18 iDl~~~~~~v~~~~~GAIv~F~G~VR~~~~G~~V~~L~yEay~~mA~k~L~~I~~ea~~~~~l~~v~I~HR~G~L~vGE~ 97 (196)
||++.+++.+.+|.+||+++|+|+||+.++|++|.+|+||+|++||++.|++|+++++++|++.++.++||+|.|+|||+
T Consensus 1 id~~~~~~~~~~~~~GAiv~F~G~VR~~~~~~~v~~L~ye~y~~ma~~~l~~I~~e~~~k~~~~~v~v~HR~G~l~vGe~ 80 (124)
T cd00756 1 FDLAELLAALRDPEAGAVVTFVGTVRDHDEGKGVEALEYEAYPPMAEKELEEIAEEARERWGLLRVAIIHRVGRLPPGEA 80 (124)
T ss_pred CCHHHHHHhhhCCCCCEEEEEEEEECCCCCCCcEeEEEEEECchHHHHHHHHHHHHHHHhCCCceEEEEEEEcccCCCCE
Confidence 68889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEeecCChHHHHHHHHHHHHHHHhcCceeeEEEecCCceee
Q 029283 98 SVFIAVSAVHRADALDACKFLIDELKASVPIWKKEVYSNGEVWK 141 (196)
Q Consensus 98 iV~VaVss~HR~eAF~A~~~iID~lK~~vPIWKkE~~~dG~~Wv 141 (196)
+|+|+|+|+||++||+||+|+||+||+++||||+|+|.||+.|+
T Consensus 81 ~v~i~v~a~hR~~af~A~~~~id~lK~~~PiWKkE~~~~~~~Wv 124 (124)
T cd00756 81 IVLVAVSSPHRKEAFEACEFLIDRLKHRAPIWKKEIFEGGEEWV 124 (124)
T ss_pred EEEEEEecCCHHHHHHHHHHHHHHHHhhCCEEEEEEeCCCCEEC
Confidence 99999999999999999999999999999999999999999996
No 4
>PLN02390 molybdopterin synthase catalytic subunit
Probab=100.00 E-value=2.2e-45 Score=285.94 Aligned_cols=110 Identities=82% Similarity=1.297 Sum_probs=107.9
Q ss_pred CCCccEEEEEEEEEcCCCCCeeeeEEEEEEehhhHHHHHHHHHHHHHhccCCceEEEEEEeccCCCCCeEEEEEeecCCh
Q 029283 29 APQAGAIATFSGTTRDTFDGKIVVELRYESYVSMAIRCIKSICSLARSSWNLHSIAVAHRLGPVPVGETSVFIAVSAVHR 108 (196)
Q Consensus 29 ~~~~GAIv~F~G~VR~~~~G~~V~~L~yEay~~mA~k~L~~I~~ea~~~~~l~~v~I~HR~G~L~vGE~iV~VaVss~HR 108 (196)
+|++||+++|.|+||+.++|++|..|+||+|+|||++.|++|++++.++|++.++.|+||+|.|+|||++|+|+|+|+||
T Consensus 1 ~~~~GAiv~F~G~VR~~~~g~~V~~L~yeay~~ma~~~l~~I~~e~~~~~~~~~v~i~HR~G~l~vge~~v~v~v~s~HR 80 (111)
T PLN02390 1 DPQAGAIATFSGTTRDTFEGKTVLELRYEAYVPMALRELRKICDEARSRWSLHKIAVAHRLGPVPVGETSVFVAVSSVHR 80 (111)
T ss_pred CCCceEEEEEEEEECCCCCCCcEeeEEEEEcHHHHHHHHHHHHHHHHHhCCCceEEEEEeeecccCCCEEEEEEEECCCH
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcCceeeEEEecCCc
Q 029283 109 ADALDACKFLIDELKASVPIWKKEVYSNGE 138 (196)
Q Consensus 109 ~eAF~A~~~iID~lK~~vPIWKkE~~~dG~ 138 (196)
++||+||+|+||+||+++||||||+|.||+
T Consensus 81 ~~Af~A~~~~id~lK~~vPIWKkE~~~dG~ 110 (111)
T PLN02390 81 ADALDACKFLIDELKASVPIWKKEVYDDGE 110 (111)
T ss_pred HHHHHHHHHHHHHHhhcCCEEEeeecCCCC
Confidence 999999999999999999999999999986
No 5
>KOG3307 consensus Molybdopterin converting factor subunit 2 [Coenzyme transport and metabolism]
Probab=100.00 E-value=1.6e-45 Score=292.38 Aligned_cols=150 Identities=52% Similarity=0.802 Sum_probs=142.5
Q ss_pred CCCcccceEEEEcccCCCCHHHHHHHhcCCCccEEEEEEEEEcCCCCCeeeeEEEEEEehhhHHHHHHHHHHHHHhccCC
Q 029283 1 MAGEDRTLVEILEENNPVDMTKYMTYVSAPQAGAIATFSGTTRDTFDGKIVVELRYESYVSMAIRCIKSICSLARSSWNL 80 (196)
Q Consensus 1 ~~~~~~~~v~i~~~~~piDl~~~~~~v~~~~~GAIv~F~G~VR~~~~G~~V~~L~yEay~~mA~k~L~~I~~ea~~~~~l 80 (196)
|..+++++++|+. +-++++.+-+.+++|.+|||.+|+|++|+.++|+.|..|+||+|.|||.+.|+.|+.++++.|++
T Consensus 1 ~~~~~k~~I~~~~--E~~~VdvV~qlVs~P~cGAIstF~GtTRdnfeGk~V~~L~Yeay~pMA~~~lr~IC~~iR~~wpv 78 (150)
T KOG3307|consen 1 MSAEEKNLIEILE--EGHKVDVVDQLVSHPSCGAISTFNGTTRDNFEGKDVSNLSYEAYDPMAYKKLRGICAEIRAEWPV 78 (150)
T ss_pred CchhhhhHHHHHH--hccchhHHHHHhcCCcccceeeeccccccccCCceeeeeehhhhcHHHHHHHHHHHHHHHhhCch
Confidence 5678888888865 67777777788999999999999999999999999999999999999999999999999999999
Q ss_pred ceEEEEEEeccCCCCCeEEEEEeecCChHHHHHHHHHHHHHHHhcCceeeEEEecCCceeeecCcchhhhhc
Q 029283 81 HSIAVAHRLGPVPVGETSVFIAVSAVHRADALDACKFLIDELKASVPIWKKEVYSNGEVWKENSEFMERRLD 152 (196)
Q Consensus 81 ~~v~I~HR~G~L~vGE~iV~VaVss~HR~eAF~A~~~iID~lK~~vPIWKkE~~~dG~~Wv~~~~~~~~~~~ 152 (196)
.++++.||+|.+++||.+|+|+|||+||..+++||+++||.||..+||||||.|+.++.|++|.+|+.+|++
T Consensus 79 kkIAvfHRLG~VpvgEsSviIavSS~HRa~~l~A~~~~ID~LKa~vPIwKkE~Ye~~~vWK~N~E~~~~~~~ 150 (150)
T KOG3307|consen 79 KKIAVFHRLGKVPVGESSVIIAVSSPHRATALQATEKCIDLLKAHVPIWKKEEYEVDGVWKSNIEDSKQRLE 150 (150)
T ss_pred hhhhhhhhccCcccCcceEEEEecChhhHHHHHHHHHHHHHHHhcCCcccceeeecCccccccHHHHHhhcC
