Query 006366
Match_columns 648
No_of_seqs 191 out of 1206
Neff 4.1
Searched_HMMs 46136
Date Thu Mar 28 22:14:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006366.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006366hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03131 hypothetical protein; 100.0 4E-168 8E-173 1360.0 42.2 616 1-645 1-633 (705)
2 PLN03119 putative ADP-ribosyla 100.0 5E-152 1E-156 1226.7 39.4 574 1-645 1-579 (648)
3 KOG0702 Predicted GTPase-activ 100.0 4.7E-36 1E-40 321.9 27.3 441 1-643 1-454 (524)
4 KOG0703 Predicted GTPase-activ 100.0 1.4E-35 3E-40 304.0 7.9 118 5-125 7-127 (287)
5 PF01412 ArfGap: Putative GTPa 100.0 2.8E-35 6E-40 266.8 7.9 112 12-124 2-116 (116)
6 smart00105 ArfGap Putative GTP 100.0 2.1E-33 4.6E-38 253.3 10.2 106 21-126 1-109 (112)
7 COG5347 GTPase-activating prot 100.0 1.6E-30 3.6E-35 271.6 9.2 117 8-124 5-125 (319)
8 KOG0704 ADP-ribosylation facto 100.0 2.9E-28 6.3E-33 253.7 11.8 86 7-92 3-91 (386)
9 PLN03114 ADP-ribosylation fact 99.9 1.2E-25 2.7E-30 235.5 11.2 116 11-126 10-130 (395)
10 KOG0706 Predicted GTPase-activ 99.9 5.2E-25 1.1E-29 235.3 7.9 85 8-92 8-95 (454)
11 KOG0705 GTPase-activating prot 99.9 7.4E-24 1.6E-28 231.2 7.4 115 11-126 501-618 (749)
12 KOG0521 Putative GTPase activa 99.8 9.5E-21 2.1E-25 217.5 4.0 115 13-127 416-534 (785)
13 KOG1117 Rho- and Arf-GTPase ac 99.6 1.6E-16 3.4E-21 179.7 4.3 109 15-124 290-403 (1186)
14 KOG0818 GTPase-activating prot 99.6 5.8E-17 1.3E-21 175.5 0.7 133 18-150 3-146 (669)
15 PLN03131 hypothetical protein; 97.2 0.065 1.4E-06 61.8 22.7 39 345-383 336-380 (705)
16 PLN03119 putative ADP-ribosyla 95.8 0.56 1.2E-05 54.1 18.1 39 358-396 318-357 (648)
17 KOG0702 Predicted GTPase-activ 94.7 0.053 1.2E-06 60.9 5.9 142 150-301 1-144 (524)
18 KOG0521 Putative GTPase activa 88.7 0.12 2.6E-06 61.5 -0.2 67 20-88 627-697 (785)
19 PRK12495 hypothetical protein; 77.1 1.9 4E-05 44.7 2.7 37 12-52 29-67 (226)
20 PF00643 zf-B_box: B-box zinc 76.3 1.7 3.7E-05 32.6 1.7 40 22-63 2-42 (42)
21 PRK00085 recO DNA repair prote 54.1 7 0.00015 39.5 1.6 32 20-51 146-178 (247)
22 TIGR00613 reco DNA repair prot 53.4 9.2 0.0002 38.5 2.3 33 20-52 144-177 (241)
23 TIGR02419 C4_traR_proteo phage 50.7 8.9 0.00019 32.3 1.4 33 20-53 28-62 (63)
24 COG1734 DksA DnaK suppressor p 47.9 9.5 0.00021 36.1 1.3 43 11-53 66-111 (120)
25 PRK11019 hypothetical protein; 46.1 11 0.00024 34.0 1.4 33 22-55 35-69 (88)
26 PRK13715 conjugal transfer pro 43.3 11 0.00023 32.8 0.8 31 23-53 34-65 (73)
27 PHA00080 DksA-like zinc finger 42.5 12 0.00026 32.4 1.0 46 7-53 12-62 (72)
28 PF11781 RRN7: RNA polymerase 41.3 16 0.00036 27.7 1.4 28 21-51 6-33 (36)
29 PF08271 TF_Zn_Ribbon: TFIIB z 39.7 11 0.00023 29.1 0.2 27 25-52 2-28 (43)
30 COG1381 RecO Recombinational D 39.5 16 0.00035 38.0 1.6 30 21-50 152-182 (251)
31 KOG2057 Predicted equilibrativ 38.2 43 0.00093 37.1 4.5 81 349-429 327-419 (499)
32 TIGR02890 spore_yteA sporulati 37.4 22 0.00048 35.1 2.0 42 10-53 74-117 (159)
33 PF01286 XPA_N: XPA protein N- 35.7 11 0.00024 28.6 -0.2 27 24-50 4-31 (34)
34 smart00401 ZnF_GATA zinc finge 33.9 26 0.00057 28.3 1.6 36 22-57 2-39 (52)
35 PRK10778 dksA RNA polymerase-b 30.4 60 0.0013 31.8 3.7 35 20-54 108-143 (151)
36 cd00021 BBOX B-Box-type zinc f 27.0 52 0.0011 23.7 2.1 36 25-62 2-38 (39)
37 TIGR00100 hypA hydrogenase nic 26.7 23 0.00051 32.8 0.3 44 19-66 66-113 (115)
38 PRK03681 hypA hydrogenase nick 26.7 22 0.00049 33.0 0.1 44 19-65 66-113 (114)
39 COG1997 RPL43A Ribosomal prote 25.4 56 0.0012 29.8 2.4 30 21-52 33-62 (89)
