Query 023328
Match_columns 284
No_of_seqs 136 out of 196
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 03:11:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023328.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023328hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00625 tfb2 Transcription f 100.0 1E-100 2E-105 748.4 31.8 277 2-284 116-448 (448)
2 KOG3471 RNA polymerase II tran 100.0 2E-101 5E-106 739.5 22.0 271 8-284 137-463 (465)
3 COG5144 TFB2 RNA polymerase II 100.0 2.8E-90 6E-95 648.7 16.1 273 5-283 121-445 (447)
4 PF03849 Tfb2: Transcription f 100.0 9E-70 2E-74 521.7 22.5 188 7-198 120-366 (366)
5 PF13625 Helicase_C_3: Helicas 99.7 6.8E-16 1.5E-20 128.1 12.2 117 131-255 2-120 (129)
6 TIGR00603 rad25 DNA repair hel 97.4 0.0014 3.1E-08 69.2 11.7 106 128-248 22-132 (732)
7 PF08671 SinI: Anti-repressor 92.1 0.15 3.2E-06 33.2 2.5 22 174-195 8-29 (30)
8 PRK05718 keto-hydroxyglutarate 85.1 12 0.00025 34.2 10.6 162 79-281 1-175 (212)
9 KOG1123 RNA polymerase II tran 74.2 5.9 0.00013 41.5 5.4 89 127-227 81-169 (776)
10 TIGR01615 A_thal_3542 uncharac 72.4 1.8 4E-05 37.1 1.1 65 127-209 47-112 (131)
11 PF01081 Aldolase: KDPG and KH 68.7 13 0.00029 33.5 5.9 125 128-281 32-168 (196)
12 PRK07114 keto-hydroxyglutarate 67.6 78 0.0017 29.2 10.7 157 84-281 6-180 (222)
13 PRK06015 keto-hydroxyglutarate 67.3 23 0.0005 32.2 7.1 125 128-281 28-164 (201)
14 TIGR01182 eda Entner-Doudoroff 67.0 59 0.0013 29.6 9.7 125 128-281 32-168 (204)
15 PRK14529 adenylate kinase; Pro 59.7 72 0.0016 29.2 9.0 81 158-253 22-103 (223)
16 COG1420 HrcA Transcriptional r 56.3 8.1 0.00017 38.0 2.3 45 70-116 31-75 (346)
17 PRK03911 heat-inducible transc 54.6 9.7 0.00021 36.2 2.5 45 70-116 28-72 (260)
18 PF03444 HrcA_DNA-bdg: Winged 52.0 15 0.00033 28.9 2.8 36 80-116 37-72 (78)
19 TIGR03853 matur_matur probable 49.7 24 0.00052 27.8 3.5 26 170-195 18-57 (77)
20 PF00406 ADK: Adenylate kinase 49.1 19 0.0004 29.8 3.1 75 159-247 19-94 (151)
21 COG1313 PflX Uncharacterized F 47.7 25 0.00053 34.5 4.0 52 185-254 273-329 (335)
22 PF01978 TrmB: Sugar-specific 45.9 24 0.00052 25.6 2.9 30 81-111 37-66 (68)
23 PRK00441 argR arginine repress 45.6 56 0.0012 28.2 5.6 58 21-107 4-61 (149)
24 PF02244 Propep_M14: Carboxype 45.5 89 0.0019 22.8 6.0 46 237-282 6-55 (74)
25 PF01316 Arg_repressor: Argini 43.7 32 0.00069 26.3 3.4 28 80-107 35-62 (70)
26 smart00195 DSPc Dual specifici 42.7 62 0.0013 26.1 5.2 52 163-220 80-137 (138)
27 PRK06552 keto-hydroxyglutarate 42.6 1.1E+02 0.0025 27.7 7.4 117 85-229 5-137 (213)
28 COG1412 Uncharacterized protei 39.5 60 0.0013 28.0 4.8 18 127-144 9-26 (136)
29 PF10678 DUF2492: Protein of u 39.1 44 0.00095 26.3 3.6 26 170-195 20-59 (78)
30 TIGR02425 decarb_PcaC 4-carbox 39.1 37 0.00081 28.3 3.4 25 172-196 76-100 (123)
31 KOG4175 Tryptophan synthase al 38.6 1.2E+02 0.0026 28.5 6.9 77 173-256 67-151 (268)
32 PF04720 DUF506: Protein of un 36.9 16 0.00035 33.7 1.0 109 80-209 87-201 (218)
33 COG1438 ArgR Arginine represso 35.5 27 0.0006 30.6 2.1 27 81-107 37-63 (150)
34 PF09713 A_thal_3526: Plant pr 32.8 98 0.0021 22.8 4.3 24 173-196 3-26 (54)
35 PF00085 Thioredoxin: Thioredo 32.8 1.2E+02 0.0026 22.3 5.1 37 139-175 22-60 (103)
36 PF03965 Penicillinase_R: Peni 31.2 58 0.0012 26.2 3.3 30 81-110 36-65 (115)
37 PF03918 CcmH: Cytochrome C bi 31.2 45 0.00099 28.9 2.8 30 172-201 63-92 (148)
38 TIGR03147 cyt_nit_nrfF cytochr 29.5 1E+02 0.0023 26.2 4.6 34 172-205 63-96 (126)
39 PF04023 FeoA: FeoA domain; I 29.4 13 0.00027 27.3 -0.8 33 62-96 2-34 (74)
40 PF13833 EF-hand_8: EF-hand do 28.7 67 0.0015 21.8 2.8 20 168-187 3-26 (54)
41 PF12637 TSCPD: TSCPD domain; 28.6 1E+02 0.0023 24.4 4.3 54 149-218 37-90 (95)
42 PRK10144 formate-dependent nit 27.0 1.2E+02 0.0027 25.8 4.6 34 172-205 63-96 (126)
43 PRK04280 arginine repressor; P 27.0 55 0.0012 28.3 2.5 28 80-107 34-61 (148)
44 PRK13672 hypothetical protein; 26.2 92 0.002 24.1 3.4 30 182-220 38-67 (71)
45 PRK12928 lipoyl synthase; Prov 26.1 5.7E+02 0.012 24.2 10.9 21 173-193 175-195 (290)
46 cd00127 DSPc Dual specificity 26.0 1.1E+02 0.0023 24.4 4.0 44 170-219 92-139 (139)
47 PRK03341 arginine repressor; P 25.6 1.9E+02 0.0041 25.6 5.7 58 21-107 15-73 (168)
48 PRK05256 condesin subunit E; P 25.5 52 0.0011 30.9 2.2 47 70-117 142-188 (238)
49 PF09170 STN1_2: CST, Suppress 25.1 45 0.00098 30.0 1.7 26 85-111 109-135 (174)
50 PF05184 SapB_1: Saposin-like 24.6 75 0.0016 20.4 2.3 21 174-194 13-33 (39)
51 PLN02459 probable adenylate ki 24.5 2.9E+02 0.0063 26.1 7.1 69 159-239 52-120 (261)
52 PF09330 Lact-deh-memb: D-lact 24.4 3.9E+02 0.0084 26.0 7.9 119 140-281 3-133 (291)
53 PRK13808 adenylate kinase; Pro 24.2 2.7E+02 0.0058 27.3 7.0 77 159-250 23-101 (333)
54 PF00782 DSPc: Dual specificit 23.6 77 0.0017 25.2 2.7 44 170-220 84-132 (133)
55 PRK11183 D-lactate dehydrogena 23.2 1.3E+02 0.0028 31.8 4.8 80 139-220 272-363 (564)
56 PRK05066 arginine repressor; P 22.6 82 0.0018 27.5 2.9 27 81-107 41-67 (156)
57 PRK08508 biotin synthase; Prov 21.7 5.4E+02 0.012 24.0 8.3 99 150-254 76-180 (279)
58 PF13496 DUF4120: Domain of un 20.9 77 0.0017 25.7 2.1 15 239-253 5-19 (95)
59 PF13591 MerR_2: MerR HTH fami 20.7 2E+02 0.0043 22.1 4.4 24 84-107 14-37 (84)
60 PRK08444 hypothetical protein; 20.5 7.2E+02 0.016 24.3 9.2 46 150-195 114-160 (353)
61 TIGR02698 CopY_TcrY copper tra 20.4 1.2E+02 0.0025 25.4 3.2 27 81-107 37-63 (130)
62 PRK14526 adenylate kinase; Pro 20.1 2.1E+02 0.0045 25.7 5.1 74 161-248 25-99 (211)
No 1
>TIGR00625 tfb2 Transcription factor tfb2. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=1.1e-100 Score=748.37 Aligned_cols=277 Identities=33% Similarity=0.604 Sum_probs=259.9
Q ss_pred CCCCCCC-CCChhHHHHHHhhhHHHHHHHHhCCCCCCCCCCCChhHHHHHHhcCCccc---c------------------
Q 023328 2 PSGITAR-LPTLEDLEAYAIGQWECFLLQLISSAQAERPTNFSSSMMKVFQRGLLIQS---I------------------ 59 (284)
Q Consensus 2 ~~~~~~~-~~~~~~Ld~ya~~~WE~IL~~mVgs~~~~~~~~~s~~v~~lL~~~~Lm~~---~------------------ 59 (284)
|....++ .+++++||+||.+|||+|||||||++.. ..+|++|+++|+++|||++ +
T Consensus 116 ~~~~~d~~~~~~~~Ld~yA~~~WE~IL~fmVgs~~~---~~~s~~v~~lL~~~~Lm~~~~~~~~~~IT~~GFqFLLqd~n 192 (448)
T TIGR00625 116 SQLGPDKHAVDVDSLDKYAEERWETILHFMVGTPSA---KVPSEDVLQLLKQAGLMKSTEPGEPPCITSAGFQFLLQDIN 192 (448)
T ss_pred cccCCCCCCCCHHHHHHHHHHHHHHHHHHHcCCCCc---CCCchHHHHHHHhCCCCcccCCCCCccCchhhHHHHcCChh
Confidence 3333443 8899999999999999999999998754 5789999999999999976 1
Q ss_pred ---------------------------hhhhccccccccccccCCCCCHHHHHHHHHhhhcCeeeEeeCCCcceecchhh
Q 023328 60 ---------------------------LRSLKFLCQGILEAYNLNTLSEIQRSMIKDFADLGLVKLQQGRKESWFIPTKL 112 (284)
Q Consensus 60 ---------------------------lf~L~~~~~~lG~~Y~~~~Lt~~q~~~L~~l~~~GLvy~~~~~~~~fy~pT~L 112 (284)
||+|||++ +|++|++++||++|++||+||+|+||||++++++++|| ||||
T Consensus 193 ~QvW~lll~YL~~~e~~g~d~vevLsFLf~Ls~l~--lG~~Y~~~~Lt~tq~~~L~dL~dlGLVy~~~~~~~~fY-PTrL 269 (448)
T TIGR00625 193 AQLWTLLLQYLKTAESRGMDLVEVLHFLFMLGFLT--LGKAYSVDGLSDTQLIMLQDLREYGLVFQRKRKSRRFY-PTRL 269 (448)
T ss_pred HHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHhccc--cCCccCCCCCCHHHHHHHHHHHHcCeEEEecCCCCccc-chHH
Confidence 59999999 99999999999999999999999999999999999999 9999
Q ss_pred HHhhhcCCCc----cc--ccCcceEEEeeCceEEEecCChhHHHHHHHHHhhHhcCCceEEEEeCHHHHHHHHHcCCCHH
Q 023328 113 ATNLSMSLTD----SS--ARKEGFVVVETNFRMYAYSTSKLHCEILRLFSKIEYQLPNLIVGAITKESLYNAFENGITAE 186 (284)
Q Consensus 113 a~~L~~~~~~----~~--~~~~g~IIvETNFrvYAYT~S~lqiaiL~lF~~l~~r~Pnlvvg~iTReSv~~Al~~GITA~ 186 (284)
|++|+++.++ ++ ..++|+|||||||||||||+||||++||++||++.||||||+||+|||+||++|+++|||||
T Consensus 270 At~Lts~~~~l~~~~~~~~~~~g~iivEtNfrvYaYt~s~l~~~il~lF~~~~~r~pnlvvg~iTr~Sv~~A~~~GITa~ 349 (448)
T TIGR00625 270 AINLTSDTKTVSGAGGTVDDDLGFIIVETNYRLYAYTESPLQIALIALFSELLARFPNMVVGQITRESIRRALANGITAQ 349 (448)
T ss_pred HHHHhcCccccccccccccCCCceEEEEecceEEEecCCHHHHHHHHHHHHHHhcCCceEEEEecHHHHHHHHHcCCCHH
Confidence 9999887542 11 25679999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhcCCcccc-ccCCCCChhHHHHHHHHHHhcCceeeccceeeccCCCHHHHHHHHHHHHHcCeEeeecCCCceE
Q 023328 187 QIISFLQQNAHPRVA-DRIPSVPENVCDQIRLWESDLNRVEMTPAHYYEEFPSRDVFEAACDYARDRSGLLWEDSKKMRL 265 (284)
Q Consensus 187 QIi~fL~~hAHp~m~-~~~p~lP~tV~dQIrLWe~E~~R~~~~~g~Ly~~f~s~~~fe~~~~yA~~~g~llw~~~~kr~~ 265 (284)
|||+||++||||+|+ ++.|+|||||+|||||||.||||+++++|+||++|+|+++|+++++||+++|+|+|+|+.||+|
T Consensus 350 qIi~fl~~~ahp~~~~~~~~~lP~tv~dQi~lWe~e~~R~~~~~~~l~~~f~s~~~y~~~~~ya~~~~~l~w~~~~kr~~ 429 (448)
T TIGR00625 350 QIIHYLRTHAHPQMRKEQTPVLPPTIVDQIRLWELERDRLRFTEGVLYNDFLTQVDFELLLAYARELGVLVWENSAKRLF 429 (448)
T ss_pred HHHHHHHhcCChhhhccCCCCCChHHHHHHHHHHHHhcceEeecceeeeecCCHHHHHHHHHHHHHcCEEEEecCCceEE
Confidence 999999999999998 4789999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeccccHHHHHHHhhccC
Q 023328 266 VVNAEIHMHMREFLRGQNK 284 (284)
Q Consensus 266 ~V~~~~h~~v~~f~k~~~~ 284 (284)
||+.+||++||+|||++|+
T Consensus 430 ~V~~~gh~~v~~f~k~~~~ 448 (448)
T TIGR00625 430 FITPAGHSDVKRFWKRQKH 448 (448)
T ss_pred EEeccchHHHHHHHHhhcC
Confidence 9999999999999999986
No 2
>KOG3471 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB2 [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=2.3e-101 Score=739.48 Aligned_cols=271 Identities=37% Similarity=0.649 Sum_probs=257.7
Q ss_pred CCCChhHHHHHHhhhHHHHHHHHhCCCCCCCCCCCChhHHHHHHhcCCcccc----------------------------
Q 023328 8 RLPTLEDLEAYAIGQWECFLLQLISSAQAERPTNFSSSMMKVFQRGLLIQSI---------------------------- 59 (284)
Q Consensus 8 ~~~~~~~Ld~ya~~~WE~IL~~mVgs~~~~~~~~~s~~v~~lL~~~~Lm~~~---------------------------- 59 (284)
+.+++++||+||.+|||||||||||++.+ ..+|++|.+||+++|||+++
T Consensus 137 ~~r~v~~ld~ya~~rwe~ILh~mvgt~~a---~~~se~v~~ll~~a~lm~~~~~~~~IT~~GFQFLL~~~~aQlW~~~Lq 213 (465)
T KOG3471|consen 137 HNRDVDFLDKYASERWECILHFMVGTPEA---KAVSEGVLNLLKHAGLMSRDENQIEITNAGFQFLLLDINAQLWTLVLQ 213 (465)
T ss_pred CcccchhhHHHHHHHHHHHHHHHhCCccc---cccChhHHHHHHhcCccCCCCCCceEeecchhhhhcCcHHHHHHHHHH
Confidence 46789999999999999999999999765 89999999999999999975
Q ss_pred ------------------hhhhccccccccccccCCCCCHHHHHHHHHhhhcCeeeEeeCCCcceecchhhHHhhhcCCC
Q 023328 60 ------------------LRSLKFLCQGILEAYNLNTLSEIQRSMIKDFADLGLVKLQQGRKESWFIPTKLATNLSMSLT 121 (284)
Q Consensus 60 ------------------lf~L~~~~~~lG~~Y~~~~Lt~~q~~~L~~l~~~GLvy~~~~~~~~fy~pT~La~~L~~~~~ 121 (284)
|||||+++ +|++|++++||++|+.||+||||+|||||||.+..+|| ||+||+++|++-.