Confidence 999999999999999999999999999999999999999999999999999999999999999999998864
No 6
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=100.00 E-value=6e-41 Score=294.14 Aligned_cols=131 Identities=33% Similarity=0.465 Sum_probs=122.9
Q ss_pred ccCCCCHHHHHHHhcC----CCccEEEEEEEEEc--CCCCCeeeeEEEEEEehhhHHHHHHHHHHHHHhccCCceEEEEE
Q 029283 14 ENNPVDMTKYMTYVSA----PQAGAIATFSGTTR--DTFDGKIVVELRYESYVSMAIRCIKSICSLARSSWNLHSIAVAH 87 (196)
Q Consensus 14 ~~~piDl~~~~~~v~~----~~~GAIv~F~G~VR--~~~~G~~V~~L~yEay~~mA~k~L~~I~~ea~~~~~l~~v~I~H 87 (196)
+++|||++.+++.+.. +.+||+++|.|+|| +.++|+.|+.|+|++|++||+++|++|+++++++|++.++.++|
T Consensus 137 ~~~~l~~~~li~~~~~~~~~~~~GAi~~F~G~VR~r~~~~g~~v~~L~ye~y~~~A~~~l~~I~~e~~~~~~~~~v~v~H 216 (274)
T PRK14493 137 QPPYVTLESLVAKVKRSPDADKAGAIATFTGRVRAKEDADDEPTEYLEFEKYDGVADERMAAIREELKQRDGVFEVLLHH 216 (274)
T ss_pred cCCCCCHHHHHHHHhccCCCCCCcEEEEEEeEEEccccCCCCcEEEEEEEeCCHHHHHHHHHHHHHHHHhCCCceEEEEE
Confidence 4567889888888764 45699999999999 66678999999999999999999999999999999999999999
Q ss_pred EeccCCCCCeEEEEEeecCChHHHHHHHHHHHHHHHhcCceeeEEEecCCceeeecC
Q 029283 88 RLGPVPVGETSVFIAVSAVHRADALDACKFLIDELKASVPIWKKEVYSNGEVWKENS 144 (196)
Q Consensus 88 R~G~L~vGE~iV~VaVss~HR~eAF~A~~~iID~lK~~vPIWKkE~~~dG~~Wv~~~ 144 (196)
|+|.|+|||+||+|+|+|+||++||+||+|+||+||+++||||||+|.||+.|++..
T Consensus 217 r~G~l~vge~~v~v~v~a~hR~~af~a~~~~id~lK~~~piwK~e~~~~g~~Wv~~~ 273 (274)
T PRK14493 217 RTGVIEAGEDIVFVVVLAGHRQEAFRAVSDGIDRLKDEVPIFKKEVTVDEEFWVHDR 273 (274)
T ss_pred eeccccCCCeEEEEEEecCCHHHHHHHHHHHHHHHhhcCCeEEEEEcCCCCEeecCC
Confidence 999999999999999999999999999999999999999999999999999999875
No 7
>PF02391 MoaE: MoaE protein; InterPro: IPR003448 This family contains the MoaE protein that is involved in biosynthesis of molybdopterin []. Molybdopterin, the universal component of the pterin molybdenum cofactors, contains a dithiolene group serving to bind Mo. Addition of the dithiolene sulphurs to a molybdopterin precursor requires the activity of the converting factor. Converting factor contains the MoaE and MoaD proteins.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 2WP4_B 2OMD_B 1NVJ_E 1FM0_E 3BII_E 1NVI_E 1FMA_E 2QIE_K 2Q5W_E 3RPF_A ....
Probab=100.00 E-value=6.7e-40 Score=255.74 Aligned_cols=116 Identities=39% Similarity=0.692 Sum_probs=105.6
Q ss_pred EEcccCCCCHHHHHHHhcCCCccEEEEEEEEEcCCCCCeeeeEEEEEEehhhHHHHHHHHHHHHHhccCCceEEEEEEec
Q 029283 11 ILEENNPVDMTKYMTYVSAPQAGAIATFSGTTRDTFDGKIVVELRYESYVSMAIRCIKSICSLARSSWNLHSIAVAHRLG 90 (196)
Q Consensus 11 i~~~~~piDl~~~~~~v~~~~~GAIv~F~G~VR~~~~G~~V~~L~yEay~~mA~k~L~~I~~ea~~~~~l~~v~I~HR~G 90 (196)
|.++.+|||+++++++++++.+||+++|+|+||+.++|++|+.|+|++|++||++.|++|+++++++|++..+.|+||+|
T Consensus 2 v~i~~~~i~~~~~~~~~~~~~~Gai~~F~G~VR~~~~~~~v~~L~ye~y~~ma~~~l~~I~~e~~~~~~~~~v~i~HR~G 81 (117)
T PF02391_consen 2 VRITEEPIDVDELIEKVRDPEAGAIVIFNGIVRNHSDGKKVEALEYEAYEEMAEKELEEIAEEARERFGIVDVAIVHRVG 81 (117)
T ss_dssp EEEESS---HHHHHHHHCHTTT-EEEEEEEE--CCCTCCCEEEEEEEE-HHHHHHHHHHHHHHHHHHSTTCEEEEEEEEE
T ss_pred EEEEcCCCCHHHHHHHhcCCCCceEEEEEEEECCCCCCccEEEEEEEEccHHHHHHHHHHHHHHHHhCCCeEEEEEEeeC
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCeEEEEEeecCChHHHHHHHHHHHHHHHhcC
Q 029283 91 PVPVGETSVFIAVSAVHRADALDACKFLIDELKASV 126 (196)
Q Consensus 91 ~L~vGE~iV~VaVss~HR~eAF~A~~~iID~lK~~v 126 (196)
.|+|||++|+|+|+|+||++||+||+|+||+||++|
T Consensus 82 ~l~vGe~~v~V~vsa~hR~eaf~A~~~~id~iK~~V 117 (117)
T PF02391_consen 82 RLKVGEPIVLVAVSAPHRKEAFEACEYIIDRIKKEV 117 (117)
T ss_dssp EEETTSEEEEEEEEESSHHHHHHHHHHHHHHHHHHS
T ss_pred CCCCCCeEEEEEEecCCHHHHHHHHHHHHHHHhhcC
Confidence 999999999999999999999999999999999986
No 8
>PRK11538 ribosome-associated protein; Provisional
Probab=83.45 E-value=11 Score=29.16 Aligned_cols=74 Identities=11% Similarity=0.172 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHhccCCceEEEEEEeccCCCCCeEEEEEeecCChHHHHHHHHHHHHHHHhc-CceeeEEEecCCceee