40 cd07171 NR_DBD_ER DNA-binding 25.3 38 0.00083 29.8 1.3 31 22-55 2-32 (82)
41 cd07173 NR_DBD_AR DNA-binding 24.8 45 0.00098 29.4 1.7 31 22-55 2-32 (82)
42 KOG3362 Predicted BBOX Zn-fing 24.4 26 0.00057 34.6 0.1 34 21-55 116-150 (156)
43 PRK00564 hypA hydrogenase nick 23.8 28 0.00061 32.5 0.2 44 20-66 68-115 (117)
44 PF00320 GATA: GATA zinc finge 23.3 42 0.00092 25.2 1.0 30 26-55 1-32 (36)
45 cd06968 NR_DBD_ROR DNA-binding 23.2 44 0.00096 30.3 1.3 31 22-55 4-34 (95)
46 COG2174 RPL34A Ribosomal prote 23.0 46 0.001 30.5 1.4 35 17-51 28-79 (93)
47 COG5145 RAD14 DNA excision rep 21.6 49 0.0011 34.9 1.4 32 21-53 114-147 (292)
48 cd07170 NR_DBD_ERR DNA-binding 21.5 47 0.001 30.3 1.1 30 23-55 4-33 (97)
49 PRK00423 tfb transcription ini 21.3 45 0.00098 35.7 1.2 34 20-54 8-41 (310)
50 PF10764 Gin: Inhibitor of sig 20.5 52 0.0011 26.4 1.1 26 25-51 1-26 (46)
51 PRK12380 hydrogenase nickel in 20.3 40 0.00087 31.3 0.5 43 19-65 66-112 (113)
52 COG2719 SpoVR Uncharacterized 20.2 29 0.00063 39.6 -0.5 8 418-425 270-277 (495)
53 PRK11767 SpoVR family protein; 20.2 29 0.00063 40.1 -0.6 8 418-425 273-280 (498)
No 1
>PLN03131 hypothetical protein; Provisional
Probab=100.00 E-value=3.5e-168 Score=1360.01 Aligned_cols=616 Identities=59% Similarity=0.968 Sum_probs=590.2
Q ss_pred CCchhHHHHHHHHHHHHhcCCCCCCCcCCCCCCCCeeEecceehhhhhhhhhhhcCCCceeecccCCCCHHHHHHHHhcC
Q 006366 1 MGSRKEEERNEKIIRGLMKLPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHREFTHRVKSVSMSKFTSQEVEALQNGG 80 (648)
Q Consensus 1 M~srke~ErnekiLr~Llk~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~LGhrVKSltLDkWt~eEVe~Lq~gG 80 (648)
|++||++|+++++|++|+++|+|++|||||+++|+|||+|||||||++|+||||+||||||||+||+|+++||++|+.+|
T Consensus 1 m~SkkqqErnekiLreLlk~PgNk~CADCga~~P~WASiNlGIFICi~CSGIHRsLghRVKSVTLD~WtdeEV~~Mk~gG 80 (705)
T PLN03131 1 MGSRKEEERNEKIIRGLMKLPPNRRCINCNSLGPQFVCTNFWTFICMTCSGIHREFTHRVKSVSMSKFTSQDVEALQNGG 80 (705)
T ss_pred CcchHHHHHHHHHHHHHhhCcCCCccccCCCCCCCeeEeccceEEchhchhhhcccCcccccccCCCCCHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cHHHHHHHhhcCCcccCCCCCCCchHHHHHHHHHHHhcccccCCCCCCCCCCCccCCCCCccccccCCCCCCCCCCCCCc
Q 006366 81 NQRAREIYLKDWDFQRQRLPDNSNVNKVRDFIKNVYVDRRYAGGKTPDKPPKDTQGLGSHLDESRRASSYHSYSQSPPYD 160 (648)
Q Consensus 81 N~~AN~iwea~~d~~r~~~P~~sd~~~rreFIraKYveKrF~~~k~~DkPpr~~q~l~~~~~e~rrsssy~S~sQSpp~d 160 (648)
|++||+|||++|+..+.++|...+.+++|+|||.|||+|||+.....++|+++.+.++.++.++||.++||+++|||||+
T Consensus 81 N~~AN~iyeanwd~~r~~lP~~sd~ekrr~FIR~KYVeKRFa~~~s~d~pprd~q~~r~~e~e~rr~~syh~~SqSPpY~ 160 (705)
T PLN03131 81 NQRAREIYLKDWDQQRQRLPDNSKVDKIREFIKDIYVDKKYAGGKTHDKPPRDLQRIRSHEDETRRACSYHSYSQSPPYD 160 (705)
T ss_pred cHHHHHHHHhhcccccCCCCCCccHHHHHHHHHHHHhhhhhhcCCCCCCCchhhhhhhcccccccccccccCCCcCCCcc
Confidence 99999999999998877888888889999999999999999999999999999999999999999999999999999999
Q ss_pred cchhhhccccccccccCCCCCCCCCCCCCCCCcccCCCCCchhhhhcccccCCCccccccccccCCCCCCCCCCCCCCcc
Q 006366 161 YQYEDRRYGKLGAVLTRKPGSDRGHYVGKISSLVHSPGRMSEQMFEDRFANEGSCSRISDYSVSSGGDPFRPGAQSPNFQ 240 (648)
Q Consensus 161 ~~~Edrr~~k~~~~l~Rkpgsd~~~~~gk~s~~~~sP~r~s~~~~~DRfa~e~s~~r~sdfs~s~~g~~~k~~~~sp~~~ 240 (648)
|+||||||||+...++|+||+++++|.|||++|++||+|+.+||+||||+||++++|++||+++++|+++|.+.+||+++
T Consensus 161 ~~yedrRygk~~~~~~R~pg~d~~~~~~k~~~~~~SP~r~~d~~~eDrf~ne~~~~r~~d~s~ss~~~~~r~~~~SP~~~ 240 (705)
T PLN03131 161 FQYEDRRYGKQAGILTRKPGSDRGLNVGKMASFICSPTRLNDRMFEDRFANEGSVSGVSDYSVSSGGDLVRSGAESPNFQ 240 (705)
T ss_pred cccccccccccccccccCCccccccccccccccccCchhhhhhhhhcccccCCCCcccccccccccccccccCCCCCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCcccccccccccccCC-----------CCCCCCCCCCccccCCCccccCCCccccccccCCCCccCCCCCcc