T Consensus 214 yLk~~~~~~~dlvevL~~LfqL~~~~--~G~~Ysvd~~~~~~~~~lq~Lre~GlvfQrk~k~~rfy-ptrla~~~ss~~~ 290 (465)
T KOG3471|consen 214 YLKLFESSGMDLVEVLEFLFQLSALA--LGRAYSVDALTETQRILLQHLRELGLVFQRKIKILRFY-PTRLAIGLSSDQL 290 (465)
T ss_pred HHHHHHhcCCCHHHHHHHHHHHHHHH--hcccceeehhhHHHHHHHHHHHHhhHHHHhhhhhheec-chhhhhccchhhh
Confidence 59999999 99999999999999999999999999999999999999 9999999988644
Q ss_pred c--------ccccCcceEEEeeCceEEEecCChhHHHHHHHHHhhHhcCCceEEEEeCHHHHHHHHHcCCCHHHHHHHHh
Q 023328 122 D--------SSARKEGFVVVETNFRMYAYSTSKLHCEILRLFSKIEYQLPNLIVGAITKESLYNAFENGITAEQIISFLQ 193 (284)
Q Consensus 122 ~--------~~~~~~g~IIvETNFrvYAYT~S~lqiaiL~lF~~l~~r~Pnlvvg~iTReSv~~Al~~GITA~QIi~fL~ 193 (284)
+ ...++.|||||||||||||||+||||+|+++|||++.|||||||||+|||||||+|+++||||+|||+||+
T Consensus 291 ~~~~~~~~~~~edd~G~iIVETN~riYAYT~S~lQiAvi~LF~~l~~rf~nlvvG~iTreSVr~Al~~GITa~QII~fLe 370 (465)
T KOG3471|consen 291 GAASLVHQNRNEDDVGFIIVETNYRIYAYTNSPLQIAVIALFTELTYRFPNLVVGVITRESVRRALDNGITAEQIIHFLE 370 (465)
T ss_pred hhhhhhhcccccccCceEEEEeccEEEEecCCHHHHHHHHHHHHHHhhccccceeeeeHHHHHHHHhcCCcHHHHHHHHH
Confidence 2 12245699999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCccccccC--CCCChhHHHHHHHHHHhcCceeeccceeeccCCCHHHHHHHHHHHHHcCeEeeecCCCceEEEeccc
Q 023328 194 QNAHPRVADRI--PSVPENVCDQIRLWESDLNRVEMTPAHYYEEFPSRDVFEAACDYARDRSGLLWEDSKKMRLVVNAEI 271 (284)
Q Consensus 194 ~hAHp~m~~~~--p~lP~tV~dQIrLWe~E~~R~~~~~g~Ly~~f~s~~~fe~~~~yA~~~g~llw~~~~kr~~~V~~~~ 271 (284)
+||||||+... |++||||+|||||||.||||+.+++|+||++|.|..||+.+++||+++|+|+|+|+.||+|||+.+|
T Consensus 371 t~ahpqm~~~~~~~~LPpTv~dQIrLWElernR~~~~~g~LYs~Fls~~df~~l~eya~~~~vLvw~d~~kr~~vV~~~G 450 (465)
T KOG3471|consen 371 THAHPQMRMLSPVPCLPPTVVDQIRLWELERNRLRMTEGYLYSDFLSLSDFQLLLEYAREIGVLVWSDSDKRMFVVTKEG 450 (465)
T ss_pred hccCchhhhcCCCCCCCchHHhHHHHHHHhhcceecccchhHHhhhhhhhHHHHHHHHHHcCeEEEecCcceEEEEecCc
Confidence 99999998876 8999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cHHHHHHHhhccC
Q 023328 272 HMHMREFLRGQNK 284 (284)
Q Consensus 272 h~~v~~f~k~~~~ 284 (284)
|++|++||||++|
T Consensus 451 hs~Vk~f~Kr~~k 463 (465)
T KOG3471|consen 451 HSLVKRFWKRKSK 463 (465)
T ss_pred cHHHHHHHHHhhc
Confidence 9999999999764
No 3
>COG5144 TFB2 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB2 [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=2.8e-90 Score=648.72 Aligned_cols=273 Identities=31% Similarity=0.558 Sum_probs=259.5
Q ss_pred CCCCCCChhHHHHHHhhhHHHHHHHHhCCCCCCCCCCCChhHHHHHHhcCCcccc-------------------------
Q 023328 5 ITARLPTLEDLEAYAIGQWECFLLQLISSAQAERPTNFSSSMMKVFQRGLLIQSI------------------------- 59 (284)
Q Consensus 5 ~~~~~~~~~~Ld~ya~~~WE~IL~~mVgs~~~~~~~~~s~~v~~lL~~~~Lm~~~------------------------- 59 (284)
+..+.+++++||+||.++||+|||||||+.++ .-|+.+|.++|+++|||.++
T Consensus 121 i~E~lvsvd~ld~ys~~kwEtILhfmVgtpea---kip~egVl~lLk~ggLm~~~~ne~kITn~GFqFLLq~in~QlWtL 197 (447)
T COG5144 121 IGEKLVSVDMLDSYSSRKWETILHFMVGTPEA---KIPAEGVLELLKFGGLMGRDRNEFKITNRGFQFLLQTINEQLWTL 197 (447)
T ss_pred eccceeeeehhhhhhhhhHHHHHHHHhCCccc---cCcchhHHHHHHhcccccCCcccceeehhHHHHHHHHHHHHHHHH
Confidence 44568899999999999999999999999886 78999999999999999865
Q ss_pred ---------------------hhhhccccccccccccCCCCCHHHHHHHHHhhhcCeeeEeeCCCcceecchhhHHhhhc
Q 023328 60 ---------------------LRSLKFLCQGILEAYNLNTLSEIQRSMIKDFADLGLVKLQQGRKESWFIPTKLATNLSM 118 (284)
Q Consensus 60 ---------------------lf~L~~~~~~lG~~Y~~~~Lt~~q~~~L~~l~~~GLvy~~~~~~~~fy~pT~La~~L~~ 118 (284)
+||||.++ +|++|+++.||+||+.||+|+|++||||+++-.+.+|| ||+||+.||+
T Consensus 198 lL~yLK~~e~s~md~v~VLhflFmLgal~--vG~aY~id~lsdtqqiml~D~R~yglv~q~~i~~~~fY-pt~LA~glt~ 274 (447)
T COG5144 198 LLLYLKYFEGSVMDEVAVLHFLFMLGALA--VGTAYKIDALSDTQQIMLMDRRLYGLVEQLGILRKIFY-PTGLAIGLTF 274 (447)
T ss_pred HHHHHHHhccccccHHHHHHHHHHhcchh--hcceeeecccchHHHHHHHHHHHhhHHHHhccchhhcc-ccccchhhhh
Confidence 59999999 99999999999999999999999999999998899999 9999999987
Q ss_pred CCC----c--ccccCcceEEEeeCceEEEecCChhHHHHHHHHHhhHhcCCceEEEEeCHHHHHHHHHcCCCHHHHHHHH
Q 023328 119 SLT----D--SSARKEGFVVVETNFRMYAYSTSKLHCEILRLFSKIEYQLPNLIVGAITKESLYNAFENGITAEQIISFL 192 (284)
Q Consensus 119 ~~~----~--~~~~~~g~IIvETNFrvYAYT~S~lqiaiL~lF~~l~~r~Pnlvvg~iTReSv~~Al~~GITA~QIi~fL 192 (284)
+.. . ...++.||||||||||||||||||||+|+++|||++..||||||+|+|||||||+|+.+||||+|||.||
T Consensus 275 d~~~~~s~qnr~edd~gfiIVETN~kiYaYtnSplqiavi~LF~nl~arf~Nlv~GiITreSirrAl~nGIta~QII~yL 354 (447)
T COG5144 275 DQLFEASEQNRREDDKGFIIVETNNKIYAYTNSPLQIAVIHLFCNLTARFPNLVKGIITRESIRRALDNGITAKQIIHYL 354 (447)
T ss_pred HHHHHhhhhccccccCceEEEEecceEEEecCChHHHHHHHHhhhhhcccchhhhhhccHHHHHHHHhcCccHHHHHHHH
Confidence 532 1 1235679999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcCCccccccCCCCChhHHHHHHHHHHhcCceeeccceeeccCCCHHHHHHHHHHHHHcCeEeeecCCCceEEEecccc
Q 023328 193 QQNAHPRVADRIPSVPENVCDQIRLWESDLNRVEMTPAHYYEEFPSRDVFEAACDYARDRSGLLWEDSKKMRLVVNAEIH 272 (284)
Q Consensus 193 ~~hAHp~m~~~~p~lP~tV~dQIrLWe~E~~R~~~~~g~Ly~~f~s~~~fe~~~~yA~~~g~llw~~~~kr~~~V~~~~h 272 (284)
++||||||+++.|.+||||+|||+|||.|+||+...+|+||+||.+..+|+.+.+||++.|+|+|++..||||||+.+||
T Consensus 355 ethahpqmr~~l~llPPtivdQI~lWele~nRi~~~pG~LysdFlt~s~y~~~~eya~~~gvLvw~d~~Krmffi~~eG~ 434 (447)
T COG5144 355 ETHAHPQMRKKLELLPPTIVDQIVLWELERNRIFMVPGYLYSDFLTLSDYQKVLEYAIRGGVLVWSDVDKRMFFIKLEGH 434 (447)
T ss_pred HhccChhhhhcCCCCChhhhhheeeeeeccCcEEeecchHHhhhhchhhHHHHHHHHHhcCeEEeecccceEEEEEccCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcc
Q 023328 273 MHMREFLRGQN 283 (284)
Q Consensus 273 ~~v~~f~k~~~ 283 (284)
.+|++|.||+-
T Consensus 435 s~v~~f~Kr~l 445 (447)
T COG5144 435 SLVKEFVKRIL 445 (447)
T ss_pred HHHHHHHHHHh
Confidence 99999999964
No 4
>PF03849 Tfb2: Transcription factor Tfb2; InterPro: IPR004598 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. The core-TFIIH basal transcription factor complex has six subunits, this is the p52 subunit.; GO: 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=100.00 E-value=9e-70 Score=521.69 Aligned_cols=188 Identities=43% Similarity=0.739 Sum_probs=176.1
Q ss_pred CCCCChhHHHHHHhhhHHHHHHHHhCCCCCCCCCCCChhHHHHHHhcCCcccc---------------------------
Q 023328 7 ARLPTLEDLEAYAIGQWECFLLQLISSAQAERPTNFSSSMMKVFQRGLLIQSI--------------------------- 59 (284)
Q Consensus 7 ~~~~~~~~Ld~ya~~~WE~IL~~mVgs~~~~~~~~~s~~v~~lL~~~~Lm~~~--------------------------- 59 (284)
.+.+++++||+||++|||+|||||||++.... ..||++|+++|+++|||+..
T Consensus 120 ~~~~~~~~Ld~yA~~rWE~IL~~mVgs~~~~~-~~~s~~v~~lL~~sgLm~~~~~~~~~~IT~~GFqFLL~d~~~QlW~l 198 (366)
T PF03849_consen 120 KKAPDVEFLDEYARERWESILHYMVGSSSSSN-SSPSQDVKQLLKRSGLMKRSESGGSLKITSKGFQFLLQDTNAQLWTL 198 (366)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhcCccccc-CCCCHHHHHHHHHcCCCcCcCCCCCCcEehhheeeecCChHHHHHHH
Confidence 67899999999999999999999999987521 22999999999999999982
Q ss_pred ---------------------hhhhccccccccccccCCCCCHHHHHHHHHhhhcCeeeEeeCCCcceecchhhHHhhhc
Q 023328 60 ---------------------LRSLKFLCQGILEAYNLNTLSEIQRSMIKDFADLGLVKLQQGRKESWFIPTKLATNLSM 118 (284)
Q Consensus 60 ---------------------lf~L~~~~~~lG~~Y~~~~Lt~~q~~~L~~l~~~GLvy~~~~~~~~fy~pT~La~~L~~ 118 (284)
||+||+++ +|++|++++||++|++||+||+|+||||++++++++|| |||||++|++
T Consensus 199 ll~yL~~~e~~~~~~~~~l~flf~L~~~~--~g~~Y~~~~ls~~q~~~L~~l~~~GLvy~~~~~~~~fy-pT~La~~l~~ 275 (366)
T PF03849_consen 199 LLQYLKMAEARGMDLVEVLSFLFQLSFLE--LGKAYSTEGLSETQKNMLQDLRELGLVYQRKRKSRRFY-PTRLATNLTS 275 (366)
T ss_pred HHHHHHHHHhcCCCHHHHHHHHHHhcccc--cCCcCcCCCCCHHHHHHHHHHHHCCeEEEecCCCCeEe-chHHHHHHhc
Confidence 59999999 99999999999999999999999999999999999999 9999999988
Q ss_pred CCCc-----------ccccCcceEEEeeCceEEEecCChhHHHHHHHHHhhHhcCCceEEEEeCHHHHHHHHHcCCCHHH
Q 023328 119 SLTD-----------SSARKEGFVVVETNFRMYAYSTSKLHCEILRLFSKIEYQLPNLIVGAITKESLYNAFENGITAEQ 187 (284)
Q Consensus 119 ~~~~-----------~~~~~~g~IIvETNFrvYAYT~S~lqiaiL~lF~~l~~r~Pnlvvg~iTReSv~~Al~~GITA~Q 187 (284)
+.+. ....++|||||||||||||||+||||||||++||++.||||||+||+||||||++|+++||||||
T Consensus 276 ~~~~~~~~~~~~~~~~~~~~~g~iivETNfrvYAYT~s~l~iaiL~lF~~~~~r~pnlvvg~iTr~Sv~~A~~~GIta~q 355 (366)
T PF03849_consen 276 GSSALRSASSALDSSSSSNKEGFIIVETNFRVYAYTNSPLQIAILSLFCELKYRFPNLVVGQITRESVRRALKNGITADQ 355 (366)
T ss_pred CCCcccccccccccccccccCceEEEEecceEEEecCCHHHHHHHHHHHHHHhcCCCeEEEEEcHHHHHHHHHcCCCHHH
Confidence 7652 12467899999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhcCCc
Q 023328 188 IISFLQQNAHP 198 (284)
Q Consensus 188 Ii~fL~~hAHp 198 (284)
||+||++||||
T Consensus 356 Ii~fL~~~aHp 366 (366)
T PF03849_consen 356 IISFLRSHAHP 366 (366)
T ss_pred HHHHHHhcCCC
Confidence 99999999999
No 5
>PF13625 Helicase_C_3: Helicase conserved C-terminal domain
Probab=99.67 E-value=6.8e-16 Score=128.14 Aligned_cols=117 Identities=22% Similarity=0.355 Sum_probs=104.5
Q ss_pred EEEeeCceEEEecCCh--hHHHHHHHHHhhHhcCCceEEEEeCHHHHHHHHHcCCCHHHHHHHHhhcCCccccccCCCCC
Q 023328 131 VVVETNFRMYAYSTSK--LHCEILRLFSKIEYQLPNLIVGAITKESLYNAFENGITAEQIISFLQQNAHPRVADRIPSVP 208 (284)
Q Consensus 131 IIvETNFrvYAYT~S~--lqiaiL~lF~~l~~r~Pnlvvg~iTReSv~~Al~~GITA~QIi~fL~~hAHp~m~~~~p~lP 208 (284)
+||++||.|.+.+.+| -..+.|..||++ .+..+|.+++||+.|+.+|++.|+|+++|+.||+.|+.. .||
T Consensus 2 liVqpd~~I~v~~~~~~~~~~~~L~~fae~-~s~~~~~~yrlT~~Sl~~A~~~G~~~e~i~~~L~~~S~~-------~lP 73 (129)
T PF13625_consen 2 LIVQPDFEILVEPGHPSPADAWFLARFAEL-KSPDTMHVYRLTPASLWRAASAGLTAEEIIEFLERYSKN-------PLP 73 (129)
T ss_pred EEECCCCEEEEeCCCCCHHHHHHHHHHhcc-cccCceEEEEECHHHHHHHHHcCCCHHHHHHHHHHHcCC-------CCC
Confidence 7999999999977665 345999999999 567999999999999999999999999999999999944 699
Q ss_pred hhHHHHHHHHHHhcCceeeccceeeccCCCHHHHHHHHHHHHHcCeE
Q 023328 209 ENVCDQIRLWESDLNRVEMTPAHYYEEFPSRDVFEAACDYARDRSGL 255 (284)
Q Consensus 209 ~tV~dQIrLWe~E~~R~~~~~g~Ly~~f~s~~~fe~~~~yA~~~g~l 255 (284)
++|..+|+-|+...+|+++.++.++-.+.+.+..+.+.+..+-.++.
T Consensus 74 ~~v~~~i~~w~~~~g~v~l~~~~~~l~~~d~~~l~~l~~~~~~~~~~ 120 (129)
T PF13625_consen 74 QNVEQSIEDWARRYGRVRLYKGAYLLECDDPELLDELLADPELAKLI 120 (129)
T ss_pred HHHHHHHHHHHHhcCCEEEecCeEEEEECCHHHHHHHHhChhhhhhh
Confidence 99999999999999999999977777999999999988876655543
No 6
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.39 E-value=0.0014 Score=69.19 Aligned_cols=106 Identities=23% Similarity=0.378 Sum_probs=84.5
Q ss_pred cceEEEeeCceEEEecCChhH--H-HHHHHHHhhHhcCCceEEEEeCHHHHHHHHHcCCCHHHHHHHHhhcCCccccccC
Q 023328 128 EGFVVVETNFRMYAYSTSKLH--C-EILRLFSKIEYQLPNLIVGAITKESLYNAFENGITAEQIISFLQQNAHPRVADRI 204 (284)
Q Consensus 128 ~g~IIvETNFrvYAYT~S~lq--i-aiL~lF~~l~~r~Pnlvvg~iTReSv~~Al~~GITA~QIi~fL~~hAHp~m~~~~ 204 (284)
+|.|++|| .+|+- . ..|.-|+|+..|--+|..++||-=|+-.|...|+++++||++|...+-.