Q 029283 65 RCIKSICSLARSSWNLHSIAVAHRLGPVPVGETSVFIAVSAVHRADALDACKFLIDELKAS-VPIWKKEVYSNGEVWK 141 (196)
Q Consensus 65 k~L~~I~~ea~~~~~l~~v~I~HR~G~L~vGE~iV~VaVss~HR~eAF~A~~~iID~lK~~-vPIWKkE~~~dG~~Wv 141 (196)
+++.+++-++...-...++.++.--|.-..-| .+|.+++......-..++++.+.+|.. .+....| ..+++.|+
T Consensus 4 ~~~~~~i~~~l~dkKa~DI~vlDv~~~~~~~D--y~VIatg~S~rh~~aia~~v~~~~k~~~~~~~~~e-G~~~~~Wi 78 (105)
T PRK11538 4 KALQDFVIDKIDDLKGQDIIALDVQGKSSITD--CMIICTGTSSRHVMSIADHVVQESRAAGLLPLGVE-GENAADWI 78 (105)
T ss_pred HHHHHHHHHHHHHcCCCCeEEEECCCCCcccC--EEEEEEeCCHHHHHHHHHHHHHHHHHcCCCCCccc-CCCCCCEE
Confidence 44555555555555677888877677767776 667777788888888899999999864 3333444 12234786
No 9
>TIGR00090 iojap_ybeB iojap-like ribosome-associated protein. This model describes a widely distributed family of bacterial proteins related to iojap from plants. It includes YbeB from E. coli. The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells. More recent work in bacteria suggests that the bacterial iojap-related protein physically associates with ribosomes. The function remains unknown.
Probab=74.42 E-value=31 Score=26.05 Aligned_cols=70 Identities=16% Similarity=0.178 Sum_probs=47.9
Q ss_pred HHHHHHHHhccCCceEEEEEEeccCCCCCeEEEEEeecCChHHHHHHHHHHHHHHHhc-CceeeEEEecCCceee
Q 029283 68 KSICSLARSSWNLHSIAVAHRLGPVPVGETSVFIAVSAVHRADALDACKFLIDELKAS-VPIWKKEVYSNGEVWK 141 (196)
Q Consensus 68 ~~I~~ea~~~~~l~~v~I~HR~G~L~vGE~iV~VaVss~HR~eAF~A~~~iID~lK~~-vPIWKkE~~~dG~~Wv 141 (196)
+.|++-+.++ ...++.++---+.-...| .+|.+++......-..++.+.+.+|.. .+.+..|- .++..|+
T Consensus 3 ~~i~~~l~~k-ka~dI~vldv~~~~~~~d--y~VI~Tg~S~rh~~aia~~v~~~~k~~~~~~~~~EG-~~~~~Wi 73 (99)
T TIGR00090 3 ELIVEALDDK-KAEDIVVLDVRGKSSIAD--YFVIASGTSSRHVKAIADNVEEELKEAGLKPLGVEG-LEEGDWV 73 (99)
T ss_pred HHHHHHHHHc-CCCCEEEEECCCCCcccC--EEEEEEeCCHHHHHHHHHHHHHHHHHcCCCcccccC-CCCCCEE
Confidence 3344444444 347788887777777887 678888888999999999999999863 33345452 2234686
No 10
>COG1586 SpeD S-adenosylmethionine decarboxylase [Amino acid transport and metabolism]
Probab=52.10 E-value=78 Score=25.96 Aligned_cols=77 Identities=19% Similarity=0.282 Sum_probs=54.0
Q ss_pred CeeeeEEEEEEehhh--HHHHHHHHHHHHHhccCCceEEEE-EEeccCCCCCeEEEEEeecCC-----------------
Q 029283 48 GKIVVELRYESYVSM--AIRCIKSICSLARSSWNLHSIAVA-HRLGPVPVGETSVFIAVSAVH----------------- 107 (196)
Q Consensus 48 G~~V~~L~yEay~~m--A~k~L~~I~~ea~~~~~l~~v~I~-HR~G~L~vGE~iV~VaVss~H----------------- 107 (196)
|+.|-.--|...+.. -...|++|..+|...-+..-+.+. |+.+ |+=.+++|.++=.|
T Consensus 15 G~hi~~~lyg~d~~~l~d~e~l~~i~~eAa~~~gati~~~~~~~f~---p~GvSgvvliaESHitiHTwPEyg~A~iDVy 91 (136)
T COG1586 15 GKHIYGELYGCDIDLLYDAERLEEILLEAAKIAGATILNIAFHKFS---PQGVSGVVLIAESHITIHTWPEYGYATIDVY 91 (136)
T ss_pred eeeeeeehhcCCHHHhccHHHHHHHHHHHHHHhCCEEEEEEeEEec---CCCeEEEEEEEeeeeeEecCCccCceEEEEE
Confidence 334444444444333 246788899999998887765554 7777 77778887777665
Q ss_pred ----hHHHHHHHHHHHHHHHhcCc
Q 029283 108 ----RADALDACKFLIDELKASVP 127 (196)
Q Consensus 108 ----R~eAF~A~~~iID~lK~~vP 127 (196)
..+...|.+|+++.||.+--
T Consensus 92 TCG~~~~p~~A~~yi~~~L~p~~v 115 (136)
T COG1586 92 TCGDHIDPLKAFNYLVEQLKPKRV 115 (136)
T ss_pred ccCCCCCHHHHHHHHHHHhCCcEE
Confidence 46889999999999997643
No 11
>PF02410 Oligomerisation: Oligomerisation domain; InterPro: IPR004394 The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells. Maize has two RNA polymerases in plastids, but the plastid-encoded one, similar to bacterial RNA polymerases, is missing in iojap mutants. The role of iojap in chloroplast development, and the role of its bacterial orthologs modeled here, is unclear [, ]. This entry contains the bacterial protein YbeB (P0AAT6 from SWISSPROT), which has been shown to comigrate with the mature 50S ribosome subunit. Therefore it either represents a novel ribosome-associated protein or it is associated with a different oligomeric complex that comigrates with ribosomal particles [].; PDB: 2O5A_A 2ID1_B 3UPS_A.