Q 006366 241 KDAGFNSPPVQLSRDVSSLKANFK-----------RDVDGIPHPKRTTSLGSMGSFDSNSVSLKSCNSGGLTDVSEHDDQ 309 (648)
Q Consensus 241 Kd~~~ssp~v~~~~~~~~~~~~~~-----------~~~~~~~~~qrt~ss~S~~s~~~~~~~~k~~~s~sl~d~~~~~~~ 309 (648)
|++. +||||+++|+|||+.++.. +.++|++++|||+|+||+||+||+++++|++||+|||||.+|+++
T Consensus 241 k~~~-~Sp~v~p~r~ilg~n~~~~~v~~~s~~~~~~~~~~~~~~Qrt~Ssgs~gS~dg~s~s~Ks~~s~sL~D~~~e~~~ 319 (705)
T PLN03131 241 KDIA-FSPPIQPPKDILGEDVQQRRIDLFSAALCKQGAEGCPHIQRSASLGSIGSFDSLSVSIKSFNSGSLADIVAEAEQ 319 (705)
T ss_pred cccC-CCCCcccchhhccccccccccCCCcccccccccccccccccccccCcccccCCCccceeecccccccccccCccc
Confidence 9975 5789988999999765544 457999999999999999999999999999999999999999999
Q ss_pred CcCCCCCcccccCCCCCCCCcCccccCCCCCCCCCCCCCCCCCCccCCCccccc-cccccccccCCCCCCCCCCCCCCCC
Q 006366 310 AAGAPLDKISTFPQSHGPVNYGGLDLFEAPVVPETVPSTAPPIDLFQLPETSAA-SVNMSEMSQASSVPSTNTYQPAQTS 388 (648)
Q Consensus 310 ~~~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlf~~p~~~~~-~v~~f~~~~~~~~~s~~~~q~~q~~ 388 (648)
+++++|.|+.+.++..+...+.++|+|++||+|+++..++++|||||+|+|+.| +|||||-+++..++++|.+|+.||+
T Consensus 320 ~~~~~q~k~~~~~~~~~~~~~~s~d~f~~~v~p~~~~~~a~pIDLFqlp~ts~a~~vdlf~~s~l~~~p~~n~~q~~qts 399 (705)
T PLN03131 320 AAGNHQDKMPAFPRMAGSGSHASLDHFKAPVAPEAAAPMAPPIDLFQLPATSPAPPVDLFEIPPLDPAPAINAYQPPQTS 399 (705)
T ss_pred cccccccccCCccccccccccccccccccccccccccccCCchhhhhccCCCCCCcccccccCcccCCCccccCCCCccc
Confidence 999999999999999999999999999999999999999999999999999988 9999999999999999999999999
Q ss_pred CCCCcccc-cccCCCccccccCCCCCCCCCCCCCcccccCCCCCCCCCCccCcccccccCCCCCCCCCCCCCCCCCCCCC
Q 006366 389 SPSSLNFF-QITEQPSTAILNRNPQELSIPKNEGWATFDTPPSAASIPGTESLSHAMVPANEGSSVKSDQFPSSNTSMQW 467 (648)
Q Consensus 389 ~~~~~d~f-~~~~~~~~~~~~~~~~~~~~~~n~gwatfd~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 467 (648)
++++|||| +|+||++++++|++++||++||||||||||+++.++|++|++||+..+|+.....+.+||.++++.++|||
T Consensus 400 ~p~~~dlfag~~qqq~~~s~~~~~~~~s~pknegwa~fd~~~p~~s~~~~~n~t~~~v~~~~~~~~~~d~v~~~~~~~q~ 479 (705)
T PLN03131 400 LPSSIDLFGGITQQQSINSLDEKSPELSIPKNEGWATFDGIQPIASTPGNENLTPFSIGPSMAGSANFDQVPSLDKGMQW 479 (705)
T ss_pred CCccccccccccccCccccccccCcccCCccccCcccccCCCcccccCCcccccccccccccccCcchhhcccccccccc
Confidence 99999999 99999999999999999999999999999999988999999999888999776456799999999999999
Q ss_pred CcccCCCCCCCCCCCCCCCCCcccccccccccccccccccCCCCCCCCCCCcccccccccccccccc--cccCCCCCCCC
Q 006366 468 PAFQNSGANGPSPSSDPWSGNLHIVQAPAVATSAQVVSAASDPWPGNLHNGEAPAIATNMQSWNAFD--DFTSHLPSEGF 545 (648)
Q Consensus 468 ~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~q~WnAF~--ds~~~~~~~~~ 545 (648)
|+|+++.++.+ +.||++|.+++||||+|.. +++|+||||+ |+++++||+++
T Consensus 480 Pp~~~~~~~~s--------------------------~s~~~pW~~~~~~V~~~~~-~~~q~WnAF~~~ds~~~~~l~~~ 532 (705)
T PLN03131 480 PPFQNSSDEES--------------------------ASGPAPWLGDLHNVEAPDN-TSAQNWNAFEFDDSVAGIPLEGI 532 (705)
T ss_pred CCCcccccccc--------------------------cccCCcccccchhcccCCc-cCccccccccccccccccccccc
Confidence 99998877553 4577899999999999986 9999999999 99999999999
Q ss_pred CCCCCCcccCCCCCCCCccchhhhcccccCCCCCCcccCCCC--CCCCCCCCCCccCCCCCCCCCCcccccccccccCCC
Q 006366 546 KPNSEPHVDAYMPSPTPDQYLAIVSQQETNDDGNPRVASHDG--PPNMTVPSQADMGPSYNPSMFPLMGQMRTHATEHKS 623 (648)
Q Consensus 546 ~~~~~~~~~~~~~~~t~~~~~~~~~~q~s~~dg~qr~ap~~~--f~~~~~ps~~v~gps~~p~~~~~mG~~~~~~~~~kS 623 (648)
++++++|++++++++.+ ||++++++||+++||+||+||+|+ |++|++|+.+|+||+|+|+++|+||++++|+++|||
T Consensus 533 ~~~s~~q~~~~~~~t~~-q~~~~~~~~d~~~d~~~r~~p~~~~~~~g~~~~~~~~~~ps~~~~~~~~~~~~~s~~~~~ks 611 (705)