T Consensus 22 d~~i~lE~--------~~p~~~~a~~fl~~~aEp~~rp~~iHeY~lT~~sl~~A~s~g~~~~~ii~~L~~~sk~------ 87 (732)
T TIGR00603 22 DGHIFLES--------FSPLYKQAQDFLVAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLETEDIIEVLGRLSKT------ 87 (732)
T ss_pred CCeEEEEe--------CCccHHHHHHHHHHhcccccChhheEEEeccHHHHHHHHHcCCCHHHHHHHHHHHhCC------
Confidence 46666666 34443 3 7899999999999999999999999999999999999999999999843
Q ss_pred CCCChhHHHHHHHHHHhcCceeec--cceeeccCCCHHHHHHHHHH
Q 023328 205 PSVPENVCDQIRLWESDLNRVEMT--PAHYYEEFPSRDVFEAACDY 248 (284)
Q Consensus 205 p~lP~tV~dQIrLWe~E~~R~~~~--~g~Ly~~f~s~~~fe~~~~y 248 (284)
.||++|++.|+.+-.-.+++++. +.--|-+-.+.+..+.+.+.
T Consensus 88 -~~p~~i~~~i~~~~~~ygk~klv~~~~~~~~es~~~~~l~~l~~~ 132 (732)
T TIGR00603 88 -PIPKGIIEFIRLCTQSYGKVKLVLKHNRYFVESPHPEVLQRLLKD 132 (732)
T ss_pred -CCCHHHHHHHHHHHHhcCcEEEEEcCCceEEecCCHHHHHHHHhc
Confidence 79999999999999999999872 22223344555666655543
No 7
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=92.11 E-value=0.15 Score=33.22 Aligned_cols=22 Identities=36% Similarity=0.525 Sum_probs=17.7
Q ss_pred HHHHHHHcCCCHHHHHHHHhhc
Q 023328 174 SLYNAFENGITAEQIISFLQQN 195 (284)
Q Consensus 174 Sv~~Al~~GITA~QIi~fL~~h 195 (284)
=|++|...|||.+||-.||+.+
T Consensus 8 Li~eA~~~Gls~eeir~FL~~~ 29 (30)
T PF08671_consen 8 LIKEAKESGLSKEEIREFLEFN 29 (30)
T ss_dssp HHHHHHHTT--HHHHHHHHHHH
T ss_pred HHHHHHHcCCCHHHHHHHHHhC
Confidence 3689999999999999999864
No 8
>PRK05718 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=85.14 E-value=12 Score=34.17 Aligned_cols=162 Identities=18% Similarity=0.220 Sum_probs=102.9
Q ss_pred CCHHHHHHHHHhhhcCeeeEeeC-CCcceecchhhHHhhhcCCCcccccCcceEEEeeCceEEEecCChhHHHHHHHHHh
Q 023328 79 LSEIQRSMIKDFADLGLVKLQQG-RKESWFIPTKLATNLSMSLTDSSARKEGFVVVETNFRMYAYSTSKLHCEILRLFSK 157 (284)
Q Consensus 79 Lt~~q~~~L~~l~~~GLvy~~~~-~~~~fy~pT~La~~L~~~~~~~~~~~~g~IIvETNFrvYAYT~S~lqiaiL~lF~~ 157 (284)
+++++..+++.|.+-|+|-.-+. +..... +++-.|.. .|.=++|--++ +|-- +..+.+
T Consensus 1 ~~~~~~~~~~~l~~~~~iaV~r~~~~~~a~---~i~~al~~---------~Gi~~iEitl~------~~~~---~~~I~~ 59 (212)
T PRK05718 1 MKNWKTSIEEILRAGPVVPVIVINKLEDAV---PLAKALVA---------GGLPVLEVTLR------TPAA---LEAIRL 59 (212)
T ss_pred CchhHHHHHHHHHHCCEEEEEEcCCHHHHH---HHHHHHHH---------cCCCEEEEecC------CccH---HHHHHH
Confidence 47888999999999999966543 222222 22222222 35667776643 3433 344455
Q ss_pred hHhcCCceEEE---EeCHHHHHHHHHcCC-------CHHHHHHHHhhcCCccccccCCCCCh--hHHHHHHHHHHhcCce
Q 023328 158 IEYQLPNLIVG---AITKESLYNAFENGI-------TAEQIISFLQQNAHPRVADRIPSVPE--NVCDQIRLWESDLNRV 225 (284)
Q Consensus 158 l~~r~Pnlvvg---~iTReSv~~Al~~GI-------TA~QIi~fL~~hAHp~m~~~~p~lP~--tV~dQIrLWe~E~~R~ 225 (284)
+..+||++.|| ++|.+.++.|++.|- ..+.+|++-..+-.| .+|- |..+=...|+.-.+-+
T Consensus 60 l~~~~p~~~IGAGTVl~~~~a~~a~~aGA~FivsP~~~~~vi~~a~~~~i~-------~iPG~~TptEi~~a~~~Ga~~v 132 (212)
T PRK05718 60 IAKEVPEALIGAGTVLNPEQLAQAIEAGAQFIVSPGLTPPLLKAAQEGPIP-------LIPGVSTPSELMLGMELGLRTF 132 (212)
T ss_pred HHHHCCCCEEEEeeccCHHHHHHHHHcCCCEEECCCCCHHHHHHHHHcCCC-------EeCCCCCHHHHHHHHHCCCCEE
Confidence 56679999999 899999999999984 355899888876544 6665 4466444888888888
Q ss_pred eeccceeeccCCCHHHHHHHHHHHHHcCeEeeecCCCceEEEeccccHHHHHHHhh
Q 023328 226 EMTPAHYYEEFPSRDVFEAACDYARDRSGLLWEDSKKMRLVVNAEIHMHMREFLRG 281 (284)
Q Consensus 226 ~~~~g~Ly~~f~s~~~fe~~~~yA~~~g~llw~~~~kr~~~V~~~~h~~v~~f~k~ 281 (284)
++.|+-.+- =.+|-+.+...+ +.-+.+.+.-=.-+.+++|++.
T Consensus 133 KlFPa~~~g----------g~~~lk~l~~p~---p~~~~~ptGGV~~~ni~~~l~a 175 (212)
T PRK05718 133 KFFPAEASG----------GVKMLKALAGPF---PDVRFCPTGGISPANYRDYLAL 175 (212)
T ss_pred EEccchhcc----------CHHHHHHHhccC---CCCeEEEeCCCCHHHHHHHHhC
Confidence 885533220 134555544332 3344444434444778888874
No 9
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=74.21 E-value=5.9 Score=41.47 Aligned_cols=89 Identities=22% Similarity=0.346 Sum_probs=69.6
Q ss_pred CcceEEEeeCceEEEecCChhHHHHHHHHHhhHhcCCceEEEEeCHHHHHHHHHcCCCHHHHHHHHhhcCCccccccCCC
Q 023328 127 KEGFVVVETNFRMYAYSTSKLHCEILRLFSKIEYQLPNLIVGAITKESLYNAFENGITAEQIISFLQQNAHPRVADRIPS 206 (284)
Q Consensus 127 ~~g~IIvETNFrvYAYT~S~lqiaiL~lF~~l~~r~Pnlvvg~iTReSv~~Al~~GITA~QIi~fL~~hAHp~m~~~~p~ 206 (284)
.+|.||+||==-+|-+ -...|--.+|..+|=-.+.=+.||-=|+..|..-|.+-+.||++|..-+.. .
T Consensus 81 ~dG~IfLEsFsp~ykq-----A~DFLiaIaEPvcRP~~iHEy~lTaySLYAAVSVGL~T~dIie~L~rlSKt-------~ 148 (776)
T KOG1123|consen 81 PDGHIFLETFSPLYKQ-----AQDFLIAIAEPVCRPEHIHEYKLTAYSLYAAVSVGLQTEDIIEVLDRLSKT-------P 148 (776)
T ss_pred CCCeEEeeecCHHHHh-----HhhhhhhhccccCChhhhhhhcchhhhhhhhhccccchHHHHHHHHHhccC-------C
Confidence 4689999974222221 124555567888888888899999999999999999999999999977644 7
Q ss_pred CChhHHHHHHHHHHhcCceee
Q 023328 207 VPENVCDQIRLWESDLNRVEM 227 (284)
Q Consensus 207 lP~tV~dQIrLWe~E~~R~~~ 227 (284)
||+.|++=|++--..-+.++.
T Consensus 149 lp~~ii~FI~~cT~sYGKVKL 169 (776)
T KOG1123|consen 149 LPESIIEFIRACTVSYGKVKL 169 (776)
T ss_pred CCHHHHHHHHHHhhccccEEE
Confidence 999999999988777666553
No 10
>TIGR01615 A_thal_3542 uncharacterized plant-specific domain TIGR01615. of a number of uncharacterized plant proteins. The domain is strongly conserved (greater than 30 % sequence identity between most pairs of members) but flanked by highly divergent regions including stretches of low-complexity sequence.
Probab=72.39 E-value=1.8 Score=37.07 Aligned_cols=65 Identities=18% Similarity=0.387 Sum_probs=48.7
Q ss_pred CcceEEEeeCceEEEecCChhHH-HHHHHHHhhHhcCCceEEEEeCHHHHHHHHHcCCCHHHHHHHHhhcCCccccccCC
Q 023328 127 KEGFVVVETNFRMYAYSTSKLHC-EILRLFSKIEYQLPNLIVGAITKESLYNAFENGITAEQIISFLQQNAHPRVADRIP 205 (284)
Q Consensus 127 ~~g~IIvETNFrvYAYT~S~lqi-aiL~lF~~l~~r~Pnlvvg~iTReSv~~Al~~GITA~QIi~fL~~hAHp~m~~~~p 205 (284)
....+|||.||| +.+.| .==.-+..+...+|.+.||...| -.||++.+-..|--.|++++-
T Consensus 47 ~~~R~iVd~dFr------~~FeiARpt~~Y~~ll~~LP~vFVG~~~r------------L~~iV~~mc~Aak~Slk~~gm 108 (131)
T TIGR01615 47 QEMRVIIDLDFR------SEFEIARPTEEYKRLLESLPEVFVGTTER------------LRQLVRLMCDAAKKSLKKKGM 108 (131)
T ss_pred CcceEEEeccch------hhceecCCCHHHHHHHHhCCcceECCHHH------------HHHHHHHHHHHHHHHHHHcCC
Confidence 345799999998 44444 11223567777899999996554 368999999988888888877
Q ss_pred CCCh
Q 023328 206 SVPE 209 (284)
Q Consensus 206 ~lP~ 209 (284)
-+||
T Consensus 109 hlPP 112 (131)
T TIGR01615 109 PLPP 112 (131)
T ss_pred CCCC
Confidence 7888
No 11
>PF01081 Aldolase: KDPG and KHG aldolase; InterPro: IPR000887 4-Hydroxy-2-oxoglutarate aldolase (4.1.3.16 from EC) (KHG-aldolase) catalyzes the interconversion of 4-hydroxy-2-oxoglutarate into pyruvate and glyoxylate. Phospho-2-dehydro-3-deoxygluconate aldolase (4.1.2.14 from EC) (KDPG-aldolase) catalyzes the interconversion of 6-phospho-2-dehydro-3-deoxy-D-gluconate into pyruvate and glyceraldehyde 3-phosphate. These two enzymes are structurally and functionally related []. They are both homotrimeric proteins of approximately 220 amino-acid residues. They are class I aldolases whose catalytic mechanism involves the formation of a Schiff-base intermediate between the substrate and the epsilon-amino group of a lysine residue. In both enzymes, an arginine is required for catalytic activity.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VCR_A 1FQ0_A 1EUN_A 1EUA_B 1FWR_A 2C0A_B 1WBH_A 1WAU_A 2YW3_B 2YW4_A ....
Probab=68.73 E-value=13 Score=33.54 Aligned_cols=125 Identities=18% Similarity=0.312 Sum_probs=78.6
Q ss_pred cceEEEeeCceEEEecCChhHHHHHHHHHhhHhcCCceEEE---EeCHHHHHHHHHcCC-------CHHHHHHHHhhcCC
Q 023328 128 EGFVVVETNFRMYAYSTSKLHCEILRLFSKIEYQLPNLIVG---AITKESLYNAFENGI-------TAEQIISFLQQNAH 197 (284)
Q Consensus 128 ~g~IIvETNFrvYAYT~S~lqiaiL~lF~~l~~r~Pnlvvg---~iTReSv~~Al~~GI-------TA~QIi~fL~~hAH 197 (284)
.|.=++|--|| +|--. ....++..++|+|.|| ++|.|.+++|.+.|- .-++++.+-+.+-.
T Consensus 32 gGi~~iEiT~~------t~~a~---~~I~~l~~~~p~~~vGAGTV~~~e~a~~a~~aGA~FivSP~~~~~v~~~~~~~~i 102 (196)
T PF01081_consen 32 GGIRAIEITLR------TPNAL---EAIEALRKEFPDLLVGAGTVLTAEQAEAAIAAGAQFIVSPGFDPEVIEYAREYGI 102 (196)
T ss_dssp TT--EEEEETT------STTHH---HHHHHHHHHHTTSEEEEES--SHHHHHHHHHHT-SEEEESS--HHHHHHHHHHTS
T ss_pred CCCCEEEEecC------CccHH---HHHHHHHHHCCCCeeEEEeccCHHHHHHHHHcCCCEEECCCCCHHHHHHHHHcCC
Confidence 46677888776 33333 3344556678999999 899999999999994 46789999888877
Q ss_pred ccccccCCCCCh--hHHHHHHHHHHhcCceeeccceeeccCCCHHHHHHHHHHHHHcCeEeeecCCCceEEEeccccHHH
Q 023328 198 PRVADRIPSVPE--NVCDQIRLWESDLNRVEMTPAHYYEEFPSRDVFEAACDYARDRSGLLWEDSKKMRLVVNAEIHMHM 275 (284)
Q Consensus 198 p~m~~~~p~lP~--tV~dQIrLWe~E~~R~~~~~g~Ly~~f~s~~~fe~~~~yA~~~g~llw~~~~kr~~~V~~~~h~~v 275 (284)
| .+|= |..+=...|+.-.+-+++.++-.+- =.+|.+++...+ +.-+.+.+.-=.-+++
T Consensus 103 ~-------~iPG~~TptEi~~A~~~G~~~vK~FPA~~~G----------G~~~ik~l~~p~---p~~~~~ptGGV~~~N~ 162 (196)
T PF01081_consen 103 P-------YIPGVMTPTEIMQALEAGADIVKLFPAGALG----------GPSYIKALRGPF---PDLPFMPTGGVNPDNL 162 (196)
T ss_dssp E-------EEEEESSHHHHHHHHHTT-SEEEETTTTTTT----------HHHHHHHHHTTT---TT-EEEEBSS--TTTH
T ss_pred c-------ccCCcCCHHHHHHHHHCCCCEEEEecchhcC----------cHHHHHHHhccC---CCCeEEEcCCCCHHHH
Confidence 6 6773 6777778899999999999976651 124455543221 2223333323334668
Q ss_pred HHHHhh
Q 023328 276 REFLRG 281 (284)
Q Consensus 276 ~~f~k~ 281 (284)
++|++.
T Consensus 163 ~~~l~a 168 (196)
T PF01081_consen 163 AEYLKA 168 (196)
T ss_dssp HHHHTS
T ss_pred HHHHhC
Confidence 888874
No 12
>PRK07114 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=67.56 E-value=78 Score=29.19 Aligned_cols=157 Identities=14% Similarity=0.170 Sum_probs=99.4
Q ss_pred HHHHHHhhhcCeeeEeeC-CCcceecchhhHHhhhcCCCcccccCcceEEEeeCceEEEecCChhHHHHHHHHH-hhHhc
Q 023328 84 RSMIKDFADLGLVKLQQG-RKESWFIPTKLATNLSMSLTDSSARKEGFVVVETNFRMYAYSTSKLHCEILRLFS-KIEYQ 161 (284)
Q Consensus 84 ~~~L~~l~~~GLvy~~~~-~~~~fy~pT~La~~L~~~~~~~~~~~~g~IIvETNFrvYAYT~S~lqiaiL~lF~-~l~~r 161 (284)
..+++.|.+.|+|-.-+. +...-. +++-.|. +.|.=++|-=|| +|--...+.... +...+
T Consensus 6 ~~~~~~l~~~~vi~Vvr~~~~~~a~---~~~~al~---------~gGi~~iEiT~~------tp~a~~~i~~l~~~~~~~ 67 (222)
T PRK07114 6 IAVLTAMKATGMVPVFYHADVEVAK---KVIKACY---------DGGARVFEFTNR------GDFAHEVFAELVKYAAKE 67 (222)
T ss_pred HHHHHHHHhCCEEEEEEcCCHHHHH---HHHHHHH---------HCCCCEEEEeCC------CCcHHHHHHHHHHHHHhh
Confidence 357788888899865432 222211 2222222 236566776664 344444444333 44467
Q ss_pred CCceEEE---EeCHHHHHHHHHcCC-------CHHHHHHHHhhcCCccccccCCCCCh--hHHHHHHHHHHhcCceeecc
Q 023328 162 LPNLIVG---AITKESLYNAFENGI-------TAEQIISFLQQNAHPRVADRIPSVPE--NVCDQIRLWESDLNRVEMTP 229 (284)
Q Consensus 162 ~Pnlvvg---~iTReSv~~Al~~GI-------TA~QIi~fL~~hAHp~m~~~~p~lP~--tV~dQIrLWe~E~~R~~~~~ 229 (284)
+|++.|| ++|.+.++.|.+.|- .-..++++.+.+-.| .+|= |..+=..-|+.=.+-+++.+
T Consensus 68 ~p~~~vGaGTVl~~e~a~~a~~aGA~FiVsP~~~~~v~~~~~~~~i~-------~iPG~~TpsEi~~A~~~Ga~~vKlFP 140 (222)
T PRK07114 68 LPGMILGVGSIVDAATAALYIQLGANFIVTPLFNPDIAKVCNRRKVP-------YSPGCGSLSEIGYAEELGCEIVKLFP 140 (222)
T ss_pred CCCeEEeeEeCcCHHHHHHHHHcCCCEEECCCCCHHHHHHHHHcCCC-------EeCCCCCHHHHHHHHHCCCCEEEECc
Confidence 9999999 899999999999995 456888888877666 6664 67777888999999999988
Q ss_pred ceeeccCCCHHHHHHHHHHHHHcCeEeeecCCCceEEEecccc----HHHHHHHhh
Q 023328 230 AHYYEEFPSRDVFEAACDYARDRSGLLWEDSKKMRLVVNAEIH----MHMREFLRG 281 (284)
Q Consensus 230 g~Ly~~f~s~~~fe~~~~yA~~~g~llw~~~~kr~~~V~~~~h----~~v~~f~k~ 281 (284)
+-.+. ..|-+.+...+ +.-+ |+...|- +++.+|++.