Probab=47.82 E-value=1.2e+02 Score=22.73 Aligned_cols=71 Identities=13% Similarity=0.092 Sum_probs=42.6
Q ss_pred HHHHHHHHHhccCCceEEEEEEeccCCCCCeEEEEEeecCChHHHHHHHHHHHHHH-Hhc-CceeeEEEecCCceee
Q 029283 67 IKSICSLARSSWNLHSIAVAHRLGPVPVGETSVFIAVSAVHRADALDACKFLIDEL-KAS-VPIWKKEVYSNGEVWK 141 (196)
Q Consensus 67 L~~I~~ea~~~~~l~~v~I~HR~G~L~vGE~iV~VaVss~HR~eAF~A~~~iID~l-K~~-vPIWKkE~~~dG~~Wv 141 (196)
++.|++-+.++.+ .++.++.--+.-...| .+|.+++..-...-.+++.+.+.+ |.. .+....|-. +++.|+
T Consensus 2 ~~~i~~~l~~~k~-~dI~v~dv~~~~~~~d--y~II~T~~S~rh~~aia~~v~~~~~k~~~~~~~~~eG~-~~~~W~ 74 (100)
T PF02410_consen 2 LEEIVEALEDKKA-EDIVVLDVREKSSWAD--YFIIATGRSERHVRAIADEVEKALKKEYGERPLRIEGL-DESDWV 74 (100)
T ss_dssp HHHHHHHHHHTT--EEEEEEEGCTTBSS-S--EEEEEEESSHHHHHHHHHHHHHHH-HHTT----EEEST-TTTSEE
T ss_pred HHHHHHHHHHcCC-CCeEEEECCCCCcccC--EEEEEEcCCHHHHHHHHHHHHHHHHHHcCCcccccCCC-CCCCEE
Confidence 4555655556654 8888887666555555 455556666777888899999999 432 344465522 345786
No 12
>TIGR00134 gatE_arch glutamyl-tRNA(Gln) amidotransferase, subunit E. The Archaea have an Asp-tRNA(Asn) amidotransferase instead of an Asp--tRNA ligase, but the genes have not been identified. It is likely that this protein replaces gatB in Asp-tRNA(Asn) amidotransferase but that both enzymes share gatA.
Probab=33.55 E-value=1.7e+02 Score=29.35 Aligned_cols=70 Identities=16% Similarity=0.145 Sum_probs=48.6
Q ss_pred eeeEEEEEEehhhHHHHH-------HHHHHHHHhccCCceEEEEEEec------------------cCCCCCeEEEEEee
Q 029283 50 IVVELRYESYVSMAIRCI-------KSICSLARSSWNLHSIAVAHRLG------------------PVPVGETSVFIAVS 104 (196)
Q Consensus 50 ~V~~L~yEay~~mA~k~L-------~~I~~ea~~~~~l~~v~I~HR~G------------------~L~vGE~iV~VaVs 104 (196)
.|.+|.+.-...+..+++ .++.+.++ .+|...+.-. -+ .+..||.+++++
T Consensus 298 ~VkaI~vpg~~~lsrkei~pgrr~gdeL~e~aK-~~GakGL~~~--delp~~~it~eev~~L~e~l~ak~GD~ll~vA-- 372 (620)
T TIGR00134 298 SVKAVLLRGFDGLVGVEIQPGRRLGTEFADYAK-KRGVGGIFHT--DELPAYGITEEEVRGLRDAVGAEQGDAVVMVA-- 372 (620)
T ss_pred eEEEEEcCCCcccchhhhcccccchHHHHHHHH-HcCCCceEee--cccccCCCCHHHHHHHHHHhCCCCCCEEEEEc--
Confidence 466666665556777777 56666665 5676665332 22 134788887776
Q ss_pred cCChHHHHHHHHHHHHHHHhc
Q 029283 105 AVHRADALDACKFLIDELKAS 125 (196)
Q Consensus 105 s~HR~eAF~A~~~iID~lK~~ 125 (196)
.....+..|+.-+++|.|..
T Consensus 373 -dk~~~v~~aL~~v~~R~ke~ 392 (620)
T TIGR00134 373 -HERVTVERALREVIERAKMA 392 (620)
T ss_pred -CcHHHHHHHHHHHHhhhhhh
Confidence 56688999999999999975
No 13
>PF00102 Y_phosphatase: Protein-tyrosine phosphatase; InterPro: IPR000242 Protein tyrosine (pTyr) phosphorylation is a common post-translational modification which can create novel recognition motifs for protein interactions and cellular localisation, affect protein stability, and regulate enzyme activity. Consequently, maintaining an appropriate level of protein tyrosine phosphorylation is essential for many cellular functions. Tyrosine-specific protein phosphatases (PTPase; 3.1.3.48 from EC) catalyse the removal of a phosphate group attached to a tyrosine residue, using a cysteinyl-phosphate enzyme intermediate. These enzymes are key regulatory components in signal transduction pathways (such as the MAP kinase pathway) and cell cycle control, and are important in the control of cell growth, proliferation, differentiation and transformation [, ]. The PTP superfamily can be divided into four subfamilies []: (1) pTyr-specific phosphatases (2) dual specificity phosphatases (dTyr and dSer/dThr) (3) Cdc25 phosphatases (dTyr and/or dThr) (4) LMW (low molecular weight) phosphatases Based on their cellular localisation, PTPases are also classified as: Receptor-like, which are transmembrane receptors that contain PTPase domains [] Non-receptor (intracellular) PTPases [] All PTPases carry the highly conserved active site motif C(X)5R (PTP signature motif), employ a common catalytic mechanism, and share a similar core structure made of a central parallel beta-sheet with flanking alpha-helices containing a beta-loop-alpha-loop that encompasses the PTP signature motif []. Functional diversity between PTPases is endowed by regulatory domains and subunits. This entry repesents several receptor and non-receptor protein-tyrosine phosphatases. Structurally, all known receptor PTPases, are made up of a variable length extracellular domain, followed by a transmembrane region and a C-terminal catalytic cytoplasmic domain. Some of the receptor PTPases contain fibronectin type III (FN-III) repeats, immunoglobulin-like domains, MAM domains or carbonic anhydrase-like domains in their extracellular region. The cytoplasmic region generally contains two copies of the PTPase domain. The first seems to have enzymatic activity, while the second is inactive. The inactive domains of tandem phosphatases can be divided into two classes. Those which bind phosphorylated tyrosine residues may recruit multi-phosphorylated substrates for the adjacent active domains and are more conserved, while the other class have accumulated several variable amino acid substitutions and have a complete loss of tyrosine binding capability. The second class shows a release of evolutionary constraint for the sites around the catalytic centre, which emphasises a difference in function from the first group. There is a region of higher conservation common to both classes, suggesting a new regulatory centre []. PTPase domains consist of about 300 amino acids. There are two conserved cysteines, the second one has been shown to be absolutely required for activity. Furthermore, a number of conserved residues in its immediate vicinity have also been shown to be important.; GO: 0004725 protein tyrosine phosphatase activity, 0006470 protein dephosphorylation; PDB: 3O4T_A 3O4S_A 3O4U_A 2A3K_A 2QDP_A 2QDC_A 2QDM_A 2HVL_A 1ZC0_A 3D44_A ....