T PLN03131 533 KQSSEPQTAANMPPTAD-QLIGCKALEDFNKDGIKRTAPHGQGELPGLDEPSDILAEPSYTPPAHPIMEHAQSHANDHKS 611 (705)
T ss_pred cccccccccccCCCCcc-cccccccccccccccccccCCCCCcCCCCCCCCCccccCCCCCccccccccccccccCccCC
Confidence 99999988766655554 999999999999999999999999 999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCCcccccc
Q 006366 624 TNPFDFPCDSDLEQNNMVWPRF 645 (648)
Q Consensus 624 tNPFDlPfdsD~e~~nMFm~~~ 645 (648)
+||||||||||+|++|||||+-
T Consensus 612 ~npfdl~~dsd~~~~~mf~d~s 633 (705)
T PLN03131 612 INPFDLPYDSDLEPGNMFLDMS 633 (705)
T ss_pred CCCcCCccccccCcccceeehH
Confidence 9999999999999999999973
No 2
>PLN03119 putative ADP-ribosylation factor GTPase-activating protein AGD14; Provisional
Probab=100.00 E-value=4.5e-152 Score=1226.70 Aligned_cols=574 Identities=50% Similarity=0.763 Sum_probs=533.0
Q ss_pred CCchhHHHHHHHHHHHHhcCCCCCCCcCCCCCCCCeeEecceehhhhhhhhhhhcCCCceeecccCCCCHHHHHHHHhcC
Q 006366 1 MGSRKEEERNEKIIRGLMKLPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHREFTHRVKSVSMSKFTSQEVEALQNGG 80 (648)
Q Consensus 1 M~srke~ErnekiLr~Llk~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~LGhrVKSltLDkWt~eEVe~Lq~gG 80 (648)
|++||++||++++|++|+++|+|++|||||+++|+|||+|||||||++|+||||+||||||||+||+|+.+||++|+.+|
T Consensus 1 M~SKR~qERnekILreLlklPgNk~CADCgs~~P~WASiNlGIFICi~CSGIHRsLGhRVKSLSLDkWT~EEVe~Mk~gG 80 (648)
T PLN03119 1 MGSKREEERNEKIIRGLMKLPPNRRCINCNSLGPQYVCTTFWTFVCMACSGIHREFTHRVKSVSMSKFTSKEVEVLQNGG 80 (648)
T ss_pred CcchHHHHHHHHHHHHHhhCcCCCccccCCCCCCCceeeccceEEeccchhhhccCCceeeccccCCCCHHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cHHHHHHHhhcCCcccCCCCCCCchHHHHHHHHHHHhcccccCCCCCCCCCCCccCCCCCccccccCCCCCCCCCCCCCc
Q 006366 81 NQRAREIYLKDWDFQRQRLPDNSNVNKVRDFIKNVYVDRRYAGGKTPDKPPKDTQGLGSHLDESRRASSYHSYSQSPPYD 160 (648)
Q Consensus 81 N~~AN~iwea~~d~~r~~~P~~sd~~~rreFIraKYveKrF~~~k~~DkPpr~~q~l~~~~~e~rrsssy~S~sQSpp~d 160 (648)
|++||+|||++|+..+.++|...+.+++|+|||.||++|||+.....++|+++.++.+.+++++||.++||+++|+|+|+
T Consensus 81 N~~AN~iyeanw~~~~~~~P~~sD~e~lr~FIR~KYVeKRF~~~~~~d~p~~~~~~~~~~~~~~~~~~s~h~~s~sp~y~ 160 (648)
T PLN03119 81 NQRAREIYLKNWDHQRQRLPENSNAERVREFIKNVYVQKKYAGANDADKPSKDSQDHVSSEDMTRRANSYHSYSQSPPYD 160 (648)
T ss_pred hHHHHHHHHhhcccccCCCCCCccHHHHHHHHHHHHhhhhccCcCCCCCCcccccccccccccccccccCCCCCCCCCcc
Confidence 99999999999998777788888888999999999999999999999999999999999899999999999999999999
Q ss_pred cchhhhccccccccccCCCCCCCCCCCCCCCCcccCCCCCchhhhhcccccCCCccccccccccCCCCCCCCCCCCCCcc
Q 006366 161 YQYEDRRYGKLGAVLTRKPGSDRGHYVGKISSLVHSPGRMSEQMFEDRFANEGSCSRISDYSVSSGGDPFRPGAQSPNFQ 240 (648)
Q Consensus 161 ~~~Edrr~~k~~~~l~Rkpgsd~~~~~gk~s~~~~sP~r~s~~~~~DRfa~e~s~~r~sdfs~s~~g~~~k~~~~sp~~~ 240 (648)
++||+||||||...|+||||+||+++ ||+++|+|+|+|+.++|+||||+||++++|++||+++++||++|.+.+||||+
T Consensus 161 ~~ye~rr~~~~~~~~~~~~~s~r~~~-~k~~~~~~s~~~~~~~m~ed~f~~e~~~~r~sd~s~ss~g~~~~~~~~sp~~~ 239 (648)
T PLN03119 161 YQYEERRYGKIPLGFTGKSASVKGLH-AKASSFVYSPGRFSDHMFEDQFSNEDSAPRASDYSVSSAGDPFRSDIQSPNFQ 239 (648)
T ss_pred cchhhhhccccccccccCCCcccccc-ccccceeeccchHHHHhhhhhcccCCCCCcccccccccCCcccccCcCCCCcc
Confidence 99999999999999999999999998 99999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCcccccccccccccCCCCCCCCCCCCccccCCCccccCCCccccccccCCCCccCCCCCccCcCCCCCcccc
Q 006366 241 KDAGFNSPPVQLSRDVSSLKANFKRDVDGIPHPKRTTSLGSMGSFDSNSVSLKSCNSGGLTDVSEHDDQAAGAPLDKIST 320 (648)
Q Consensus 241 Kd~~~ssp~v~~~~~~~~~~~~~~~~~~~~~~~qrt~ss~S~~s~~~~~~~~k~~~s~sl~d~~~~~~~~~~~~q~~~~~ 320 (648)
|.++++|||++.++++...... + ++++|||+|+||+||+|++++++|+++|++|.|+.+|.+++++++|.|+..