T Consensus 141 A~~~G-----------~~~ikal~~p~---p~i~--~~ptGGV~~~~~n~~~yl~a 180 (222)
T PRK07114 141 GSVYG-----------PGFVKAIKGPM---PWTK--IMPTGGVEPTEENLKKWFGA 180 (222)
T ss_pred ccccC-----------HHHHHHHhccC---CCCe--EEeCCCCCcchhcHHHHHhC
Confidence 65431 45556654333 2222 3333333 578888763
No 13
>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=67.33 E-value=23 Score=32.21 Aligned_cols=125 Identities=15% Similarity=0.249 Sum_probs=83.1
Q ss_pred cceEEEeeCceEEEecCChhHHHHHHHHHhhHhcCCceEEE---EeCHHHHHHHHHcCC-------CHHHHHHHHhhcCC
Q 023328 128 EGFVVVETNFRMYAYSTSKLHCEILRLFSKIEYQLPNLIVG---AITKESLYNAFENGI-------TAEQIISFLQQNAH 197 (284)
Q Consensus 128 ~g~IIvETNFrvYAYT~S~lqiaiL~lF~~l~~r~Pnlvvg---~iTReSv~~Al~~GI-------TA~QIi~fL~~hAH 197 (284)
.|.=++|-.|+ +|--. ..+.++..++|++.|| ++|.+.+++|.+.|- .-+.++.+-+.+-.
T Consensus 28 gGi~~iEit~~------tp~a~---~~I~~l~~~~~~~~vGAGTVl~~e~a~~ai~aGA~FivSP~~~~~vi~~a~~~~i 98 (201)
T PRK06015 28 GGLPAIEITLR------TPAAL---DAIRAVAAEVEEAIVGAGTILNAKQFEDAAKAGSRFIVSPGTTQELLAAANDSDV 98 (201)
T ss_pred CCCCEEEEeCC------CccHH---HHHHHHHHHCCCCEEeeEeCcCHHHHHHHHHcCCCEEECCCCCHHHHHHHHHcCC
Confidence 46667777765 33333 3445566778999999 899999999999995 45788888887765
Q ss_pred ccccccCCCCCh--hHHHHHHHHHHhcCceeeccceeeccCCCHHHHHHHHHHHHHcCeEeeecCCCceEEEeccccHHH
Q 023328 198 PRVADRIPSVPE--NVCDQIRLWESDLNRVEMTPAHYYEEFPSRDVFEAACDYARDRSGLLWEDSKKMRLVVNAEIHMHM 275 (284)
Q Consensus 198 p~m~~~~p~lP~--tV~dQIrLWe~E~~R~~~~~g~Ly~~f~s~~~fe~~~~yA~~~g~llw~~~~kr~~~V~~~~h~~v 275 (284)
| .+|= |..+=..-|+.=-+-+++.++-++- . .+|.+.+...+ +.-+++-+.-=.-+++
T Consensus 99 ~-------~iPG~~TptEi~~A~~~Ga~~vK~FPa~~~G---G-------~~yikal~~pl---p~~~l~ptGGV~~~n~ 158 (201)
T PRK06015 99 P-------LLPGAATPSEVMALREEGYTVLKFFPAEQAG---G-------AAFLKALSSPL---AGTFFCPTGGISLKNA 158 (201)
T ss_pred C-------EeCCCCCHHHHHHHHHCCCCEEEECCchhhC---C-------HHHHHHHHhhC---CCCcEEecCCCCHHHH
Confidence 5 6664 7778888999999999998865441 0 23444443222 2233333223333677
Q ss_pred HHHHhh
Q 023328 276 REFLRG 281 (284)
Q Consensus 276 ~~f~k~ 281 (284)
.+|++.
T Consensus 159 ~~~l~a 164 (201)
T PRK06015 159 RDYLSL 164 (201)
T ss_pred HHHHhC
Confidence 777764
No 14
>TIGR01182 eda Entner-Doudoroff aldolase. 2-deydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) is an enzyme of the Entner-Doudoroff pathway. This aldolase has another function, 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) shown experimentally in Escherichia coli and Pseudomonas putida
Probab=66.98 E-value=59 Score=29.59 Aligned_cols=125 Identities=14% Similarity=0.288 Sum_probs=82.2
Q ss_pred cceEEEeeCceEEEecCChhHHHHHHHHHhhHhcCCceEEE---EeCHHHHHHHHHcCC-------CHHHHHHHHhhcCC
Q 023328 128 EGFVVVETNFRMYAYSTSKLHCEILRLFSKIEYQLPNLIVG---AITKESLYNAFENGI-------TAEQIISFLQQNAH 197 (284)
Q Consensus 128 ~g~IIvETNFrvYAYT~S~lqiaiL~lF~~l~~r~Pnlvvg---~iTReSv~~Al~~GI-------TA~QIi~fL~~hAH 197 (284)
.|.=++|--| ++|--... +.++..++|++.|| ++|.+.+++|.+.|- .-..++.+.+.+--
T Consensus 32 ~Gi~~iEit~------~t~~a~~~---i~~l~~~~~~~~vGAGTVl~~~~a~~a~~aGA~FivsP~~~~~v~~~~~~~~i 102 (204)
T TIGR01182 32 GGLRVLEVTL------RTPVALDA---IRLLRKEVPDALIGAGTVLNPEQLRQAVDAGAQFIVSPGLTPELAKHAQDHGI 102 (204)
T ss_pred cCCCEEEEeC------CCccHHHH---HHHHHHHCCCCEEEEEeCCCHHHHHHHHHcCCCEEECCCCCHHHHHHHHHcCC
Confidence 3555677666 34544444 44455578999999 899999999999994 34577777766543
Q ss_pred ccccccCCCCCh--hHHHHHHHHHHhcCceeeccceeeccCCCHHHHHHHHHHHHHcCeEeeecCCCceEEEeccccHHH
Q 023328 198 PRVADRIPSVPE--NVCDQIRLWESDLNRVEMTPAHYYEEFPSRDVFEAACDYARDRSGLLWEDSKKMRLVVNAEIHMHM 275 (284)
Q Consensus 198 p~m~~~~p~lP~--tV~dQIrLWe~E~~R~~~~~g~Ly~~f~s~~~fe~~~~yA~~~g~llw~~~~kr~~~V~~~~h~~v 275 (284)
|.+|= |-.+=..-|+.--+-+++.++-.+- . .+|-+.+...+ +.-+.+-+.-=.-+++
T Consensus 103 -------~~iPG~~TptEi~~A~~~Ga~~vKlFPA~~~G---G-------~~yikal~~pl---p~i~~~ptGGV~~~N~ 162 (204)
T TIGR01182 103 -------PIIPGVATPSEIMLALELGITALKLFPAEVSG---G-------VKMLKALAGPF---PQVRFCPTGGINLANV 162 (204)
T ss_pred -------cEECCCCCHHHHHHHHHCCCCEEEECCchhcC---C-------HHHHHHHhccC---CCCcEEecCCCCHHHH
Confidence 46664 6777788899999999988865541 0 34556654333 3334443333334778
Q ss_pred HHHHhh
Q 023328 276 REFLRG 281 (284)
Q Consensus 276 ~~f~k~ 281 (284)
.+|++.
T Consensus 163 ~~~l~a 168 (204)
T TIGR01182 163 RDYLAA 168 (204)
T ss_pred HHHHhC
Confidence 888874
No 15
>PRK14529 adenylate kinase; Provisional
Probab=59.74 E-value=72 Score=29.24 Aligned_cols=81 Identities=15% Similarity=0.213 Sum_probs=56.1
Q ss_pred hHhcCCceEEEEeCHHHHHHHHHcCCCHHHHHHHHhhcCCccccccCCCCChhHHHHHHHHHHhcCceeeccceeeccCC
Q 023328 158 IEYQLPNLIVGAITKESLYNAFENGITAEQIISFLQQNAHPRVADRIPSVPENVCDQIRLWESDLNRVEMTPAHYYEEFP 237 (284)
Q Consensus 158 l~~r~Pnlvvg~iTReSv~~Al~~GITA~QIi~fL~~hAHp~m~~~~p~lP~tV~dQIrLWe~E~~R~~~~~g~Ly~~f~ 237 (284)
-.+.++.+.+|.+.|+.+.. ..-.+++|=.|+.. ...+|..++-++-.+.+...- ..|++++.|+
T Consensus 22 ~~~~~~~is~gdllr~~i~~---~t~lg~~i~~~i~~---------G~lvpdei~~~lv~~~l~~~~---~~g~iLDGfP 86 (223)
T PRK14529 22 KKYDLAHIESGAIFREHIGG---GTELGKKAKEYIDR---------GDLVPDDITIPMILETLKQDG---KNGWLLDGFP 86 (223)
T ss_pred HHHCCCCcccchhhhhhccC---CChHHHHHHHHHhc---------cCcchHHHHHHHHHHHHhccC---CCcEEEeCCC
Confidence 34568999999999998743 12234556666653 348999999999888886653 7899999999
Q ss_pred CH-HHHHHHHHHHHHcC
Q 023328 238 SR-DVFEAACDYARDRS 253 (284)
Q Consensus 238 s~-~~fe~~~~yA~~~g 253 (284)
-. +..+.+-+...+.|
T Consensus 87 Rt~~Qa~~l~~~l~~~~ 103 (223)
T PRK14529 87 RNKVQAEKLWEALQKEG 103 (223)
T ss_pred CCHHHHHHHHHHHHhcC
Confidence 86 44444444444444
No 16
>COG1420 HrcA Transcriptional regulator of heat shock gene [Transcription]
Probab=56.32 E-value=8.1 Score=37.96 Aligned_cols=45 Identities=27% Similarity=0.423 Sum_probs=34.1
Q ss_pred ccccccCCCCCHHHHHHHHHhhhcCeeeEeeCCCcceecchhhHHhh
Q 023328 70 ILEAYNLNTLSEIQRSMIKDFADLGLVKLQQGRKESWFIPTKLATNL 116 (284)
Q Consensus 70 lG~~Y~~~~Lt~~q~~~L~~l~~~GLvy~~~~~~~~fy~pT~La~~L 116 (284)
|-+-|..+--+-|-|+.+.+|.++|++++....++| +||.++...
T Consensus 31 L~e~~~l~~SsATIRN~Ma~LE~~GlI~k~HtSsGR--vPT~~Gyr~ 75 (346)
T COG1420 31 LSEKYNLDLSSATIRNEMADLEKLGLIEKPHTSSGR--VPTDKGYRY 75 (346)
T ss_pred HHHHhCCCCCchhHHHHHHHHHHCCCccCccccCCc--CCcHhHHHH
Confidence 334454444479999999999999999998766666 488887654
No 17
>PRK03911 heat-inducible transcription repressor; Provisional
Probab=54.63 E-value=9.7 Score=36.19 Aligned_cols=45 Identities=24% Similarity=0.241 Sum_probs=35.8
Q ss_pred ccccccCCCCCHHHHHHHHHhhhcCeeeEeeCCCcceecchhhHHhh
Q 023328 70 ILEAYNLNTLSEIQRSMIKDFADLGLVKLQQGRKESWFIPTKLATNL 116 (284)
Q Consensus 70 lG~~Y~~~~Lt~~q~~~L~~l~~~GLvy~~~~~~~~fy~pT~La~~L 116 (284)
+.+.|.++--+.|-|+.+.+|.+.|++.++...++| +||..+...
T Consensus 28 L~~~~~l~~SsATIRn~m~~LE~~G~L~qpHtSsGR--IPT~~gyr~ 72 (260)
T PRK03911 28 LKSLMNLKISAATIRNYFKKLSDEGLLTQLHISGGR--IPTIKAMKN 72 (260)
T ss_pred HHHHcCCCCCcHHHHHHHHHHHHCcCccCCcCCCCc--CCCHHHHHH
Confidence 445566655689999999999999999998766666 499888754
No 18
>PF03444 HrcA_DNA-bdg: Winged helix-turn-helix transcription repressor, HrcA DNA-binding; InterPro: IPR005104 Prokaryotic cells have a defence mechanism against a sudden heat-shock stress. Commonly, they induce a set of proteins that protect cellular proteins from being denatured by heat. Among such proteins are the GroE and DnaK chaperones whose transcription is regulated by a heat-shock repressor protein HrcA. HrcA is a winged helix-turn-helix repressor that negatively regulates the transcription of dnaK and groE operons by binding the upstream CIRCE (controlling inverted repeat of chaperone expression) element. In Bacillus subtilis this element is a perfect 9 base pair inverted repeat separated by a 9 base pair spacer. The crystal structure of a heat-inducible transcriptional repressor, HrcA, from Thermotoga maritima has been reported at 2.2A resolution. HrcA is composed of three domains: an N-terminal winged helix-turn-helix domain (WHTH), a GAF-like domain, and an inserted dimerizing domain (IDD). The IDD shows a unique structural fold with an anti-parallel beta-sheet composed of three beta-strands sided by four alpha-helices. HrcA crystallises as a dimer, which is formed through hydrophobic contact between the IDDs and a limited contact that involves conserved residues between the GAF-like domains []. The structural studies suggest that the inactive form of HrcA is the dimer and this is converted to its DNA-binding form by interaction with GroEL, which binds to a conserved C-terminal sequence region [, ]. Comparison of the HrcA-CIRCE complexes from B. subtilis and Bacillus thermoglucosidasius (Geobacillus thermoglucosidasius), which grow at vastly different ranges of temperature shows that the thermostability profiles were consistent with the difference in the growth temperatures suggesting that HrcA can function as a thermosensor to detect temperature changes in cells []. Any increase in temperature causes the dissociation of the HrcA from the CIRCE complex with the concomitant activation of transcription of the groE and dnaK operons. This domain represents the winged helix-turn-helix DNA-binding domain which is located close to the N terminus of HrcA. This domain is also found at the N terminus of a set of uncharacterised proteins that have two C-terminal CBS domains. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent
Probab=52.03 E-value=15 Score=28.92 Aligned_cols=36 Identities=28% Similarity=0.349 Sum_probs=27.0
Q ss_pred CHHHHHHHHHhhhcCeeeEeeCCCcceecchhhHHhh
Q 023328 80 SEIQRSMIKDFADLGLVKLQQGRKESWFIPTKLATNL 116 (284)
Q Consensus 80 t~~q~~~L~~l~~~GLvy~~~~~~~~fy~pT~La~~L 116 (284)
+-|-++.+++|.++|||......+.-+- ||.-|..+
T Consensus 37 ~aTIRN~M~~Le~lGlve~~p~~s~Gri-PT~~aYr~ 72 (78)
T PF03444_consen 37 PATIRNEMADLEELGLVESQPHPSGGRI-PTDKAYRA 72 (78)
T ss_pred hHHHHHHHHHHHHCCCccCCCCCCCCCC-cCHHHHHH
Confidence 6899999999999999985433334444 99877653
No 19
>TIGR03853 matur_matur probable metal-binding protein. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulfatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulfur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulfatase/maturase systems.
Probab=49.68 E-value=24 Score=27.81 Aligned_cols=26 Identities=42% Similarity=0.714 Sum_probs=21.6
Q ss_pred eCHHHHHHHHH--------------cCCCHHHHHHHHhhc
Q 023328 170 ITKESLYNAFE--------------NGITAEQIISFLQQN 195 (284)
Q Consensus 170 iTReSv~~Al~--------------~GITA~QIi~fL~~h 195 (284)
+||+|++.|+. .|.||+++|+||...
T Consensus 18 ~t~~~L~~~i~~~FG~~arFhTCSa~~m~a~~Li~FL~~k 57 (77)
T TIGR03853 18 YTRESLKAAIEQKFGEDARFHTCSAEGMTADELLQFLLKK 57 (77)
T ss_pred cCHHHHHHHHHHHhCCCceEeecccccCCHHHHHHHHHHC
Confidence 47888877774 699999999999865
No 20
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=49.13 E-value=19 Score=29.78 Aligned_cols=75 Identities=19% Similarity=0.309 Sum_probs=49.2
Q ss_pred HhcCCceEEEEeCHHHHHHHHHcCCCHHHHHHHHhhcCCccccccCCCCChhHHHHHHHHHHhcCceeeccceeeccCCC
Q 023328 159 EYQLPNLIVGAITKESLYNAFENGITAEQIISFLQQNAHPRVADRIPSVPENVCDQIRLWESDLNRVEMTPAHYYEEFPS 238 (284)
Q Consensus 159 ~~r~Pnlvvg~iTReSv~~Al~~GITA~QIi~fL~~hAHp~m~~~~p~lP~tV~dQIrLWe~E~~R~~~~~g~Ly~~f~s 238 (284)
.+.++.+.+|.+=|+.+.+ ..-.+++|-++|.+. ..||+.++-++-.++++.. ....|++.+.|+.