Probab=31.70 E-value=2.7e+02 Score=22.32 Aligned_cols=66 Identities=17% Similarity=0.164 Sum_probs=46.7
Q ss_pred eeeeEEEEEEehhh----HHHHHHHHHHHHHhccCCceEEEEEEeccCCCCCeEEEEEeecCChHHHHHHHHHHHHHHHh
Q 029283 49 KIVVELRYESYVSM----AIRCIKSICSLARSSWNLHSIAVAHRLGPVPVGETSVFIAVSAVHRADALDACKFLIDELKA 124 (196)
Q Consensus 49 ~~V~~L~yEay~~m----A~k~L~~I~~ea~~~~~l~~v~I~HR~G~L~vGE~iV~VaVss~HR~eAF~A~~~iID~lK~ 124 (196)
+.+..+.|...+.. -...+-.+.+.+.+.. -...-++++.-..+..|.-+|-|+..+++.+++
T Consensus 133 ~~v~~~~~~~W~~~~~P~~~~~~~~~~~~v~~~~-------------~~~~~pivVhc~~G~gRsg~f~~~~~~~~~~~~ 199 (235)
T PF00102_consen 133 RTVTHFHYTNWPDDGVPPSPESFLDFIRKVNKSK-------------DDPNGPIVVHCSDGVGRSGTFCAIDILIEQLKK 199 (235)
T ss_dssp EEEEEEEEESSSSSSSGSSSHHHHHHHHHHHHHH-------------STTSSEEEEESSSSSHHHHHHHHHHHHHHHHHH
T ss_pred ccccceeeeeccccccccccchhhhhhhhccccc-------------cCCccceEeecccccccccccccchhhcccccc
Confidence 46777778766521 1345556666666665 445556666666899999999999999999998
Q ss_pred cCc
Q 029283 125 SVP 127 (196)
Q Consensus 125 ~vP 127 (196)
.-+
T Consensus 200 ~~~ 202 (235)
T PF00102_consen 200 EGE 202 (235)
T ss_dssp HSE
T ss_pred ccc
Confidence 544
No 14
>COG2320 GrpB Uncharacterized conserved protein [Function unknown]
Probab=30.74 E-value=1.8e+02 Score=25.01 Aligned_cols=64 Identities=20% Similarity=0.243 Sum_probs=47.2
Q ss_pred EEEEEehhhHHHHHHHHHHHHHhccCCceEEEEEEeccCCCCC------eEEEEEeecCChHHHHHHHHHHHHHHHh
Q 029283 54 LRYESYVSMAIRCIKSICSLARSSWNLHSIAVAHRLGPVPVGE------TSVFIAVSAVHRADALDACKFLIDELKA 124 (196)
Q Consensus 54 L~yEay~~mA~k~L~~I~~ea~~~~~l~~v~I~HR~G~L~vGE------~iV~VaVss~HR~eAF~A~~~iID~lK~ 124 (196)
++|..|+|-.-.++.++.+.++.-.|...+.|-| +|.-.|.= .=|++.+ +.++++.++-|.|+.
T Consensus 18 v~l~p~dp~W~~~f~re~~rl~~a~g~~~l~veH-IGSTAVpgl~aKpiiDILv~v------~~l~~a~~~~~~l~~ 87 (185)
T COG2320 18 IELVPDDPAWPDEFLREAARLRIALGLPALRVEH-IGSTAVPGLPAKPIIDILVVV------ESLDAADELAEPLSA 87 (185)
T ss_pred eeeecCChhhHHHHHHHHHHHHHHhCCcccceee-ecccCcCCcccccceeEEEee------cchhhHHHHhhHHHh
Confidence 5788899999999999999999999999999888 88755431 1123333 666677666666654
No 15
>TIGR02945 SUF_assoc FeS assembly SUF system protein. Members of this family belong to the broader Pfam family pfam01883, or Domain of Unknown Function DUF59. Many members of DUF59 are candidate ring hydroxylating complex subunits. However, members of the narrower family defined here all are found in genomes that carry the FeS assembly SUF system. For 70 % of these species, the member of this protein family is found as part of the SUF locus, usually immediately downstream of the sufS gene.