T Consensus 240 -~~~~~~~~~~~~~~~~~~~~~~----~-~~~sqRT~SsGs~gSfDs~s~S~ks~~Sg~l~d~~~E~~~~~~~~q~~~~~ 313 (648)
T PLN03119 240 -QEAEFRSPQFQHSNAPPSENLF----P-GRQHQRTTSSGSVRSVDSNFMSIKSYTSGGLGEAVSESRQNTGSQQGKTSN 313 (648)
T ss_pred -cccccCCcccccccCcchhhcc----c-ccccccccccccccccccccccccccccCCcccccccccccccccccccCC
Confidence 7789999999999988644432 2 689999999999999999999999999999999999999999999998765
Q ss_pred cCCCCCCCCcCccccCCCCCCCCCCCCCCCCCCccCCCccccc-cccccccccCCCCCCCCCCCCCCCCCCCCcccc-cc
Q 006366 321 FPQSHGPVNYGGLDLFEAPVVPETVPSTAPPIDLFQLPETSAA-SVNMSEMSQASSVPSTNTYQPAQTSSPSSLNFF-QI 398 (648)
Q Consensus 321 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlf~~p~~~~~-~v~~f~~~~~~~~~s~~~~q~~q~~~~~~~d~f-~~ 398 (648)
. +|++++.++++|||||+|+|+.| +|||||.|.++.++++|.+|+.||+++++||+| +|
T Consensus 314 ~-------------------~P~~~~~~aapIDLFqlp~ts~a~~vdlf~~~~~p~~p~~n~~q~~qts~p~~~~~f~~~ 374 (648)
T PLN03119 314 H-------------------VPLVAESTKAPIDLFQLPGAPVAQSVDTFQPSIAPRSPPVNLQQAPQTYSFTPANSFAGN 374 (648)
T ss_pred C-------------------CcccccccCCchhhhhccCCCCCccccccccccCCCCCccccCCCccccCCcchhhhhcc
Confidence 4 67788889999999999999888 999999999999999999999999999999999 99
Q ss_pred cCCCccccccCCCCCCCCCCCCCcccccCCCCCCCCCCccCcccccccCCCCCCCCCCCCCCCCCCCCCCcccCCCCCCC
Q 006366 399 TEQPSTAILNRNPQELSIPKNEGWATFDTPPSAASIPGTESLSHAMVPANEGSSVKSDQFPSSNTSMQWPAFQNSGANGP 478 (648)
Q Consensus 399 ~~~~~~~~~~~~~~~~~~~~n~gwatfd~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~ 478 (648)
.||+++. +++||++||||||||||+|. +++++++||.. +.....+.+||.++++.++||||+|+.+.+..
T Consensus 375 ~qqq~~~----~~~~~s~pkneGWA~fd~p~--~s~~~~~ni~~---~~~~~~~~~~d~v~~~~~~mq~Pp~~~~~~~~- 444 (648)
T PLN03119 375 LGQQPTS----RPSELSAPKNEGWASFDNPM--PAAKSTNVITS---PGDFQLELKIEEILQPSTSMQLPPYPSTVDQH- 444 (648)
T ss_pred cccCccc----CccccccccccCcccccccc--cccCCcccccC---ccccccCcchhhhcccccccccCCCccccccc-
Confidence 9997774 99999999999999999554 78888888744 32223456999999999999999988776643
Q ss_pred CCCCCCCCCCcccccccccccccccccccCCCCCCCCCCCcccccccccccccccccccCCCCCCCCC--CCCCCcccCC
Q 006366 479 SPSSDPWSGNLHIVQAPAVATSAQVVSAASDPWPGNLHNGEAPAIATNMQSWNAFDDFTSHLPSEGFK--PNSEPHVDAY 556 (648)
Q Consensus 479 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~q~WnAF~ds~~~~~~~~~~--~~~~~~~~~~ 556 (648)
++.||++|.+++||||+++ ++++|+||||+|+++++||++++ +++++++.++
T Consensus 445 -------------------------s~s~~~pW~~~~~~V~~~~-~~~~q~WnAF~ds~~~~~l~~~~~~~~~~~~~~~~ 498 (648)
T PLN03119 445 -------------------------ALSIPSPWQEDLSNVLKDV-VDNPQPWNAFPDSIEANPLDSSRNIHQQVDGASTS 498 (648)
T ss_pred -------------------------ccccCCchhccchhcccCc-ccCccccccchhhhccCcccccccccccccccccc
Confidence 4457889999999999998 69999999999999999999999 8888777655
Q ss_pred CCCCCCccchhhhcccccCCCCCCccc-CCCCCCCCCCCCCCccCCCCCCCCCCcccccccccccCCCCCCCCCCCCCCC
Q 006366 557 MPSPTPDQYLAIVSQQETNDDGNPRVA-SHDGPPNMTVPSQADMGPSYNPSMFPLMGQMRTHATEHKSTNPFDFPCDSDL 635 (648)
Q Consensus 557 ~~~~t~~~~~~~~~~q~s~~dg~qr~a-p~~~f~~~~~ps~~v~gps~~p~~~~~mG~~~~~~~~~kStNPFDlPfdsD~ 635 (648)
.++|++||+++|++||+++||+||+| |+|. ++|++|+++++||+|+++++|+|+ ++||+||||||||+|+
T Consensus 499 -~~~t~~q~~~~r~~ed~~~dg~qr~~~p~g~-~g~~~~~~~~~~Ps~~~~~~~~~~-------~~ks~npfdl~~~sd~ 569 (648)
T PLN03119 499 -SYNTDHQHLESQVLEELSNDGTQTTRIPAGS-SAFGFPGNIGMAPSYSEEAWQHVN-------EQKSANPFDLPYDSEF 569 (648)
T ss_pred -CCCCcccccccccccccccccccccccCCCC-CCCCCCCccccCCCCCchhccccc-------cccCCCCcCCcccccc
Confidence 45555599999999999999999999 6666 999999999999999999999998 4999999999999999
Q ss_pred CCCCcccccc
Q 006366 636 EQNNMVWPRF 645 (648)
Q Consensus 636 e~~nMFm~~~ 645 (648)
|++|||||+-
T Consensus 570 ~~~~mf~d~t 579 (648)
T PLN03119 570 DSNDMFLDMS 579 (648)