T Consensus 19 ~~~~~~is~~~llr~~~~~---~s~~g~~i~~~l~~g---------~~vp~~~v~~ll~~~l~~~--~~~~g~ildGfPr 84 (151)
T PF00406_consen 19 RYGLVHISVGDLLREEIKS---DSELGKQIQEYLDNG---------ELVPDELVIELLKERLEQP--PCNRGFILDGFPR 84 (151)
T ss_dssp HHTSEEEEHHHHHHHHHHT---TSHHHHHHHHHHHTT---------SS--HHHHHHHHHHHHHSG--GTTTEEEEESB-S
T ss_pred hcCcceechHHHHHHHHhh---hhHHHHHHHHHHHhh---------ccchHHHHHHHHHHHHhhh--cccceeeeeeccc
Confidence 3567777777665655532 222357777777654 4899999999988888876 6679999999998
Q ss_pred H-HHHHHHHH
Q 023328 239 R-DVFEAACD 247 (284)
Q Consensus 239 ~-~~fe~~~~ 247 (284)
. +.++.+.+
T Consensus 85 t~~Qa~~l~~ 94 (151)
T PF00406_consen 85 TLEQAEALEE 94 (151)
T ss_dssp SHHHHHHHHH
T ss_pred cHHHHHHHHH
Confidence 5 34444444
No 21
>COG1313 PflX Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]
Probab=47.66 E-value=25 Score=34.46 Aligned_cols=52 Identities=23% Similarity=0.309 Sum_probs=40.5
Q ss_pred HHHHHHHHhhcCCccccccCCCCChhHHHHH----HHHHH-hcCceeeccceeeccCCCHHHHHHHHHHHHHcCe
Q 023328 185 AEQIISFLQQNAHPRVADRIPSVPENVCDQI----RLWES-DLNRVEMTPAHYYEEFPSRDVFEAACDYARDRSG 254 (284)
Q Consensus 185 A~QIi~fL~~hAHp~m~~~~p~lP~tV~dQI----rLWe~-E~~R~~~~~g~Ly~~f~s~~~fe~~~~yA~~~g~ 254 (284)
..-|++|+..|.- .-++-||++|- +-||. |-+ +..+.++|+.+.+||+..|.
T Consensus 273 TkpI~~wiae~~g-------~~~~vNiM~QY~P~ykA~eypeI~-----------R~lt~eE~e~a~~~a~~~gl 329 (335)
T COG1313 273 TKPILRWIAENLG-------NDVRVNIMFQYRPEYKAEEYPEIN-----------RRLTREEYEKALEYAEKLGL 329 (335)
T ss_pred cHHHHHHHHHhCC-------CCeeEEehhhccchhhhhhchhhc-----------ccCCHHHHHHHHHHHHHcCC
Confidence 3568899988852 15778899994 57776 444 56789999999999999985
No 22
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=45.91 E-value=24 Score=25.58 Aligned_cols=30 Identities=20% Similarity=0.361 Sum_probs=22.9
Q ss_pred HHHHHHHHHhhhcCeeeEeeCCCcceecchh
Q 023328 81 EIQRSMIKDFADLGLVKLQQGRKESWFIPTK 111 (284)
Q Consensus 81 ~~q~~~L~~l~~~GLvy~~~~~~~~fy~pT~ 111 (284)
.+-...|+.|.+.|||.....+...|. |.+
T Consensus 37 ~~v~~~L~~L~~~GlV~~~~~~~~~Y~-a~~ 66 (68)
T PF01978_consen 37 STVYRALKSLEEKGLVEREEGRPKVYR-AVP 66 (68)
T ss_dssp HHHHHHHHHHHHTTSEEEEEECCEEEE-EE-
T ss_pred HHHHHHHHHHHHCCCEEEEcCceEEEE-EeC
Confidence 455679999999999999887666666 543
No 23
>PRK00441 argR arginine repressor; Provisional
Probab=45.60 E-value=56 Score=28.23 Aligned_cols=58 Identities=12% Similarity=0.157 Sum_probs=39.4
Q ss_pred hhHHHHHHHHhCCCCCCCCCCCChhHHHHHHhcCCcccchhhhccccccccccccCCCCCHHHHHHHHHhhhcCeeeEee
Q 023328 21 GQWECFLLQLISSAQAERPTNFSSSMMKVFQRGLLIQSILRSLKFLCQGILEAYNLNTLSEIQRSMIKDFADLGLVKLQQ 100 (284)
Q Consensus 21 ~~WE~IL~~mVgs~~~~~~~~~s~~v~~lL~~~~Lm~~~lf~L~~~~~~lG~~Y~~~~Lt~~q~~~L~~l~~~GLvy~~~ 100 (284)
+|.+.|+..+-... ...-.+..+.|+..|+ .-+|-++=+||+++|+|..+.
T Consensus 4 ~R~~~I~~ll~~~~-----~~~q~eL~~~L~~~G~------------------------~vSqaTisRDl~~L~lvKv~~ 54 (149)
T PRK00441 4 SRHAKILEIINSKE-----IETQEELAEELKKMGF------------------------DVTQATVSRDIKELKLIKVLS 54 (149)
T ss_pred HHHHHHHHHHHHcC-----CCcHHHHHHHHHhcCC------------------------CcCHHHHHHHHHHcCcEEeEC
Confidence 56677777665322 2233555565555554 456778889999999999987
Q ss_pred CCCccee
Q 023328 101 GRKESWF 107 (284)
Q Consensus 101 ~~~~~fy 107 (284)
.++...|
T Consensus 55 ~~G~~~Y 61 (149)
T PRK00441 55 NDGKYKY 61 (149)
T ss_pred CCCCEEE
Confidence 7777777
No 24
>PF02244 Propep_M14: Carboxypeptidase activation peptide; InterPro: IPR003146 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. The peptidases are synthesised as inactive molecules, zymogens, with propeptides that must be removed by proteolytic cleavage to activate the enzyme. Structural studies of carboxypeptidases A and B reveal the propeptide to exist as a globular domain, followed by an extended alpha-helix; this shields the catalytic site, without specifically binding to it, while the substrate-binding site is blocked by making specific contacts [, ]. Members of this propeptide family are found in the metallocarboxypeptidases: A1, A2 [], A3, A4, A5, A6, U, insect gut carboxypeptidase and B [], and and are associated with peptidases belonging to MEROPS peptidase family M14A. Carboxypeptidases are found in abundance in pancreatic secretions. The pro-segment moiety (activation peptide) accounts for up to a quarter of the total length of the peptidase.; GO: 0004180 carboxypeptidase activity, 0006508 proteolysis; PDB: 3D68_C 3D67_B 3D66_A 1PBA_A 3GLJ_A 1NSA_A 1KWM_A 2BOA_B 1PYT_A 1JQG_A ....
Probab=45.55 E-value=89 Score=22.80 Aligned_cols=46 Identities=13% Similarity=0.294 Sum_probs=38.5
Q ss_pred CCHHHHHHHHHHHHHcCeEeeecCC----CceEEEeccccHHHHHHHhhc
Q 023328 237 PSRDVFEAACDYARDRSGLLWEDSK----KMRLVVNAEIHMHMREFLRGQ 282 (284)
Q Consensus 237 ~s~~~fe~~~~yA~~~g~llw~~~~----kr~~~V~~~~h~~v~~f~k~~ 282 (284)
.+.+..+.+.+.....++-.|..+. .-.+.|+++....+.+++++.
T Consensus 6 ~t~~q~~~L~~L~~~~~~dfW~~~~~~~~~~dv~V~p~~~~~f~~~L~~~ 55 (74)
T PF02244_consen 6 KTEEQLELLQELEQSNELDFWKEPSSVGRPVDVMVPPEKLEEFEELLKEH 55 (74)
T ss_dssp SSHHHHHHHHHHHHHSTEEEEESSSSTTSEEEEEEEGGGHHHHHHHHHHT
T ss_pred CCHHHHHHHHHHhcccceeeecCCCCCCCeEEEEECHHHHHHHHHHHHHC
Confidence 3567888889999899999998776 247889999999999999864
No 25
>PF01316 Arg_repressor: Arginine repressor, DNA binding domain; InterPro: IPR020900 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0006525 arginine metabolic process; PDB: 1AOY_A 3V4G_A 3LAJ_D 3FHZ_A 3LAP_B 3ERE_D 2P5L_C 1F9N_D 2P5K_A 1B4A_A ....
Probab=43.65 E-value=32 Score=26.30 Aligned_cols=28 Identities=25% Similarity=0.487 Sum_probs=22.0
Q ss_pred CHHHHHHHHHhhhcCeeeEeeCCCccee
Q 023328 80 SEIQRSMIKDFADLGLVKLQQGRKESWF 107 (284)
Q Consensus 80 t~~q~~~L~~l~~~GLvy~~~~~~~~fy 107 (284)
.-||-++=+||+++|+|..+..++...|
T Consensus 35 ~vTQaTiSRDLkeL~~vKv~~~~g~~~Y 62 (70)
T PF01316_consen 35 EVTQATISRDLKELGAVKVPDGNGKYRY 62 (70)
T ss_dssp T--HHHHHHHHHHHT-EEEECTTSSEEE
T ss_pred CcchhHHHHHHHHcCcEEeeCCCCCEEE
Confidence 5689999999999999999977777777
No 26
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=42.69 E-value=62 Score=26.09 Aligned_cols=52 Identities=12% Similarity=0.162 Sum_probs=35.8
Q ss_pred CceEEEE--eCHHHHHHHH----HcCCCHHHHHHHHhhcCCccccccCCCCChhHHHHHHHHHH
Q 023328 163 PNLIVGA--ITKESLYNAF----ENGITAEQIISFLQQNAHPRVADRIPSVPENVCDQIRLWES 220 (284)
Q Consensus 163 Pnlvvg~--iTReSv~~Al----~~GITA~QIi~fL~~hAHp~m~~~~p~lP~tV~dQIrLWe~ 220 (284)
|-+|-|. ++|...--|. ..|.++++.++++++ ++|.+ ..-+...+|++.||.
T Consensus 80 ~VlVHC~~G~~RS~~v~~~yl~~~~~~~~~~A~~~v~~-~R~~~-----~p~~~~~~qL~~~e~ 137 (138)
T smart00195 80 KVLVHCQAGVSRSATLIIAYLMKYRNLSLNDAYDFVKD-RRPII-----SPNFGFLRQLIEYER 137 (138)
T ss_pred eEEEECCCCCchHHHHHHHHHHHHhCCCHHHHHHHHHH-HCCcc-----CCCHhHHHHHHHHhh
Confidence 3344443 5677764332 579999999999975 44643 223589999999985
No 27
>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=42.63 E-value=1.1e+02 Score=27.70 Aligned_cols=117 Identities=17% Similarity=0.325 Sum_probs=76.5
Q ss_pred HHHHHhhhcCeeeEeeCC-CcceecchhhHHhhhcCCCcccccCcceEEEeeCceEEEecCChhHHHHHHHHHhhHhcC-
Q 023328 85 SMIKDFADLGLVKLQQGR-KESWFIPTKLATNLSMSLTDSSARKEGFVVVETNFRMYAYSTSKLHCEILRLFSKIEYQL- 162 (284)
Q Consensus 85 ~~L~~l~~~GLvy~~~~~-~~~fy~pT~La~~L~~~~~~~~~~~~g~IIvETNFrvYAYT~S~lqiaiL~lF~~l~~r~- 162 (284)
.+++.|.+.|++-.-+.. ..... +++-.|. +.|.=++|-=|| +|--.. .+.++..++
T Consensus 5 ~~~~~l~~~~vi~vir~~~~~~a~---~~~~al~---------~~Gi~~iEit~~------~~~a~~---~i~~l~~~~~ 63 (213)
T PRK06552 5 EILTKLKANGVVAVVRGESKEEAL---KISLAVI---------KGGIKAIEVTYT------NPFASE---VIKELVELYK 63 (213)
T ss_pred HHHHHHHHCCEEEEEECCCHHHHH---HHHHHHH---------HCCCCEEEEECC------CccHHH---HHHHHHHHcC
Confidence 357888889988665432 12211 2222222 236667776665 444333 444555567
Q ss_pred --CceEEE---EeCHHHHHHHHHcCC-------CHHHHHHHHhhcCCccccccCCCCCh--hHHHHHHHHHHhcCceeec
Q 023328 163 --PNLIVG---AITKESLYNAFENGI-------TAEQIISFLQQNAHPRVADRIPSVPE--NVCDQIRLWESDLNRVEMT 228 (284)
Q Consensus 163 --Pnlvvg---~iTReSv~~Al~~GI-------TA~QIi~fL~~hAHp~m~~~~p~lP~--tV~dQIrLWe~E~~R~~~~ 228 (284)
|++.|| ++|.+.+++|.+.|- .-+.++.+-+.+-.| .+|= |..+=.+.|+.--+-+++.
T Consensus 64 ~~p~~~vGaGTV~~~~~~~~a~~aGA~FivsP~~~~~v~~~~~~~~i~-------~iPG~~T~~E~~~A~~~Gad~vklF 136 (213)
T PRK06552 64 DDPEVLIGAGTVLDAVTARLAILAGAQFIVSPSFNRETAKICNLYQIP-------YLPGCMTVTEIVTALEAGSEIVKLF 136 (213)
T ss_pred CCCCeEEeeeeCCCHHHHHHHHHcCCCEEECCCCCHHHHHHHHHcCCC-------EECCcCCHHHHHHHHHcCCCEEEEC
Confidence 579999 899999999999994 356788887766655 6664 5555566888888888875
Q ss_pred c
Q 023328 229 P 229 (284)
Q Consensus 229 ~ 229 (284)
+
T Consensus 137 P 137 (213)
T PRK06552 137 P 137 (213)
T ss_pred C
Confidence 5
No 28
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=39.46 E-value=60 Score=27.98 Aligned_cols=18 Identities=44% Similarity=0.652 Sum_probs=14.3
Q ss_pred CcceEEEeeCceEEEecC
Q 023328 127 KEGFVVVETNFRMYAYST 144 (284)
Q Consensus 127 ~~g~IIvETNFrvYAYT~ 144 (284)
..-.|+|+|||=+|.|..
T Consensus 9 ~~~~VlvDTNfl~~~~q~ 26 (136)
T COG1412 9 KPYQVLVDTNFLLYPYQF 26 (136)
T ss_pred CceEEEecchHHHHHHHc
Confidence 345699999998888765
No 29
>PF10678 DUF2492: Protein of unknown function (DUF2492); InterPro: IPR019620 This entry describes a family of small cytosolic proteins, about 80 amino acids in length, in which the eight invariant residues include three His residues and two Cys residues. Two pairs of these invariant residues occur in motifs HxH (where x is A or G) and CxH, both of which suggest metal-binding activity. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulphatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulphur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulphatase/maturase systems.
Probab=39.13 E-value=44 Score=26.35 Aligned_cols=26 Identities=38% Similarity=0.661 Sum_probs=21.6
Q ss_pred eCHHHHHHHHH--------------cCCCHHHHHHHHhhc
Q 023328 170 ITKESLYNAFE--------------NGITAEQIISFLQQN 195 (284)
Q Consensus 170 iTReSv~~Al~--------------~GITA~QIi~fL~~h 195 (284)
+||+++.+|+. .|.||+++|.||...
T Consensus 20 ~t~~~L~~ai~~~FG~~arFhTCSae~m~a~eLv~FL~~r 59 (78)
T PF10678_consen 20 YTKEELKAAIIEKFGEDARFHTCSAEGMTADELVDFLEER 59 (78)
T ss_pred cCHHHHHHHHHHHhCCCceEEecCCCCCCHHHHHHHHHHc
Confidence 57888877774 699999999999865
No 30
>TIGR02425 decarb_PcaC 4-carboxymuconolactone decarboxylase. Members of this family are 4-carboxymuconolactone decarboxylase, which catalyzes the third step in the catabolism of protocatechuate (and therefore the fourth step in the catabolism of para-hydroxybenzoate, of 3-hydroxybenzoate, of vanillate, etc.). Most members of this family are encoded within protocatechuate catabolism operons. This protein is sometimes found as a fusion protein with other enzymes of the pathway, as in Rhodococcus opacus, Streptomyces avermitilis, and Caulobacter crescentus.
Probab=39.05 E-value=37 Score=28.32 Aligned_cols=25 Identities=20% Similarity=0.250 Sum_probs=20.9
Q ss_pred HHHHHHHHHcCCCHHHHHHHHhhcC
Q 023328 172 KESLYNAFENGITAEQIISFLQQNA 196 (284)
Q Consensus 172 ReSv~~Al~~GITA~QIi~fL~~hA 196 (284)
+.-++.|+++|+|.+||..-|..-+
T Consensus 76 ~~h~~~Al~~G~T~~ei~Evl~q~~ 100 (123)
T TIGR02425 76 AMHVRATANTGVTEDDIKEVLLHVA 100 (123)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 4567899999999999999887554
No 31
>KOG4175 consensus Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=38.63 E-value=1.2e+02 Score=28.50 Aligned_cols=77 Identities=21% Similarity=0.235 Sum_probs=51.6
Q ss_pred HHHHHHHHcCCCHHHHHHHHhhcCCcc--------ccccCCCCChhHHHHHHHHHHhcCceeeccceeeccCCCHHHHHH
Q 023328 173 ESLYNAFENGITAEQIISFLQQNAHPR--------VADRIPSVPENVCDQIRLWESDLNRVEMTPAHYYEEFPSRDVFEA 244 (284)
Q Consensus 173 eSv~~Al~~GITA~QIi~fL~~hAHp~--------m~~~~p~lP~tV~dQIrLWe~E~~R~~~~~g~Ly~~f~s~~~fe~ 244 (284)
.+-+.|+.+|+|-++||+-++. |.|+ |.=.+|++---+..-|.-=. + .=.+|++.-|.+ .++.+.