Probab=30.06 E-value=97 Score=22.65 Aligned_cols=67 Identities=13% Similarity=0.075 Sum_probs=37.9
Q ss_pred HHHHHHHhcCCCccEEEEEEEEEcCCC--C-CeeeeEEEEEEehhhHHHHHHHHHHHHHhc-cCCceEEEE
Q 029283 20 MTKYMTYVSAPQAGAIATFSGTTRDTF--D-GKIVVELRYESYVSMAIRCIKSICSLARSS-WNLHSIAVA 86 (196)
Q Consensus 20 l~~~~~~v~~~~~GAIv~F~G~VR~~~--~-G~~V~~L~yEay~~mA~k~L~~I~~ea~~~-~~l~~v~I~ 86 (196)
+.+.+..+.+|..|.=+.=.|.|++.. + |.-...|.+.....-....|..-+.++... .|+..+.+-
T Consensus 6 I~~~L~~v~dP~l~~~lv~~g~V~~i~v~~~~~v~i~l~l~~p~~~~~~~l~~~i~~al~~l~gv~~v~v~ 76 (99)
T TIGR02945 6 VIEALKTVYDPEIPVNIYELGLIYDIDVDDDGHVDIQMTLTAPNCPVAGSMPGEVENAVRAVPGVGSVTVE 76 (99)
T ss_pred HHHHHcCCCCCCCCCCeecCCCeeEEEECCCCeEEEEEEECCCCCChHHHHHHHHHHHHHhCCCCceEEEE
Confidence 344555667888776555557787644 2 433344555433333455566666665555 567766654
No 16
>PF04456 DUF503: Protein of unknown function (DUF503); InterPro: IPR007546 This is a family of conserved hypothetical bacterial proteins, including TT1725 from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579), which has a ferredoxin-like alpha+beta-sandwich fold [].; PDB: 1J27_A.
Probab=29.58 E-value=2.4e+02 Score=21.03 Aligned_cols=62 Identities=18% Similarity=0.136 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHhccCCceEEEEEEeccCCCCCeEEEEEeecCChHHHHHHHHHHHHHHHhcCce
Q 029283 64 IRCIKSICSLARSSWNLHSIAVAHRLGPVPVGETSVFIAVSAVHRADALDACKFLIDELKASVPI 128 (196)
Q Consensus 64 ~k~L~~I~~ea~~~~~l~~v~I~HR~G~L~vGE~iV~VaVss~HR~eAF~A~~~iID~lK~~vPI 128 (196)
++.++.|.+.++.+|++.-..+-|. =......+-+++-|..|..+-.-++.+++.|-...++
T Consensus 21 R~vvksl~~klr~rfnvSvaEv~~~---D~~q~a~lg~a~vs~~~~~~~~~l~~v~~~ie~~~~~ 82 (90)
T PF04456_consen 21 RQVVKSLIDKLRNRFNVSVAEVGHQ---DSWQRAVLGFAVVSNSRAHAEQILDKVERFIEENPDA 82 (90)
T ss_dssp HHHHHHHHHHHHHHSS-EEEEEE-T---T-SSEEEEEEEEEES-HHHHHHHHHHHHHHHHHS-SS
T ss_pred HHHHHHHHHHHHhhCCeEEEEecCC---CcccEEEEEEEEEECCHHHHHHHHHHHHHHHHhCCCE
Confidence 4678889999999999876665431 2334567778899999999999999999999666554
No 17
>smart00470 ParB ParB-like nuclease domain. Plasmid RK2 ParB preferentially cleaves single-stranded DNA. ParB also nicks supercoiled plasmid DNA preferably at sites with potential single-stranded character, like AT-rich regions and sequences that can form cruciform structures. ParB also exhibits 5--3 exonuclease activity.
Probab=27.74 E-value=1.7e+02 Score=20.68 Aligned_cols=55 Identities=11% Similarity=0.181 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHhccCCceEEEEEEeccCCCCCeEEEEEeecCChHHHHHHHHHHHHHHHhcCceeeEE
Q 029283 64 IRCIKSICSLARSSWNLHSIAVAHRLGPVPVGETSVFIAVSAVHRADALDACKFLIDELKASVPIWKKE 132 (196)
Q Consensus 64 ~k~L~~I~~ea~~~~~l~~v~I~HR~G~L~vGE~iV~VaVss~HR~eAF~A~~~iID~lK~~vPIWKkE 132 (196)
...++.+++.+++. |+..=.++.+.+ | -+..+.+-||-.|+..+. ..++|.+-.+
T Consensus 20 ~~~~~~l~~si~~~-G~~~Pi~v~~~~----g---~~~vidG~~R~~A~~~lg------~~~ip~~v~~ 74 (89)
T smart00470 20 EESLEELAESIKEN-GLLQPIIVRPND----G---RYEIIDGERRLRAAKLLG------LKEVPVIVRD 74 (89)
T ss_pred HHHHHHHHHHHHHh-CCccCeEEEecC----C---cEEEEeCHHHHHHHHHcC------CCceeEEEEc
Confidence 57788888877775 554545555554 4 378889999998887665 4567776555
No 18
>TIGR02159 PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=25.60 E-value=93 Score=25.32 Aligned_cols=58 Identities=19% Similarity=0.164 Sum_probs=30.3
Q ss_pred cCCCcc-EEEEEEEEEcCCC--CCeeeeEEEEEEehhhHHHHHHHHHHHHHhccCCceEEE
Q 029283 28 SAPQAG-AIATFSGTTRDTF--DGKIVVELRYESYVSMAIRCIKSICSLARSSWNLHSIAV 85 (196)
Q Consensus 28 ~~~~~G-AIv~F~G~VR~~~--~G~~V~~L~yEay~~mA~k~L~~I~~ea~~~~~l~~v~I 85 (196)
.+|..| --+.=.|.||+.. +++-...|.+.....-+...|++-++++.+..|+..+.|
T Consensus 2 ~DPEi~~~sIvdLG~Vr~V~v~gd~V~VtIt~Ty~gcpa~e~L~~~I~~aL~~~Gv~~V~V 62 (146)
T TIGR02159 2 PDPEIPVVSVTDLGMVREVDVDGGGVVVKFTPTYSGCPALEVIRQDIRDAVRALGVEVVEV 62 (146)
T ss_pred cCCCCCCCCchhcCCeeEEEEECCEEEEEEEeCCCCCchHHHHHHHHHHHHHhcCCCeEEE
Confidence 345556 2233348888654 444334455543322355566665555555556665555
No 19
>PF02217 T_Ag_DNA_bind: Origin of replication binding protein; InterPro: IPR003133 The group of polyomaviruses is formed by the homonymous murine virus (Py) as well as other representative members such as the simian virus 40 (SV40) and the human BK and JC viruses []. Their large T antigen (T-ag) protein binds to and activates DNA replication from the origin of DNA replication (ori). Insofar as is known, the T-ag binds to the origin first as a monomer to its pentanucleotide recognition element. The monomers are then thought to assemble into hexamers and double hexamers, which constitute the form that is active in initiation of DNA replication. When bound to the ori, T-ag double hexamers encircle DNA []. T-ag is a multidomain protein that contains an N-terminal J domain, which mediates protein interactions (see PDOC00553 from PROSITEDOC, IPR001623 from INTERPRO), a central origin-binding domain (OBD), and a C-terminal superfamily 3 helicase domain (see PDOC51206 from PROSITEDOC, IPR010932 from INTERPRO) []. This entry represents the central origin-binding domain (OBD). The overall fold of the ~130-residue T-ag OBD can be described as a central five-stranded antiparallel beta-sheet flanked by two alpha-helices on one side and one alpha-helix and one 3(10)-helix on the other. Both faces of the central beta-sheet are largely hydrophobic and are protected from solvent by the helices, thus forming two hydrophobic cores []. The T-ag OBD molecules are arranged as a spiral with a left-handed twist having six T-ag OBD's per turn. The spiral surrounds a central channel, the inner wall of which consists of alpha helices []. ; GO: 0003688 DNA replication origin binding, 0006260 DNA replication; PDB: 2IPR_B 2ITL_B 1Z1D_B 2FUF_A 2TBD_A 3QK2_A 2ITJ_A 2IF9_A 2NL8_A 2NTC_A ....