T ss_pred CcccceeehH
Confidence 9999999973
No 3
>KOG0702 consensus Predicted GTPase-activating protein [Signal transduction mechanisms]
Probab=100.00 E-value=4.7e-36 Score=321.87 Aligned_cols=441 Identities=29% Similarity=0.404 Sum_probs=316.7
Q ss_pred CCch-hHHHHH-HHHHHHHhcCCCCCCCcCCCCCCC-CeeEecceehhhhhhhhhhhcCC--CceeecccCCCCHHHHHH
Q 006366 1 MGSR-KEEERN-EKIIRGLMKLPPNRRCINCNSLGP-QYVCTNFWTFVCMTCSGIHREFT--HRVKSVSMSKFTSQEVEA 75 (648)
Q Consensus 1 M~sr-ke~Ern-ekiLr~Llk~PgNk~CADCGa~~P-~WaSvnfGVFVCi~CSGIHR~LG--hrVKSltLDkWt~eEVe~ 75 (648)
|.++ ||+|++ |++||.|+++|+|++|++|+...+ +|+++.-|-|||+.|+|..|+|. ||||+|+|.+|++.||..
T Consensus 1 ~a~~~ke~E~~~ek~iR~l~kLP~NrrC~nCnsl~~~t~~~~~~g~fv~~~~sg~ls~l~~ahRvksiSmttft~qevs~ 80 (524)
T KOG0702|consen 1 YAGYKKEDEYDYEKEIRRLLKLPENRRCINCNSLVAATYVVYTVGSFVCTMCSGLLSGLNPAHRVKSISMTTFTDQEVSF 80 (524)
T ss_pred CCcccccchhHHHHHHHHHhcCCCCCceeeccccccceEEEeeccceeeeccchhhccCCCccccceeeeeeccccchHH
Confidence 3344 778887 999999999999999999999988 99999999999999999999995 999999999999999999
Q ss_pred HHhcCcHHHHHHHhhcCCcccCCCCCCCchHHHHHHHHHHHhcccccCCCCCCCCCCCccCCCCCccccccCCCCCCCCC
Q 006366 76 LQNGGNQRAREIYLKDWDFQRQRLPDNSNVNKVRDFIKNVYVDRRYAGGKTPDKPPKDTQGLGSHLDESRRASSYHSYSQ 155 (648)
Q Consensus 76 Lq~gGN~~AN~iwea~~d~~r~~~P~~sd~~~rreFIraKYveKrF~~~k~~DkPpr~~q~l~~~~~e~rrsssy~S~sQ 155 (648)
|+.+||+.+++||++-++..+--.|+..+.++.|+||+.||+.|+|+..+..++-+.- +| ..++..
T Consensus 81 lQshgNq~~k~i~fkl~D~q~S~vPD~rn~~~~kef~q~~y~~kr~~v~~n~~k~~s~----------tr---~s~s~~- 146 (524)
T KOG0702|consen 81 LQSHGNQVCKEIWFKLFDFQRSNVPDSRNPQKVKEFQQEKYVKKRYYVPKNQMKIPSY----------TR---GSLSED- 146 (524)
T ss_pred HhhcchhhhhhhhhcchhhhhccCCCcccchhhHHHHhhhhccceeecCccccccccc----------cc---cccccc-
Confidence 9999999999999999999988899999999999999999999999987554433211 00 001100
Q ss_pred CCCCccchhhhccccccccccCCCCCCCCCCCCCCCCcccCCCCCchhhhhcccccCCCccccccccccCCCCCCCCCCC
Q 006366 156 SPPYDYQYEDRRYGKLGAVLTRKPGSDRGHYVGKISSLVHSPGRMSEQMFEDRFANEGSCSRISDYSVSSGGDPFRPGAQ 235 (648)
Q Consensus 156 Spp~d~~~Edrr~~k~~~~l~Rkpgsd~~~~~gk~s~~~~sP~r~s~~~~~DRfa~e~s~~r~sdfs~s~~g~~~k~~~~ 235 (648)
++++.. + .|++ +-+|+-- || +
T Consensus 147 s~~~~~----------------------s-----------~~~~-----~~lrs~~---------------gd------~ 167 (524)
T KOG0702|consen 147 SRPVSE----------------------S-----------RPET-----KSLRSLL---------------GD------H 167 (524)
T ss_pred CCcccc----------------------c-----------CCCc-----ccccccc---------------CC------C
Confidence 111100 0 0011 1122100 00 1
Q ss_pred CCCcccccCCCCCCcccccccccccccCCCCCCCCCCCCccccCCCccccCCCccccccccCCCCccCCCCCccCcCCCC
Q 006366 236 SPNFQKDAGFNSPPVQLSRDVSSLKANFKRDVDGIPHPKRTTSLGSMGSFDSNSVSLKSCNSGGLTDVSEHDDQAAGAPL 315 (648)
Q Consensus 236 sp~~~Kd~~~ssp~v~~~~~~~~~~~~~~~~~~~~~~~qrt~ss~S~~s~~~~~~~~k~~~s~sl~d~~~~~~~~~~~~q 315 (648)
.|-.+ +..++..+. + -.++-|-|-
T Consensus 168 ~P~~~-------------------------------~~t~np~~~------~--------~~~~~~~~~----------- 191 (524)
T KOG0702|consen 168 APLLA-------------------------------ESTKNPRSR------G--------LPKSPIRFE----------- 191 (524)
T ss_pred Ccchh-------------------------------hcccCcccc------C--------CCCCCchhh-----------
Confidence 11100 001111100 0 000001000
Q ss_pred CcccccCCCCCCCCcCccccCCCCCCCCCCCCCCCCCCccCCCccccc-cccccccccCCCCCCCCCCCCCCCCCCCCcc
Q 006366 316 DKISTFPQSHGPVNYGGLDLFEAPVVPETVPSTAPPIDLFQLPETSAA-SVNMSEMSQASSVPSTNTYQPAQTSSPSSLN 394 (648)
Q Consensus 316 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlf~~p~~~~~-~v~~f~~~~~~~~~s~~~~q~~q~~~~~~~d 394 (648)
...-.+|||+++.++.+ +++.||.+++.+.+.++..+..|+..++.+|
T Consensus 192 -------------------------------~~~~rfdlfg~~k~sd~~s~s~~qss~~~~ssp~~~~~~~~~~~~s~an 240 (524)