T Consensus 67 ~~n~~aL~ng~tl~~i~emvk~-ar~~gvt~PIiLmgYYNPIl~yG~e~~iq~ak-~----aGanGfiivDlP-pEEa~~ 139 (268)
T KOG4175|consen 67 AANRRALLNGTTLNSIIEMVKE-ARPQGVTCPIILMGYYNPILRYGVENYIQVAK-N----AGANGFIIVDLP-PEEAET 139 (268)
T ss_pred hhHHHHHHcCCcHHHHHHHHHH-hcccCcccceeeeecccHHHhhhHHHHHHHHH-h----cCCCceEeccCC-hHHHHH
Confidence 4568999999999999999874 4555 22234555444444443211 1 124677776655 688999
Q ss_pred HHHHHHHcCeEe
Q 023328 245 ACDYARDRSGLL 256 (284)
Q Consensus 245 ~~~yA~~~g~ll 256 (284)
++++|++.|+-+
T Consensus 140 ~Rne~~k~gisl 151 (268)
T KOG4175|consen 140 LRNEARKHGISL 151 (268)
T ss_pred HHHHHHhcCceE
Confidence 999999999744
No 32
>PF04720 DUF506: Protein of unknown function (DUF506) ; InterPro: IPR006502 This family of uncharacterised plant proteins are defined by a region found toward the C terminus. This region is strongly conserved (greater than 30 % sequence identity between most pairs of members) but flanked by highly divergent regions including stretches of low-complexity sequence.
Probab=36.86 E-value=16 Score=33.74 Aligned_cols=109 Identities=22% Similarity=0.363 Sum_probs=64.5
Q ss_pred CHHHHHHHHHhhhcCee-eEeeCC---CcceecchhhHHhh-hcCCCcccccCcceEEEeeCceEEEecCChhHHH-HHH
Q 023328 80 SEIQRSMIKDFADLGLV-KLQQGR---KESWFIPTKLATNL-SMSLTDSSARKEGFVVVETNFRMYAYSTSKLHCE-ILR 153 (284)
Q Consensus 80 t~~q~~~L~~l~~~GLv-y~~~~~---~~~fy~pT~La~~L-~~~~~~~~~~~~g~IIvETNFrvYAYT~S~lqia-iL~ 153 (284)
+-..+.+...|+..|.- -..|.+ +.. + |. .--.. .--..+++......+|||+||| +.+.|| -=.
T Consensus 87 ~~~rr~v~~~Lr~~GydAaiCkS~W~~s~~-~-p~-g~yeyIdV~~~~~~~~~~~r~IVd~~fr------~~FeiArpt~ 157 (218)
T PF04720_consen 87 SCLRRSVMSRLRALGYDAAICKSRWESSGG-I-PA-GEYEYIDVIVSGSSSGKSERYIVDPDFR------SQFEIARPTP 157 (218)
T ss_pred HHHHHHHHHHHHhCCCCEEEEEecCCCCCC-C-CC-cceeEEEEEECCCCCCcceeEEEecchH------hCeeecCCCH
Confidence 45578899999999974 333321 111 1 10 00000 0000011223456799999998 333331 123
Q ss_pred HHHhhHhcCCceEEEEeCHHHHHHHHHcCCCHHHHHHHHhhcCCccccccCCCCCh
Q 023328 154 LFSKIEYQLPNLIVGAITKESLYNAFENGITAEQIISFLQQNAHPRVADRIPSVPE 209 (284)
Q Consensus 154 lF~~l~~r~Pnlvvg~iTReSv~~Al~~GITA~QIi~fL~~hAHp~m~~~~p~lP~ 209 (284)
-+..+...+|...||...| + .||++.+-.-+.-.|+++.--|||
T Consensus 158 ~Y~~ll~~lP~vfVG~~~~--L----------~~iV~~~c~a~k~s~k~~g~~lPP 201 (218)
T PF04720_consen 158 EYAALLAALPEVFVGTPER--L----------KQIVRLMCDAAKRSFKERGMHLPP 201 (218)
T ss_pred HHHHHHHhCCCceEcCHHH--H----------HHHHHHHHHHHHHHHHHCCCCCCC
Confidence 4566777899999994433 2 578888888888888888777888
No 33
>COG1438 ArgR Arginine repressor [Transcription]
Probab=35.54 E-value=27 Score=30.57 Aligned_cols=27 Identities=26% Similarity=0.484 Sum_probs=23.6
Q ss_pred HHHHHHHHHhhhcCeeeEeeCCCccee
Q 023328 81 EIQRSMIKDFADLGLVKLQQGRKESWF 107 (284)
Q Consensus 81 ~~q~~~L~~l~~~GLvy~~~~~~~~fy 107 (284)
=||-++=+||+++|+|..+..++.++|
T Consensus 37 vTQaTvSRDlkelglvKv~~~~g~~~Y 63 (150)
T COG1438 37 VTQATVSRDLKELGLVKVRNEKGTYVY 63 (150)
T ss_pred EehHHHHHHHHHcCCEEecCCCCcEEE
Confidence 468888999999999999987777778
No 34
>PF09713 A_thal_3526: Plant protein 1589 of unknown function (A_thal_3526); InterPro: IPR006476 This plant-specific family of proteins are defined by an uncharacterised region 57 residues in length. It is found toward the N terminus of most proteins that contain it. Examples include at least several proteins from Arabidopsis thaliana (Mouse-ear cress) and Oryza sativa (Rice). The function of the proteins are unknown.
Probab=32.83 E-value=98 Score=22.76 Aligned_cols=24 Identities=17% Similarity=0.225 Sum_probs=21.3
Q ss_pred HHHHHHHHcCCCHHHHHHHHhhcC
Q 023328 173 ESLYNAFENGITAEQIISFLQQNA 196 (284)
Q Consensus 173 eSv~~Al~~GITA~QIi~fL~~hA 196 (284)
.-|.+.+....|-++++..|..||
T Consensus 3 ~lIErCl~~yMsk~E~v~~L~~~a 26 (54)
T PF09713_consen 3 NLIERCLQLYMSKEECVRALQKQA 26 (54)
T ss_pred hHHHHHHHHcCCHHHHHHHHHHHc
Confidence 347789999999999999999987
No 35
>PF00085 Thioredoxin: Thioredoxin; InterPro: IPR013766 Thioredoxins [, , , ] are small disulphide-containing redox proteins that have been found in all the kingdoms of living organisms. Thioredoxin serves as a general protein disulphide oxidoreductase. It interacts with a broad range of proteins by a redox mechanism based on reversible oxidation of two cysteine thiol groups to a disulphide, accompanied by the transfer of two electrons and two protons. The net result is the covalent interconversion of a disulphide and a dithiol. In the NADPH-dependent protein disulphide reduction, thioredoxin reductase (TR) catalyses the reduction of oxidised thioredoxin (trx) by NADPH using FAD and its redox-active disulphide; reduced thioredoxin then directly reduces the disulphide in the substrate protein []. Thioredoxin is present in prokaryotes and eukaryotes and the sequence around the redox-active disulphide bond is well conserved. All thioredoxins contain a cis-proline located in a loop preceding beta-strand 4, which makes contact with the active site cysteines, and is important for stability and function []. Thioredoxin belongs to a structural family that includes glutaredoxin, glutathione peroxidase, bacterial protein disulphide isomerase DsbA, and the N-terminal domain of glutathione transferase []. Thioredoxins have a beta-alpha unit preceding the motif common to all these proteins. A number of eukaryotic proteins contain domains evolutionary related to thioredoxin, most of them are protein disulphide isomerases (PDI). PDI (5.3.4.1 from EC) [, , ] is an endoplasmic reticulum multi-functional enzyme that catalyses the formation and rearrangement of disulphide bonds during protein folding []. All PDI contains two or three (ERp72) copies of the thioredoxin domain, each of which contributes to disulphide isomerase activity, but which are functionally non-equivalent []. Moreover, PDI exhibits chaperone-like activity towards proteins that contain no disulphide bonds, i.e. behaving independently of its disulphide isomerase activity []. The various forms of PDI which are currently known are: PDI major isozyme; a multifunctional protein that also function as the beta subunit of prolyl 4-hydroxylase (1.14.11.2 from EC), as a component of oligosaccharyl transferase (2.4.1.119 from EC), as thyroxine deiodinase (3.8.1.4 from EC), as glutathione-insulin transhydrogenase (1.8.4.2 from EC) and as a thyroid hormone-binding protein ERp60 (ER-60; 58 Kd microsomal protein). ERp60 was originally thought to be a phosphoinositide-specific phospholipase C isozyme and later to be a protease. ERp72. ERp5. Bacterial proteins that act as thiol:disulphide interchange proteins that allows disulphide bond formation in some periplasmic proteins also contain a thioredoxin domain. These proteins include: Escherichia coli DsbA (or PrfA) and its orthologs in Vibrio cholerae (TtcpG) and Haemophilus influenzae (Por). E. coli DsbC (or XpRA) and its orthologues in Erwinia chrysanthemi and H. influenzae. E. coli DsbD (or DipZ) and its H. influenzae orthologue. E. coli DsbE (or CcmG) and orthologues in H. influenzae. Rhodobacter capsulatus (Rhodopseudomonas capsulata) (HelX), Rhiziobiacae (CycY and TlpA). This entry represents the thioredoxin domain.; GO: 0045454 cell redox homeostasis; PDB: 3ED3_B 1EP7_A 1EP8_B 1TOF_A 2OE3_B 2OE1_B 2OE0_B 1V98_A 3H79_A 3CXG_A ....
Probab=32.82 E-value=1.2e+02 Score=22.34 Aligned_cols=37 Identities=14% Similarity=0.272 Sum_probs=27.0
Q ss_pred EEEecCChhHH-HHHHHHHhhHhcCC-ceEEEEeCHHHH
Q 023328 139 MYAYSTSKLHC-EILRLFSKIEYQLP-NLIVGAITKESL 175 (284)
Q Consensus 139 vYAYT~S~lqi-aiL~lF~~l~~r~P-nlvvg~iTReSv 175 (284)
|+-|++.--++ ++...|.++...++ ++..+.+.-+.-
T Consensus 22 v~f~~~~C~~C~~~~~~~~~~~~~~~~~v~~~~vd~~~~ 60 (103)
T PF00085_consen 22 VYFYAPWCPPCKAFKPILEKLAKEYKDNVKFAKVDCDEN 60 (103)
T ss_dssp EEEESTTSHHHHHHHHHHHHHHHHTTTTSEEEEEETTTS
T ss_pred EEEeCCCCCccccccceecccccccccccccchhhhhcc
Confidence 35566666666 67778888888888 888888776543
No 36
>PF03965 Penicillinase_R: Penicillinase repressor; InterPro: IPR005650 Proteins in this entry are transcriptional regulators found in a variety of bacteria and a small number of archaea. Many are BlaI/MecI proteins which regulate resistance to penicillins (beta-lactams), though at least one protein (Q47839 from SWISSPROT) appears to be involved in the regulation of copper homeostasis []. BlaI regulators repress the expression of penicillin-degrading enzymes (penicillinases) until the cell encounters the antiobiotic, at which point repression ceases and penicillinase expression occurs, allowing cell growth []. MecI regulators repress the expression of MecA, a cell-wall biosynthetic enzyme not inhibited by penicillins at clinically achievable concentrations, until the presence of the antibiotic is detected []. At this point repression ends and MecA expression occurs which, together with the switching off of the penicillin-sensitive enzymes, allows the cell to grow despite the presence of antibiotic.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2G9W_A 2K4B_A 1XSD_A 1SD4_A 1SD7_A 1SD6_A 2P7C_B 1P6R_A 1OKR_B 2D45_B ....
Probab=31.18 E-value=58 Score=26.19 Aligned_cols=30 Identities=7% Similarity=0.265 Sum_probs=23.0
Q ss_pred HHHHHHHHHhhhcCeeeEeeCCCcceecch
Q 023328 81 EIQRSMIKDFADLGLVKLQQGRKESWFIPT 110 (284)
Q Consensus 81 ~~q~~~L~~l~~~GLvy~~~~~~~~fy~pT 110 (284)
.|-+.+|+.|.+-|+|-..+....++|.|+
T Consensus 36 sTv~t~L~rL~~Kg~l~~~~~gr~~~Y~p~ 65 (115)
T PF03965_consen 36 STVQTLLNRLVEKGFLTREKIGRAYVYSPL 65 (115)
T ss_dssp HHHHHHHHHHHHTTSEEEEEETTCEEEEES
T ss_pred hHHHHHHHHHHhCCceeEeecCCceEEEeC
Confidence 678999999999999988865445555343
No 37
>PF03918 CcmH: Cytochrome C biogenesis protein; InterPro: IPR005616 Members of this family include NrfF, CcmH, CycL, Ccl2.; PDB: 2KW0_A 2HL7_A.
Probab=31.17 E-value=45 Score=28.86 Aligned_cols=30 Identities=17% Similarity=0.328 Sum_probs=23.0
Q ss_pred HHHHHHHHHcCCCHHHHHHHHhhcCCcccc
Q 023328 172 KESLYNAFENGITAEQIISFLQQNAHPRVA 201 (284)
Q Consensus 172 ReSv~~Al~~GITA~QIi~fL~~hAHp~m~ 201 (284)
|+-|++-+..|-|.+||++|+.+.-=+...
T Consensus 63 R~~I~~~l~~G~s~~eI~~~~v~rYG~~Vl 92 (148)
T PF03918_consen 63 RREIREMLAEGKSDEEIIDYFVERYGEFVL 92 (148)
T ss_dssp HHHHHHHHHHT--HHHHHHHHHHHHTTT-E
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhcCccee
Confidence 778999999999999999999987655544
No 38
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=29.48 E-value=1e+02 Score=26.25 Aligned_cols=34 Identities=24% Similarity=0.399 Sum_probs=26.9
Q ss_pred HHHHHHHHHcCCCHHHHHHHHhhcCCccccccCC
Q 023328 172 KESLYNAFENGITAEQIISFLQQNAHPRVADRIP 205 (284)
Q Consensus 172 ReSv~~Al~~GITA~QIi~fL~~hAHp~m~~~~p 205 (284)
|+-|++-+..|-|-+||++|+...-=....-++|
T Consensus 63 R~~Vr~~i~~G~Sd~eI~~~~v~RYG~~Vly~Pp 96 (126)
T TIGR03147 63 RHEVYSMVNEGKSNQQIIDFMTARFGDFVLYNPP 96 (126)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhcCCeEEecCC
Confidence 7789999999999999999999876544443333
No 39
>PF04023 FeoA: FeoA domain; InterPro: IPR007167 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria. This domain also occurs at the C terminus in related proteins. The transporter Feo is composed of three proteins: FeoA a small, soluble SH3-domain protein probably located in the cytosol; FeoB, a large protein with a cytosolic N-terminal G-protein domain and a C-terminal integral inner-membrane domain containing two 'Gate' motifs which likely functions as the Fe2+ permease; and FeoC, a small protein apparently functioning as an [Fe-S]-dependent transcriptional repressor [, ]. Feo allows the bacterial cell to acquire iron from its environment. ; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 1G3T_A 1C0W_B 1BI3_A 1QVP_A 1BI1_A 1BYM_A 2QQB_A ....
Probab=29.39 E-value=13 Score=27.30 Aligned_cols=33 Identities=27% Similarity=0.334 Sum_probs=27.3
Q ss_pred hhccccccccccccCCCCCHHHHHHHHHhhhcCee
Q 023328 62 SLKFLCQGILEAYNLNTLSEIQRSMIKDFADLGLV 96 (284)
Q Consensus 62 ~L~~~~~~lG~~Y~~~~Lt~~q~~~L~~l~~~GLv 96 (284)
.|+.+. .|+.|-+..+.+....+++.|.++||.
T Consensus 2 ~L~~~~--~g~~~~I~~i~~~d~~~~~~L~~lGl~ 34 (74)
T PF04023_consen 2 PLSELP--PGERARIVRISDEDPELLRRLADLGLT 34 (74)
T ss_dssp BGGGSS--TTEEEEEEEESTSSHHHHHHHHHCT-S
T ss_pred ChhHCC--CCCEEEEEEEECCCHHHHHHHHHCCCC
Confidence 367778 999999988887668999999999995
No 40
>PF13833 EF-hand_8: EF-hand domain pair; PDB: 3KF9_A 1TTX_A 1WLZ_A 1ALV_A 1NX3_A 1ALW_A 1NX2_A 1NX1_A 1NX0_A 1DF0_A ....
Probab=28.65 E-value=67 Score=21.77 Aligned_cols=20 Identities=35% Similarity=0.689 Sum_probs=15.6
Q ss_pred EEeCHHHHHHHHHc-C---CCHHH
Q 023328 168 GAITKESLYNAFEN-G---ITAEQ 187 (284)
Q Consensus 168 g~iTReSv~~Al~~-G---ITA~Q 187 (284)
|.||++.++.|+.. | +|.++
T Consensus 3 G~i~~~~~~~~l~~~g~~~~s~~e 26 (54)
T PF13833_consen 3 GKITREEFRRALSKLGIKDLSEEE 26 (54)
T ss_dssp SEEEHHHHHHHHHHTTSSSSCHHH
T ss_pred CEECHHHHHHHHHHhCCCCCCHHH
Confidence 78999999999965 5 55555
No 41
>PF12637 TSCPD: TSCPD domain; InterPro: IPR024434 The domain is found in isolation in many proteins where it has a conserved C-terminal motif TSCPD, after which the domain is named. Most copies of the domain possess 4 conserved cysteines that may be part of an Iron-sulphur cluster. This domain is found at the C terminus of some ribonucleoside-diphosphate reductase enzymes.