Probab=24.63 E-value=1.2e+02 Score=23.42 Aligned_cols=51 Identities=16% Similarity=0.208 Sum_probs=39.3
Q ss_pred eEEEEEEehhhHHHHHHHHHHHHHhccCCceEEEEEEeccCCCCCeEEEEEeecCChHHHH
Q 029283 52 VELRYESYVSMAIRCIKSICSLARSSWNLHSIAVAHRLGPVPVGETSVFIAVSAVHRADAL 112 (196)
Q Consensus 52 ~~L~yEay~~mA~k~L~~I~~ea~~~~~l~~v~I~HR~G~L~vGE~iV~VaVss~HR~eAF 112 (196)
..|-|+.. ++++.+-..+.++|....... |..+ ++.++++...++||-.|.
T Consensus 23 ~fliyTT~-----eK~~~Ly~kl~~kf~~~f~~~-~~~~----~~~~l~~it~~khRVSAv 73 (94)
T PF02217_consen 23 CFLIYTTK-----EKAEQLYKKLLEKFKPTFISR-HKWE----EGGALFFITPGKHRVSAV 73 (94)
T ss_dssp EEEEEEEH-----HHHHHHHHHCHHHCTECEEEE-EEET----TEEEEEEEEEEEEEHHHH
T ss_pred eEEEEEcH-----HHHHHHHHHHHHhcCCcEEEE-EEec----CCcEEEEEcCCCcchHHH
Confidence 45778775 466778888889999888766 5554 667799999999998774
No 20
>cd00047 PTPc Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr (pTyr) residues, instead of pSer or pThr. This family has a distinctive active site signature motif, HCSAGxGRxG. Characterized as either transmembrane, receptor-like or non-transmembrane (soluble) PTPs. Receptor-like PTP domains tend to occur in two copies in the cytoplasmic region of the transmembrane proteins, only one copy may be active.
Probab=23.79 E-value=2.6e+02 Score=23.02 Aligned_cols=67 Identities=18% Similarity=0.257 Sum_probs=48.8
Q ss_pred CCeeeeEEEEEEehh----hHHHHHHHHHHHHHhccCCceEEEEEEeccCCCCCeEEEEEeecCChHHHHHHHHHHHHHH
Q 029283 47 DGKIVVELRYESYVS----MAIRCIKSICSLARSSWNLHSIAVAHRLGPVPVGETSVFIAVSAVHRADALDACKFLIDEL 122 (196)
Q Consensus 47 ~G~~V~~L~yEay~~----mA~k~L~~I~~ea~~~~~l~~v~I~HR~G~L~vGE~iV~VaVss~HR~eAF~A~~~iID~l 122 (196)
..+.|..+.|...+. -..+.|.++...+.+...- ..+.++++--.++-.|..+|-|+..+++.+
T Consensus 126 ~~~~V~~~~~~~W~d~~~p~~~~~~~~~~~~v~~~~~~------------~~~~pivVHC~~G~gRsg~~~a~~~~~~~~ 193 (231)
T cd00047 126 ETRTVTHFQYTGWPDHGVPESPDSLLDLLRKVRKSQQQ------------PGSGPIVVHCSAGVGRTGTFIAIDILLQRL 193 (231)
T ss_pred CceEEEEEeECCCCCCCccCChHHHHHHHHHHHHHhcc------------CCCCCeEEECCCCCCccchHHHHHHHHHHH
Confidence 445777888764432 2235677777777665322 556688888889999999999999999999
Q ss_pred Hhc
Q 029283 123 KAS 125 (196)
Q Consensus 123 K~~ 125 (196)
+..
T Consensus 194 ~~~ 196 (231)
T cd00047 194 EAE 196 (231)
T ss_pred Hhc
Confidence 875
No 21
>PF05274 Baculo_E25: Occlusion-derived virus envelope protein E25; InterPro: IPR007938 This family consists of several nucleopolyhedrovirus occlusion-derived virus envelope E25 proteins. The N terminus of this protein is extremely hydrophobic, studies suggest that this defined hydrophobic domain is sufficient to direct the protein to induced membrane microvesicles within a baculovirus-infected cell nucleus and the viral envelope. In addition, movement of the protein into the nuclear envelope may initiate through cytoplasmic membranes, such as endoplasmic reticulum, and that transport into the nucleus may be mediated through the outer and inner nuclear membrane [].; GO: 0019031 viral envelope, 0042025 host cell nucleus
Probab=23.07 E-value=1.8e+02 Score=24.92 Aligned_cols=40 Identities=20% Similarity=0.380 Sum_probs=31.2
Q ss_pred eEEEEcccCCCCHHHHHHHhcCCCccEEEEEEEEEcCCCCC
Q 029283 8 LVEILEENNPVDMTKYMTYVSAPQAGAIATFSGTTRDTFDG 48 (196)
Q Consensus 8 ~v~i~~~~~piDl~~~~~~v~~~~~GAIv~F~G~VR~~~~G 48 (196)
+-+|...+.|+..+++++. -+...|+-.+|.|++-+...+
T Consensus 36 iSkv~VaE~Pl~y~~Ivd~-Gn~~vG~N~VFlGtl~~~~~~ 75 (182)
T PF05274_consen 36 ISKVYVAERPLSYDEIVDE-GNRSVGANCVFLGTLYDPLSG 75 (182)
T ss_pred eeEEEEeecCcCHHHHHhh-cccccccceEEEEEeeccCcc
Confidence 4556666789999998864 445699999999999987644
No 22
>PF09035 Tn916-Xis: Excisionase from transposon Tn916; InterPro: IPR015122 The phage-encoded excisionase protein Tn916-Xis adopts a winged-helix structure that consists of a three-stranded anti-parallel beta-sheet that packs against a helix-turn-helix (HTH) motif and a third C-terminal alpha-helix. It is encoded for by Tn916, which also codes for the integrase Tn916-Int. The protein interacts with DNA by the insertion of helix alpha-2 into the major groove and the contact of the hairpin that connects strands beta-2 and beta-3 with the adjacent phosphodiester backbone and/or minor groove. Tn916-Xis stimulates phage excision and inhibits viral integration by stabilising distorted DNA structures []. ; PDB: 1Y6U_A.