T KOG0702|consen 192 -------------------------------IVDDRFDLFGLPKASDAQSQSTFQSSIAPSSSPPNHQSVPQAYSDSPAN 240 (524)
T ss_pred -------------------------------hhhhhhhhhcCcCcccccccCcccccccccCCCCccccchhhccccccc
Confidence 12246899999998888 9999999999888888888899999999999
Q ss_pred ccccc--CCCccccccCCCCCCCCCCCCCccc-ccCCCCCCCCCCccCcccccccCCC--CCCCCCCCCCCCCCCCCCCc
Q 006366 395 FFQIT--EQPSTAILNRNPQELSIPKNEGWAT-FDTPPSAASIPGTESLSHAMVPANE--GSSVKSDQFPSSNTSMQWPA 469 (648)
Q Consensus 395 ~f~~~--~~~~~~~~~~~~~~~~~~~n~gwat-fd~p~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~ 469 (648)
+|.++ .||. ..+..++.||||||+. +|+|..+.... .+|.+.- -...||+..+..+..|+.|.
T Consensus 241 ~~~ge~~k~P~-----~~~~~asapk~eg~~s~sd~pvne~~~e-------~~i~s~~~~~~f~k~~e~paps~a~qlp~ 308 (524)
T KOG0702|consen 241 IFAGEPFKQPV-----SRPSFASAPKNEGWASLSDNPVNEAKSE-------NVITSPGSFADFLKFEEIPAPSVAMQLPP 308 (524)
T ss_pred ccccCCCCCCc-----cCccccccccccCCcccccCcccccccc-------ccccCcccchhhcccccccCcchhhhcCC
Confidence 99322 3343 5788999999999999 89998765432 2222111 11258888889999999998
Q ss_pred ccCCCCCCCCCCCCCCCCCcccccccccccccccccccCCCCCCCCCCCcccccccccccccccccccCCCCCCCCCCCC
Q 006366 470 FQNSGANGPSPSSDPWSGNLHIVQAPAVATSAQVVSAASDPWPGNLHNGEAPAIATNMQSWNAFDDFTSHLPSEGFKPNS 549 (648)
Q Consensus 470 ~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~q~WnAF~ds~~~~~~~~~~~~~ 549 (648)
..+.++......+.+|. ++|..-...+.+|. +|+++-++++...+++..+-.
T Consensus 309 ~ss~~~~~q~t~~~~~n----------------------d~~ssf~~~~~Ap~------~~~~s~p~i~s~~~s~~~~l~ 360 (524)
T KOG0702|consen 309 YSSTVDQHQPTIPSPWN----------------------DQGSSFGATPVAPP------LWVASPPSIGSNLLSSSRALA 360 (524)
T ss_pred cCCCccccCCCCCCccc----------------------ccCcccccccccCC------ccccCCCCccccccccccccc
Confidence 88777766554333221 23444334554444 799999999999999999988
Q ss_pred CCcccCCCC-CCCCccchhhhcccccCCCCCCcccCCCCCCCCCCCCCCccCCCCCCCCCCcccccccccccCCCCCCCC
Q 006366 550 EPHVDAYMP-SPTPDQYLAIVSQQETNDDGNPRVASHDGPPNMTVPSQADMGPSYNPSMFPLMGQMRTHATEHKSTNPFD 628 (648)
Q Consensus 550 ~~~~~~~~~-~~t~~~~~~~~~~q~s~~dg~qr~ap~~~f~~~~~ps~~v~gps~~p~~~~~mG~~~~~~~~~kStNPFD 628 (648)
+.+.+.-+. ++++++.+.+-+.++.-.++.|.+++-.+..-+.+|..+-++|++.+- .-|-....+-..++.+++++
T Consensus 361 ~~~s~~gsa~~~~~~~~~n~~~~e~~~~s~~q~~s~ft~~~ts~~p~~~~~~pssn~~--~~~~~Q~~~~~~~~g~~~~s 438 (524)
T KOG0702|consen 361 VQSSVFGSAGYVPPHQPVNLGVLEELSNSTTQTFSAFTNESTSGFPAPIGMAPSSNHH--QDDEFQPNHRNPQPGAAMSS 438 (524)
T ss_pred cccccccccccCCCCcccccccccccccccccccccccCcccccCccccccCCccccc--ccccccccccCCCCcccccc
Confidence 876444444 788999999988789999999999998888889999999999998842 11222223333366899999
Q ss_pred CCCCCCCCCC-Ccccc
Q 006366 629 FPCDSDLEQN-NMVWP 643 (648)
Q Consensus 629 lPfdsD~e~~-nMFm~ 643 (648)
|||+...+.+ +||.+
T Consensus 439 l~~~~~~~~P~~~~fa 454 (524)
T KOG0702|consen 439 LPYGFEFASPFDMFFA 454 (524)
T ss_pred CCCCCCcCCCcccccc
Confidence 9999999999 88765
No 4
>KOG0703 consensus Predicted GTPase-activating protein [Signal transduction mechanisms]
Probab=100.00 E-value=1.4e-35 Score=304.01 Aligned_cols=118 Identities=31% Similarity=0.660 Sum_probs=107.5
Q ss_pred hHHHHHHHHHHHHhcCCCCCCCcCCCCCCCCeeEecceehhhhhhhhhhhcCC-C--ceeecccCCCCHHHHHHHHhcCc
Q 006366 5 KEEERNEKIIRGLMKLPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHREFT-H--RVKSVSMSKFTSQEVEALQNGGN 81 (648)
Q Consensus 5 ke~ErnekiLr~Llk~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~LG-h--rVKSltLDkWt~eEVe~Lq~gGN 81 (648)
...++++++|++|++.|+|++|||||+++|+|||+|+|||||++|+||||.|| | |||||+||.|++|+|+.|+..||
T Consensus 7 ~~~~~~~~~l~~Ll~~~~N~~CADC~a~~P~WaSwnlGvFiC~~C~giHR~lg~hiSkVkSv~LD~W~~eqv~~m~~~GN 86 (287)