Probab=28.64 E-value=1e+02 Score=24.42 Aligned_cols=54 Identities=19% Similarity=0.087 Sum_probs=34.9
Q ss_pred HHHHHHHHhhHhcCCceEEEEeCHHHHHHHHHcCCCHHHHHHHHhhcCCccccccCCCCChhHHHHHHHH
Q 023328 149 CEILRLFSKIEYQLPNLIVGAITKESLYNAFENGITAEQIISFLQQNAHPRVADRIPSVPENVCDQIRLW 218 (284)
Q Consensus 149 iaiL~lF~~l~~r~Pnlvvg~iTReSv~~Al~~GITA~QIi~fL~~hAHp~m~~~~p~lP~tV~dQIrLW 218 (284)
-+.+.-++++.. -||++|++++.||+=|+.---+.-....+....++.|||-.+
T Consensus 37 ~~~~~ai~rliS----------------~~Lr~G~~~~~ii~~L~gi~~~~~~~~~~~~~~S~~D~Ia~~ 90 (95)
T PF12637_consen 37 SGNLEAIARLIS----------------LALRSGVPPEEIIDQLRGIRCGPSGTVGGSRVTSCPDAIAKA 90 (95)
T ss_pred hHHHHHHHHHHH----------------HHHHcCCCHHHHHHHhcCCCCCCCCccCCCccCcHHHHHHHH
Confidence 466666677665 899999999999999986543322111123334577777543
No 42
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=27.03 E-value=1.2e+02 Score=25.83 Aligned_cols=34 Identities=18% Similarity=0.340 Sum_probs=26.8
Q ss_pred HHHHHHHHHcCCCHHHHHHHHhhcCCccccccCC
Q 023328 172 KESLYNAFENGITAEQIISFLQQNAHPRVADRIP 205 (284)
Q Consensus 172 ReSv~~Al~~GITA~QIi~fL~~hAHp~m~~~~p 205 (284)
|.-|++-+..|-|-+||++|+...-=....-++|
T Consensus 63 R~~Vr~~i~~G~sd~eI~~~~v~RYG~~Vl~~Pp 96 (126)
T PRK10144 63 RHQVYSMVAEGKSEVEIIGWMTERYGDFVRYNPP 96 (126)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHhcCCeEEecCC
Confidence 7789999999999999999999876544443333
No 43
>PRK04280 arginine repressor; Provisional
Probab=26.95 E-value=55 Score=28.30 Aligned_cols=28 Identities=21% Similarity=0.273 Sum_probs=24.1
Q ss_pred CHHHHHHHHHhhhcCeeeEeeCCCccee
Q 023328 80 SEIQRSMIKDFADLGLVKLQQGRKESWF 107 (284)
Q Consensus 80 t~~q~~~L~~l~~~GLvy~~~~~~~~fy 107 (284)
+-||=++=+|++|+|+|..+..++...|
T Consensus 34 ~vTQATiSRDikeL~lvKv~~~~G~~~Y 61 (148)
T PRK04280 34 NVTQATVSRDIKELHLVKVPLPDGRYKY 61 (148)
T ss_pred CeehHHHHHHHHHcCCEEeecCCCcEEE
Confidence 4678888999999999999887777777
No 44
>PRK13672 hypothetical protein; Provisional
Probab=26.24 E-value=92 Score=24.12 Aligned_cols=30 Identities=20% Similarity=0.388 Sum_probs=23.2
Q ss_pred CCCHHHHHHHHhhcCCccccccCCCCChhHHHHHHHHHH
Q 023328 182 GITAEQIISFLQQNAHPRVADRIPSVPENVCDQIRLWES 220 (284)
Q Consensus 182 GITA~QIi~fL~~hAHp~m~~~~p~lP~tV~dQIrLWe~ 220 (284)
--..+.|.+||+.||+. ..+-+|.|++ ||.
T Consensus 38 s~d~~eIs~Yle~~~~y-------~~sm~iFD~~--w~~ 67 (71)
T PRK13672 38 SDDFDELSRYLELNASY-------LFSMSIFDEA--WEE 67 (71)
T ss_pred cccHHHHHHHHHHcCcc-------cccHHHHHHH--HHH
Confidence 34678999999999977 4556888876 773
No 45
>PRK12928 lipoyl synthase; Provisional
Probab=26.13 E-value=5.7e+02 Score=24.25 Aligned_cols=21 Identities=19% Similarity=0.314 Sum_probs=14.0
Q ss_pred HHHHHHHHcCCCHHHHHHHHh
Q 023328 173 ESLYNAFENGITAEQIISFLQ 193 (284)
Q Consensus 173 eSv~~Al~~GITA~QIi~fL~ 193 (284)
+.|.+.+..|.|.++.+..++
T Consensus 175 ~~vl~~m~r~~t~e~~le~l~ 195 (290)
T PRK12928 175 PRLQKAVRRGADYQRSLDLLA 195 (290)
T ss_pred HHHHHHhCCCCCHHHHHHHHH
Confidence 666666666777776666654
No 46
>cd00127 DSPc Dual specificity phosphatases (DSP); Ser/Thr and Tyr protein phosphatases. Structurally similar to tyrosine-specific phosphatases but with a shallower active site cleft and a distinctive active site signature motif, HCxxGxxR. Characterized as VHR- or Cdc25-like.
Probab=25.96 E-value=1.1e+02 Score=24.39 Aligned_cols=44 Identities=14% Similarity=0.304 Sum_probs=31.4
Q ss_pred eCHHHHHHH----HHcCCCHHHHHHHHhhcCCccccccCCCCChhHHHHHHHHH
Q 023328 170 ITKESLYNA----FENGITAEQIISFLQQNAHPRVADRIPSVPENVCDQIRLWE 219 (284)
Q Consensus 170 iTReSv~~A----l~~GITA~QIi~fL~~hAHp~m~~~~p~lP~tV~dQIrLWe 219 (284)
+.|...--| ...|++.++.++++++. +|.+ ..-+++.-|++.||
T Consensus 92 ~~Rs~~~~~~~l~~~~~~~~~~a~~~vr~~-r~~~-----~~~~~~~~~l~~~~ 139 (139)
T cd00127 92 VSRSATLVIAYLMKTLGLSLREAYEFVKSR-RPII-----SPNAGFMRQLKEYE 139 (139)
T ss_pred CchhHHHHHHHHHHHcCCCHHHHHHHHHHH-CCcc-----CCCHHHHHHHHHhC
Confidence 456663322 35699999999999985 5532 23368999999997
No 47
>PRK03341 arginine repressor; Provisional
Probab=25.62 E-value=1.9e+02 Score=25.65 Aligned_cols=58 Identities=14% Similarity=0.203 Sum_probs=39.9
Q ss_pred hhHHHHHHHHhCCCCCCCCCCCChhHHHHHHhcCCcccchhhhccccccccccccCCCCCHHHHHHHHHhhhcCeeeEee
Q 023328 21 GQWECFLLQLISSAQAERPTNFSSSMMKVFQRGLLIQSILRSLKFLCQGILEAYNLNTLSEIQRSMIKDFADLGLVKLQQ 100 (284)
Q Consensus 21 ~~WE~IL~~mVgs~~~~~~~~~s~~v~~lL~~~~Lm~~~lf~L~~~~~~lG~~Y~~~~Lt~~q~~~L~~l~~~GLvy~~~ 100 (284)
+|.+.|+.-+-... -..-.++.+.|+..|. .-+|-++=+||+++|++..+.
T Consensus 15 ~R~~~I~~li~~~~-----i~tQ~eL~~~L~~~Gi------------------------~vTQaTiSRDl~eL~~~Kv~~ 65 (168)
T PRK03341 15 ARQARIVAILSRQS-----VRSQAELAALLADEGI------------------------EVTQATLSRDLDELGAVKLRG 65 (168)
T ss_pred HHHHHHHHHHHHCC-----CccHHHHHHHHHHcCC------------------------cccHHHHHHHHHHhcCEeeec
Confidence 57777776665332 2233556666666654 357888889999999999887
Q ss_pred CCCcc-ee
Q 023328 101 GRKES-WF 107 (284)
Q Consensus 101 ~~~~~-fy 107 (284)
.++.. .|
T Consensus 66 ~~G~~~~Y 73 (168)
T PRK03341 66 ADGGLGVY 73 (168)
T ss_pred CCCCEEEE
Confidence 77665 66
No 48
>PRK05256 condesin subunit E; Provisional
Probab=25.48 E-value=52 Score=30.91 Aligned_cols=47 Identities=15% Similarity=0.152 Sum_probs=39.2
Q ss_pred ccccccCCCCCHHHHHHHHHhhhcCeeeEeeCCCcceecchhhHHhhh
Q 023328 70 ILEAYNLNTLSEIQRSMIKDFADLGLVKLQQGRKESWFIPTKLATNLS 117 (284)
Q Consensus 70 lG~~Y~~~~Lt~~q~~~L~~l~~~GLvy~~~~~~~~fy~pT~La~~L~ 117 (284)
.|.+++.+.|-+--+..|..|+.+|.|+.-..++.+|- +|.-...+.
T Consensus 142 ~GsDlD~~Kl~ekvr~sLrrLrRlgmI~~l~~d~~kF~-iteAvfRFg 188 (238)
T PRK05256 142 TGSDLDKQKLQEKVRTSLNRLRRLGMVWFMGHDSSKFR-ITESVFRFG 188 (238)
T ss_pred CcchhhHHHHHHHHHHHHHHHHhccceeeecCCCceEE-ecHHHHhhc
Confidence 78888888888999999999999999996655788888 887666553
No 49
>PF09170 STN1_2: CST, Suppressor of cdc thirteen homolog, complex subunit STN1; InterPro: IPR015253 STN1 is a component of the CST complex, a complex that binds to single-stranded DNA and is required to protect telomeres from DNA degradation. The CST complex binds single-stranded DNA with high affinity in a sequence-independent manner, while isolated subunits bind DNA with low affinity by themselves. In addition to telomere protection, the CST complex has probably a more general role in DNA metabolism at non-telomeric sites [, ]. This entry represents a C-terminal uncharacterised domain ; PDB: 1WJ5_A.
Probab=25.08 E-value=45 Score=29.99 Aligned_cols=26 Identities=19% Similarity=0.332 Sum_probs=16.9
Q ss_pred HHHHHhhhcCeeeEeeCCC-cceecchh
Q 023328 85 SMIKDFADLGLVKLQQGRK-ESWFIPTK 111 (284)
Q Consensus 85 ~~L~~l~~~GLvy~~~~~~-~~fy~pT~ 111 (284)
+.++-|.+-|+||++.... +.|| .|+
T Consensus 109 eAiq~Lqe~G~Vfqk~~~~d~lY~-VT~ 135 (174)
T PF09170_consen 109 EAIQLLQEKGIVFQKDKSQDELYY-VTD 135 (174)
T ss_dssp HHHHHHHHHTSEE-SS-SSS--BE-E-S
T ss_pred HHHHHHHHCCEEEeecCCCCceEE-Eec
Confidence 5789999999999997544 6677 554
No 50
>PF05184 SapB_1: Saposin-like type B, region 1; InterPro: IPR007856 Synonym(s):cerebroside sulphate activator, CSAct Saposin B is a small non-enzymatic glycoprotein required for the breakdown of cerebroside sulphates (sulphatides) in lysosomes. Saposin B contains three intramolecular disulphide bridges, exists as a dimer and is remarkably heat, protease, and pH stable. The crystal structure of human saposin B reveals an unusual shell-like dimer consisting of a monolayer of alpha-helices enclosing a large hydrophobic cavity. Although the secondary structure of saposin B is similar to that of the known monomeric members of the saposin-like superfamily, the helices are repacked into a different tertiary arrangement to form the homodimer. A comparison of the two forms of the saposin B dimer suggests that extraction of target lipids from membranes involves a conformational change that facilitates access to the inner cavity [].; GO: 0006629 lipid metabolic process; PDB: 1N69_C 1QDM_C 4DDJ_A 2DOB_A 1OF9_A 2Z9A_A 1M12_A 2GTG_A 1SN6_A 2QYP_B ....
Probab=24.61 E-value=75 Score=20.39 Aligned_cols=21 Identities=24% Similarity=0.317 Sum_probs=18.4
Q ss_pred HHHHHHHcCCCHHHHHHHHhh
Q 023328 174 SLYNAFENGITAEQIISFLQQ 194 (284)
Q Consensus 174 Sv~~Al~~GITA~QIi~fL~~ 194 (284)
-++..+.++.|-++|+++|..
T Consensus 13 ~i~~~l~~~~t~~~I~~~l~~ 33 (39)
T PF05184_consen 13 EIEKLLKNNKTEEEIKKALEK 33 (39)
T ss_dssp HHHHHHHSTCHHHHHHHHHHH
T ss_pred HHHHHHHcCccHHHHHHHHHH
Confidence 467889999999999999985
No 51
>PLN02459 probable adenylate kinase
Probab=24.53 E-value=2.9e+02 Score=26.14 Aligned_cols=69 Identities=16% Similarity=0.242 Sum_probs=47.0
Q ss_pred HhcCCceEEEEeCHHHHHHHHHcCCCHHHHHHHHhhcCCccccccCCCCChhHHHHHHHHHHhcCceeeccceeeccCCC
Q 023328 159 EYQLPNLIVGAITKESLYNAFENGITAEQIISFLQQNAHPRVADRIPSVPENVCDQIRLWESDLNRVEMTPAHYYEEFPS 238 (284)
Q Consensus 159 ~~r~Pnlvvg~iTReSv~~Al~~GITA~QIi~fL~~hAHp~m~~~~p~lP~tV~dQIrLWe~E~~R~~~~~g~Ly~~f~s 238 (284)
.+.++.+.+|.|=|+.|..--..| .+|-+|+.+ +..+|..++.++-..++....-.-..|++++.|+-
T Consensus 52 ~~~~~~is~gdllR~ei~~~t~lg---~~i~~~~~~---------G~lVPdeiv~~ll~~~l~~~~~~~~~g~iLDGFPR 119 (261)
T PLN02459 52 LLGVPHIATGDLVREEIKSSGPLG---AQLKEIVNQ---------GKLVPDEIIFSLLSKRLEAGEEEGESGFILDGFPR 119 (261)
T ss_pred HhCCcEEeCcHHHHHHHhccchhH---HHHHHHHHc---------CCccCHHHHHHHHHHHHhcccccCCceEEEeCCCC
Confidence 567899999988888775433332 445555543 34799999888877666543223467899999987
Q ss_pred H
Q 023328 239 R 239 (284)
Q Consensus 239 ~ 239 (284)
.
T Consensus 120 t 120 (261)
T PLN02459 120 T 120 (261)
T ss_pred C
Confidence 5
No 52
>PF09330 Lact-deh-memb: D-lactate dehydrogenase, membrane binding; InterPro: IPR015409 Members of this entry are predominantly found in prokaryotic D-lactate dehydrogenase, forming the cap-membrane-binding domain, which consists of a large seven-stranded antiparallel beta-sheet flanked on both sides by alpha-helices. They allow for membrane association []. ; GO: 0050660 flavin adenine dinucleotide binding, 0055085 transmembrane transport; PDB: 1F0X_A.