Probab=22.97 E-value=20 Score=25.83 Aligned_cols=13 Identities=46% Similarity=0.915 Sum_probs=6.2
Q ss_pred HhcCceeeEEEec
Q 029283 123 KASVPIWKKEVYS 135 (196)
Q Consensus 123 K~~vPIWKkE~~~ 135 (196)
|.++|||.|-...
T Consensus 3 k~~vPiweK~~LT 15 (67)
T PF09035_consen 3 KKDVPIWEKYTLT 15 (67)
T ss_dssp -----TTTSSEEE
T ss_pred ccccchhHhhccC
Confidence 6789999987654
No 23
>PRK14447 acylphosphatase; Provisional
Probab=22.75 E-value=3.3e+02 Score=20.27 Aligned_cols=46 Identities=17% Similarity=0.102 Sum_probs=30.4
Q ss_pred EEEEEcCCCCCeeeeEEEEEEehhhHHHHHHHHHHHHHhccCCceEEEEEE
Q 029283 38 FSGTTRDTFDGKIVVELRYESYVSMAIRCIKSICSLARSSWNLHSIAVAHR 88 (196)
Q Consensus 38 F~G~VR~~~~G~~V~~L~yEay~~mA~k~L~~I~~ea~~~~~l~~v~I~HR 88 (196)
-.|.|||..+|..|. +..+-- ...|++..+.+++-.+.-+|.-+..
T Consensus 32 l~G~V~N~~dG~~Ve-i~~qG~----~~~l~~f~~~l~~gp~~a~V~~v~~ 77 (95)
T PRK14447 32 VRGWVRNRSDGRTVE-AVLEGP----RDAVLKVIEWARVGPPGARVEDVEV 77 (95)
T ss_pred eEEEEEECCCCCEEE-EEEEeC----HHHHHHHHHHHhhCCCCeEEEEEEE
Confidence 459999998875554 555654 5677777777776655555555544
No 24
>PF08541 ACP_syn_III_C: 3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal ; InterPro: IPR013747 This domain is found on 3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III 2.3.1.41 from EC, the enzyme responsible for initiating the chain of reactions of the fatty acid synthase in plants and bacteria. ; GO: 0016747 transferase activity, transferring acyl groups other than amino-acyl groups, 0008610 lipid biosynthetic process; PDB: 3IL3_A 1ZOW_C 3GWE_B 3GWA_B 1UB7_B 3LED_B 2EBD_A 1HNJ_A 2EFT_B 1HN9_B ....
Probab=21.28 E-value=79 Score=22.36 Aligned_cols=20 Identities=15% Similarity=0.288 Sum_probs=16.4
Q ss_pred EEeccCCCCCeEEEEEeecC
Q 029283 87 HRLGPVPVGETSVFIAVSAV 106 (196)
Q Consensus 87 HR~G~L~vGE~iV~VaVss~ 106 (196)
...|.+++||.+++++..+-
T Consensus 61 ~~~g~~~~Gd~vl~~~~G~G 80 (90)
T PF08541_consen 61 LEEGRIKPGDRVLLVGFGAG 80 (90)
T ss_dssp HHTTSSCTTEEEEEEEEETT
T ss_pred HHcCCCCCCCEEEEEEEEhh
Confidence 34578999999999998764
No 25
>COG0799 Uncharacterized homolog of plant Iojap protein [Function unknown]
Probab=20.43 E-value=4.4e+02 Score=20.86 Aligned_cols=61 Identities=13% Similarity=0.101 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHhccCCceEEEEEEeccCCCCCeEEEEEeecCChHHHHHHHHHHHHHHHhcCc
Q 029283 65 RCIKSICSLARSSWNLHSIAVAHRLGPVPVGETSVFIAVSAVHRADALDACKFLIDELKASVP 127 (196)
Q Consensus 65 k~L~~I~~ea~~~~~l~~v~I~HR~G~L~vGE~iV~VaVss~HR~eAF~A~~~iID~lK~~vP 127 (196)
+.|.+++-++.....-.++.++--.|.-.+.|- +|.+++...+.+-.-+.++++.+|..--
T Consensus 4 ~~l~~~i~~alddkKAeDIv~lDv~~~s~~tDy--fVIatg~s~rhv~Aiad~i~~~~k~~g~ 64 (115)
T COG0799 4 EELLEVIVEALDDKKAEDIVVLDVSGKSSLTDY--FVIATGNSSRHVKAIADNVKEELKEAGE 64 (115)
T ss_pred HHHHHHHHHHHHhccCCCeEEEEccCCcccccE--EEEEEeCchHHHHHHHHHHHHHHHHcCC
Confidence 344555555555555666777777777778775 4556677777888888899999876543
No 26
>PRK14450 acylphosphatase; Provisional
Probab=20.13 E-value=3.6e+02 Score=19.75 Aligned_cols=41 Identities=17% Similarity=0.156 Sum_probs=25.2
Q ss_pred EEEEEcCCCCCeeeeEEEEEEehhhHHHHHHHHHHHHHhccCCceE
Q 029283 38 FSGTTRDTFDGKIVVELRYESYVSMAIRCIKSICSLARSSWNLHSI 83 (196)
Q Consensus 38 F~G~VR~~~~G~~V~~L~yEay~~mA~k~L~~I~~ea~~~~~l~~v 83 (196)
..|.|||..+|..|. +..+-- ...+++..+.+++-.+...|
T Consensus 30 l~G~V~N~~dG~~Ve-i~~~G~----~~~v~~f~~~l~~gp~~a~V 70 (91)
T PRK14450 30 LCGYAKNLANGNEVE-VVAEGD----KDSLLEFLDLLRSGPPRAEV 70 (91)
T ss_pred CEEEEEECCCCCEEE-EEEEeC----HHHHHHHHHHHhhCCCCcEE
Confidence 369999998875454 445554 34566666666655554333
Done!