Probab=24.36 E-value=3.9e+02 Score=26.04 Aligned_cols=119 Identities=18% Similarity=0.217 Sum_probs=40.8
Q ss_pred EEecCChhHHHHHHHHHhhHhcCCceEEE--EeCHHHHHHHHHcCCCHHHHHHHHhhcCCccccc----------cCCCC
Q 023328 140 YAYSTSKLHCEILRLFSKIEYQLPNLIVG--AITKESLYNAFENGITAEQIISFLQQNAHPRVAD----------RIPSV 207 (284)
Q Consensus 140 YAYT~S~lqiaiL~lF~~l~~r~Pnlvvg--~iTReSv~~Al~~GITA~QIi~fL~~hAHp~m~~----------~~p~l 207 (284)
|.=||.|-.+.-|+- .+...|++|-|. =|-|+...-|-+.|=.-=..|.+|-+..-|.|-. +.|.+
T Consensus 3 YIGTNd~~~L~~lRR--~iL~~f~~LPisgEYmHRdafdia~~YGKDtfl~I~~lGt~~lP~lFa~K~~~D~~~~k~~~l 80 (291)
T PF09330_consen 3 YIGTNDPAVLTDLRR--HILSNFKNLPISGEYMHRDAFDIAEKYGKDTFLMIKKLGTDRLPRLFALKARIDALLEKLPFL 80 (291)
T ss_dssp EEEES-HHHHHHHHH--HHHHH-SS--SEEEEEEHHHHHHH---------------------------------------
T ss_pred EeccCCHHHHHHHHH--HHHhCCccCChhhhhhhhHHHHHHHHhcchHHHHHHHhCchhHHHHHHHHHHHHHHHHhcCCC
Confidence 556777777655553 346668887655 7999999999999999999999999999998632 25899
Q ss_pred ChhHHHHHHHHHHhcCceeeccceeeccCCCHHHHHHHHHHHHHcCeEeeecCCCceEEEeccccHHHHHHHhh
Q 023328 208 PENVCDQIRLWESDLNRVEMTPAHYYEEFPSRDVFEAACDYARDRSGLLWEDSKKMRLVVNAEIHMHMREFLRG 281 (284)
Q Consensus 208 P~tV~dQIrLWe~E~~R~~~~~g~Ly~~f~s~~~fe~~~~yA~~~g~llw~~~~kr~~~V~~~~h~~v~~f~k~ 281 (284)
|++++|.+..|-. +..-+..=..+.+|-+..--- -++-|+.+|.++.++|+++
T Consensus 81 p~~lsDr~lQ~~s--------------~l~P~hLP~Rm~~yr~ryeHH-------Lilkm~~~gi~ea~~~L~~ 133 (291)
T PF09330_consen 81 PPNLSDRVLQALS--------------NLLPNHLPKRMRDYRDRYEHH-------LILKMSGDGIEEARAYLKE 133 (291)
T ss_dssp -----------------------------------HHHHHHHHH-SEE-------EEEEE-TTHHHHHHHHHHH
T ss_pred CCCccHHHHHHHH--------------hhChhhcCHHHHHHHHhhhhh-------eeeeecCCcHHHHHHHHHH
Confidence 9999999977752 222233334555555543321 1345667777777777765
No 53
>PRK13808 adenylate kinase; Provisional
Probab=24.18 E-value=2.7e+02 Score=27.32 Aligned_cols=77 Identities=16% Similarity=0.183 Sum_probs=47.6
Q ss_pred HhcCCceEEEEeCHHHHHHHHHcCCCHHHHH-HHHhhcCCccccccCCCCChhHHHHHHHHHHhcCceeeccceeeccCC
Q 023328 159 EYQLPNLIVGAITKESLYNAFENGITAEQII-SFLQQNAHPRVADRIPSVPENVCDQIRLWESDLNRVEMTPAHYYEEFP 237 (284)
Q Consensus 159 ~~r~Pnlvvg~iTReSv~~Al~~GITA~QIi-~fL~~hAHp~m~~~~p~lP~tV~dQIrLWe~E~~R~~~~~g~Ly~~f~ 237 (284)
.|.++.+.+|.|=|+-| ..|......+ .++. .+..+|..++.+|-.++++... ...|++++.|+
T Consensus 23 ~ygl~~is~gdlLR~~i----~~~s~~g~~~~~~~~---------~G~lVPdeiv~~li~e~l~~~~--~~~G~ILDGFP 87 (333)
T PRK13808 23 QYGIVQLSTGDMLRAAV----AAGTPVGLKAKDIMA---------SGGLVPDEVVVGIISDRIEQPD--AANGFILDGFP 87 (333)
T ss_pred HhCCceecccHHHHHHh----hcCChhhHHHHHHHH---------cCCCCCHHHHHHHHHHHHhccc--ccCCEEEeCCC
Confidence 45678888886655554 4444333222 2222 2457999999999888776543 36899999999
Q ss_pred CH-HHHHHHHHHHH
Q 023328 238 SR-DVFEAACDYAR 250 (284)
Q Consensus 238 s~-~~fe~~~~yA~ 250 (284)
.. ++.+.+-....
T Consensus 88 Rt~~QA~~L~~ll~ 101 (333)
T PRK13808 88 RTVPQAEALDALLK 101 (333)
T ss_pred CCHHHHHHHHHHHH
Confidence 76 33343333333
No 54
>PF00782 DSPc: Dual specificity phosphatase, catalytic domain; InterPro: IPR000340 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 represents dual specificity protein-tyrosine phosphatases. Ser/Thr and Tyr dual specificity phosphatases are a group of enzymes with both Ser/Thr (3.1.3.16 from EC) and tyrosine specific protein phosphatase (3.1.3.48 from EC) activity able to remove both the serine/threonine or tyrosine-bound phosphate group from a wide range of phosphoproteins, including a number of enzymes which have been phosphorylated under the action of a kinase. Dual specificity protein phosphatases (DSPs) regulate mitogenic signal transduction and control the cell cycle. The crystal structure of a human DSP, vaccinia H1-related phosphatase (or VHR), has been determined at 2.1 angstrom resolution []. A shallow active site pocket in VHR allows for the hydrolysis of phosphorylated serine, threonine, or tyrosine protein residues, whereas the deeper active site of protein tyrosine phosphatases (PTPs) restricts substrate specificity to only phosphotyrosine. Positively charged crevices near the active site may explain the enzyme's preference for substrates with two phosphorylated residues. The VHR structure defines a conserved structural scaffold for both DSPs and PTPs. A "recognition region" connecting helix alpha1 to strand beta1, may determine differences in substrate specificity between VHR, the PTPs, and other DSPs. These proteins may also have inactive phosphatase domains, and dependent on the domain composition this loss of catalytic activity has different effects on protein function. Inactive single domain phosphatases can still specifically bind substrates, and protect again dephosphorylation, while the inactive domains of tandem phosphatases can be further subdivided 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 [].; GO: 0008138 protein tyrosine/serine/threonine phosphatase activity, 0006470 protein dephosphorylation; PDB: 2G6Z_A 1MKP_A 1YZ4_A 2P4D_A 1M3G_A 1ZZW_A 2OUD_A 2HXP_A 3LJ8_A 1OHD_A ....
Probab=23.64 E-value=77 Score=25.20 Aligned_cols=44 Identities=20% Similarity=0.433 Sum_probs=34.8
Q ss_pred eCHHHHHHHH----HcCCCHHHHHHHHhhcCCccccccCCCCC-hhHHHHHHHHHH
Q 023328 170 ITKESLYNAF----ENGITAEQIISFLQQNAHPRVADRIPSVP-ENVCDQIRLWES 220 (284)
Q Consensus 170 iTReSv~~Al----~~GITA~QIi~fL~~hAHp~m~~~~p~lP-~tV~dQIrLWe~ 220 (284)
++|...--|. ..|+|.++-+.++++.- |. +.| +...+|++.||.
T Consensus 84 ~~RS~~v~~ayLm~~~~~~~~~A~~~v~~~r-p~------~~~~~~~~~~L~~~e~ 132 (133)
T PF00782_consen 84 LSRSGAVAAAYLMKKNGMSLEEAIEYVRSRR-PQ------INPNPSFIRQLYEYEK 132 (133)
T ss_dssp SSHHHHHHHHHHHHHHTSSHHHHHHHHHHHS-TT------STHHHHHHHHHHHHHH
T ss_pred cccchHHHHHHHHHHcCCCHHHHHHHHHHHC-CC------CCCCHHHHHHHHHhhc
Confidence 7888775443 58999999999998775 64 445 579999999995
No 55
>PRK11183 D-lactate dehydrogenase; Provisional
Probab=23.22 E-value=1.3e+02 Score=31.80 Aligned_cols=80 Identities=18% Similarity=0.228 Sum_probs=62.8
Q ss_pred EEEecCChhHHHHHHHHHhhHhcCCceEEE--EeCHHHHHHHHHcCCCHHHHHHHHhhcCCcccc----------ccCCC
Q 023328 139 MYAYSTSKLHCEILRLFSKIEYQLPNLIVG--AITKESLYNAFENGITAEQIISFLQQNAHPRVA----------DRIPS 206 (284)
Q Consensus 139 vYAYT~S~lqiaiL~lF~~l~~r~Pnlvvg--~iTReSv~~Al~~GITA~QIi~fL~~hAHp~m~----------~~~p~ 206 (284)
.|+.|+++-... .+..++...|+++.++ .|.|+.+.-|-+.|=.-=-.|.+|-+..-|.|- ++.|.
T Consensus 272 f~ig~n~~~~~~--~~rr~il~~~~~lP~a~Eym~r~~~d~~~~ygkd~~~~i~~~gt~~~p~~f~~k~~~d~~~~~~~~ 349 (564)
T PRK11183 272 FYIGTNDPAVLT--EIRRHILANFKNLPVAGEYMHRDAFDIAEKYGKDTFLMIDKLGTDKLPKLFALKGRVDAFLEKVPF 349 (564)
T ss_pred EEEeCCCHHHHH--HHHHHHHHhCCCCceeEeecCHHHHHHHHHhCCccEEehhhhCchhHHHHHhhHHHHHHHHHhcCC
Confidence 588888887763 3445567778888777 899999999999987666688888888888752 24699
Q ss_pred CChhHHHHHHHHHH
Q 023328 207 VPENVCDQIRLWES 220 (284)
Q Consensus 207 lP~tV~dQIrLWe~ 220 (284)
+|++++|.+..|-.
T Consensus 350 ~~~~~~d~~~q~~~ 363 (564)
T PRK11183 350 LPPHFTDRVMQALS 363 (564)
T ss_pred CCCCCcHHHHHHHH
Confidence 99999999988763
No 56
>PRK05066 arginine repressor; Provisional
Probab=22.55 E-value=82 Score=27.50 Aligned_cols=27 Identities=15% Similarity=0.256 Sum_probs=23.2
Q ss_pred HHHHHHHHHhhhcCeeeEeeCCCccee
Q 023328 81 EIQRSMIKDFADLGLVKLQQGRKESWF 107 (284)
Q Consensus 81 ~~q~~~L~~l~~~GLvy~~~~~~~~fy 107 (284)
=||-++=+|++|+|+|..+..++...|
T Consensus 41 vTQATiSRDikeL~lvKv~~~~G~~~Y 67 (156)
T PRK05066 41 INQSKVSRMLTKFGAVRTRNAKMEMVY 67 (156)
T ss_pred ecHHHHHHHHHHcCCEEeeCCCCCEEE
Confidence 388899999999999999877777666
No 57
>PRK08508 biotin synthase; Provisional
Probab=21.67 E-value=5.4e+02 Score=23.96 Aligned_cols=99 Identities=12% Similarity=0.070 Sum_probs=63.0
Q ss_pred HHHHHHHhhHhcCCceEE----EEeCHHHHHHHHHcCCCHHHHHHHHhhc--CCccccccCCCCChhHHHHHHHHHHhcC
Q 023328 150 EILRLFSKIEYQLPNLIV----GAITKESLYNAFENGITAEQIISFLQQN--AHPRVADRIPSVPENVCDQIRLWESDLN 223 (284)
Q Consensus 150 aiL~lF~~l~~r~Pnlvv----g~iTReSv~~Al~~GITA~QIi~fL~~h--AHp~m~~~~p~lP~tV~dQIrLWe~E~~ 223 (284)
.++..+..++.++|++.+ |.+|+|.+++-.+.|+.+=.+ =|++- -+|.+.. ..=+..+.+-|+.. .+.+
T Consensus 76 ~~~ei~~~ik~~~p~l~i~~s~G~~~~e~l~~Lk~aGld~~~~--~lEt~~~~~~~i~~--~~~~~~~l~~i~~a-~~~G 150 (279)
T PRK08508 76 YVAEAAKAVKKEVPGLHLIACNGTASVEQLKELKKAGIFSYNH--NLETSKEFFPKICT--THTWEERFQTCENA-KEAG 150 (279)
T ss_pred HHHHHHHHHHhhCCCcEEEecCCCCCHHHHHHHHHcCCCEEcc--cccchHHHhcCCCC--CCCHHHHHHHHHHH-HHcC
Confidence 567777788888898644 789999998888888833211 01110 0121110 11123455566554 4444
Q ss_pred ceeeccceeeccCCCHHHHHHHHHHHHHcCe
Q 023328 224 RVEMTPAHYYEEFPSRDVFEAACDYARDRSG 254 (284)
Q Consensus 224 R~~~~~g~Ly~~f~s~~~fe~~~~yA~~~g~ 254 (284)
+.++.|.++--=.+.++-.....+.++++.
T Consensus 151 -i~v~sg~I~GlGEt~ed~~~~l~~lr~L~~ 180 (279)
T PRK08508 151 -LGLCSGGIFGLGESWEDRISFLKSLASLSP 180 (279)
T ss_pred -CeecceeEEecCCCHHHHHHHHHHHHcCCC
Confidence 888889999777777888888888888874
No 58
>PF13496 DUF4120: Domain of unknown function (DUF4120)
Probab=20.88 E-value=77 Score=25.69 Aligned_cols=15 Identities=13% Similarity=0.439 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHcC
Q 023328 239 RDVFEAACDYARDRS 253 (284)
Q Consensus 239 ~~~fe~~~~yA~~~g 253 (284)
++.|+.+++||+++|
T Consensus 5 qEhy~kvv~yA~sI~ 19 (95)
T PF13496_consen 5 QEHYDKVVQYAESIG 19 (95)
T ss_pred HHHHHHHHHHHHHhc
Confidence 789999999999987
No 59
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=20.68 E-value=2e+02 Score=22.15 Aligned_cols=24 Identities=17% Similarity=0.509 Sum_probs=18.9
Q ss_pred HHHHHHhhhcCeeeEeeCCCccee
Q 023328 84 RSMIKDFADLGLVKLQQGRKESWF 107 (284)
Q Consensus 84 ~~~L~~l~~~GLvy~~~~~~~~fy 107 (284)
..++..|.+.|+|-+.......+|
T Consensus 14 ~~~l~~lve~Gli~p~~~~~~~~f 37 (84)
T PF13591_consen 14 PEFLRELVEEGLIEPEGEEEEWYF 37 (84)
T ss_pred HHHHHHHHHCCCeeecCCCCeeeE
Confidence 568899999999998766555555
No 60
>PRK08444 hypothetical protein; Provisional
Probab=20.46 E-value=7.2e+02 Score=24.31 Aligned_cols=46 Identities=26% Similarity=0.289 Sum_probs=38.7
Q ss_pred HHHHHHHhhHhcCCceEEEEeCHHHHHHHH-HcCCCHHHHHHHHhhc
Q 023328 150 EILRLFSKIEYQLPNLIVGAITKESLYNAF-ENGITAEQIISFLQQN 195 (284)
Q Consensus 150 aiL~lF~~l~~r~Pnlvvg~iTReSv~~Al-~~GITA~QIi~fL~~h 195 (284)
.++.++..++.++|++.++.+|...|.... ..|++.++.+.-|+..
T Consensus 114 ~y~e~ir~Ik~~~p~i~i~a~s~~Ei~~~a~~~g~~~~e~l~~LkeA 160 (353)
T PRK08444 114 WYLEIFKKIKEAYPNLHVKAMTAAEVDFLSRKFGKSYEEVLEDMLEY 160 (353)
T ss_pred HHHHHHHHHHHHCCCceEeeCCHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 477888999999999999999999997766 6999997777777653
No 61
>TIGR02698 CopY_TcrY copper transport repressor, CopY/TcrY family. This family includes metal-fist type transcriptional repressors of copper transport systems such as copYZAB of Enterococcus hirae and tcrYAZB (transferble copper resistance) of an Enterocuccus faecium plasmid. High levels of copper can displace zinc and prevent binding by the repressor, activating efflux by copper resistance transporters. The most closely related proteins excluded by this model are antibiotic resistance regulators including the methicillin resistance regulatory protein MecI.
Probab=20.38 E-value=1.2e+02 Score=25.40 Aligned_cols=27 Identities=7% Similarity=0.277 Sum_probs=20.0
Q ss_pred HHHHHHHHHhhhcCeeeEeeCCCccee
Q 023328 81 EIQRSMIKDFADLGLVKLQQGRKESWF 107 (284)
Q Consensus 81 ~~q~~~L~~l~~~GLvy~~~~~~~~fy 107 (284)
.|-+.+|+.|.+-|+|-..+......|
T Consensus 37 tTv~T~L~rL~~KG~v~~~k~gr~~~Y 63 (130)
T TIGR02698 37 STIKTLLGRLVDKGCLTTEKEGRKFIY 63 (130)
T ss_pred HHHHHHHHHHHHCCceeeecCCCcEEE
Confidence 578899999999999976653333344
No 62
>PRK14526 adenylate kinase; Provisional
Probab=20.14 E-value=2.1e+02 Score=25.72 Aligned_cols=74 Identities=15% Similarity=0.267 Sum_probs=44.6
Q ss_pred cCCceEEEEeCHHHHHHHHHcCCCHHHHHHHHhhcCCccccccCCCCChhHHHHHHHHHHhcCceeeccceeeccCC-CH
Q 023328 161 QLPNLIVGAITKESLYNAFENGITAEQIISFLQQNAHPRVADRIPSVPENVCDQIRLWESDLNRVEMTPAHYYEEFP-SR 239 (284)
Q Consensus 161 r~Pnlvvg~iTReSv~~Al~~GITA~QIi~fL~~hAHp~m~~~~p~lP~tV~dQIrLWe~E~~R~~~~~g~Ly~~f~-s~ 239 (284)
.++.+.+|.+-|+.+...-..| .+|-.++... ..+|+.++.++-...++. .....|++++.|+ +.
T Consensus 25 ~~~~is~G~llr~~~~~~t~~g---~~i~~~~~~g---------~lvpd~~~~~lv~~~l~~--~~~~~g~ilDGfPR~~ 90 (211)
T PRK14526 25 NYYHISTGDLFRENILNSTPLG---KEIKQIVENG---------QLVPDSITIKIVEDKINT--IKNNDNFILDGFPRNI 90 (211)
T ss_pred CCceeecChHHHHhcccCChhh---HHHHHHHHcC---------ccCChHHHHHHHHHHHhc--ccccCcEEEECCCCCH
Confidence 4777888888776655433323 3455555443 378998887665544432 2346789999996 44
Q ss_pred HHHHHHHHH
Q 023328 240 DVFEAACDY 248 (284)
Q Consensus 240 ~~fe~~~~y 248 (284)
+..+.+.++
T Consensus 91 ~Qa~~l~~~ 99 (211)
T PRK14526 91 NQAKALDKF 99 (211)
T ss_pred HHHHHHHHh
Confidence 444555443
Done!