T KOG0703|consen 7 GSNERNKRRLRELLREPDNKVCADCGAKGPRWASWNLGVFICLRCAGIHRSLGVHISKVKSVTLDEWTDEQVDFMISMGN 86 (287)
T ss_pred cccchHHHHHHHHHcCcccCcccccCCCCCCeEEeecCeEEEeecccccccccchhheeeeeeccccCHHHHHHHHHHcc
Confidence 44688999999999999999999999999999999999999999999999999 5 99999999999999999999999
Q ss_pred HHHHHHHhhcCCcccCCCCCCCchHHHHHHHHHHHhcccccCCC
Q 006366 82 QRAREIYLKDWDFQRQRLPDNSNVNKVRDFIKNVYVDRRYAGGK 125 (648)
Q Consensus 82 ~~AN~iwea~~d~~r~~~P~~sd~~~rreFIraKYveKrF~~~k 125 (648)
.+||.+||+.++.. .+.|...+ .++.|||+|||+|+|+...
T Consensus 87 ~~an~~~ea~~p~~-~~~p~~d~--~~e~FIR~KYE~kkf~~~~ 127 (287)
T KOG0703|consen 87 AKANSYYEAKLPDP-FRRPGPDD--LVEQFIRDKYERKKFLDPE 127 (287)
T ss_pred hhhhhhccccCCcc-ccCCChHH--HHHHHHHHHHhhhhhccch
Confidence 99999999998765 44454433 6888999999999999863
No 5
>PF01412 ArfGap: Putative GTPase activating protein for Arf; InterPro: IPR001164 This entry describes a family of small GTPase activating proteins, for example ARF1-directed GTPase-activating protein, the cycle control GTPase activating protein (GAP) GCS1 which is important for the regulation of the ADP ribosylation factor ARF, a member of the Ras superfamily of GTP-binding proteins []. The GTP-bound form of ARF is essential for the maintenance of normal Golgi morphology, it participates in recruitment of coat proteins which are required for budding and fission of membranes. Before the fusion with an acceptor compartment the membrane must be uncoated. This step required the hydrolysis of GTP associated to ARF. These proteins contain a characteristic zinc finger motif (Cys-x2-Cys-x(16,17)-x2-Cys) which displays some similarity to the C4-type GATA zinc finger. The ARFGAP domain display no obvious similarity to other GAP proteins. The 3D structure of the ARFGAP domain of the PYK2-associated protein beta has been solved []. It consists of a three-stranded beta-sheet surrounded by 5 alpha helices. The domain is organised around a central zinc atom which is coordinated by 4 cysteines. The ARFGAP domain is clearly unrelated to the other GAP proteins structures which are exclusively helical. Classical GAP proteins accelerate GTPase activity by supplying an arginine finger to the active site. The crystal structure of ARFGAP bound to ARF revealed that the ARFGAP domain does not supply an arginine to the active site which suggests a more indirect role of the ARFGAP domain in the GTPase hydrolysis []. The Rev protein of human immunodeficiency virus type 1 (HIV-1) facilitates nuclear export of unspliced and partly-spliced viral RNAs []. Rev contains an RNA-binding domain and an effector domain; the latter is believed to interact with a cellular cofactor required for the Rev response and hence HIV-1 replication. Human Rev interacting protein (hRIP) specifically interacts with the Rev effector. The amino acid sequence of hRIP is characterised by an N-terminal, C-4 class zinc finger motif.; GO: 0008060 ARF GTPase activator activity, 0008270 zinc ion binding, 0032312 regulation of ARF GTPase activity; PDB: 2P57_A 2CRR_A 2OWA_B 3O47_B 3DWD_A 1DCQ_A 2CRW_A 3MDB_D 3FEH_A 3LJU_X ....
Probab=100.00 E-value=2.8e-35 Score=266.76 Aligned_cols=112 Identities=34% Similarity=0.740 Sum_probs=93.3
Q ss_pred HHHHHHhcCCCCCCCcCCCCCCCCeeEecceehhhhhhhhhhhcCC---CceeecccCCCCHHHHHHHHhcCcHHHHHHH
Q 006366 12 KIIRGLMKLPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHREFT---HRVKSVSMSKFTSQEVEALQNGGNQRAREIY 88 (648)
Q Consensus 12 kiLr~Llk~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~LG---hrVKSltLDkWt~eEVe~Lq~gGN~~AN~iw 88 (648)
++|++|++.|+|++|||||+++|+|||++||||||+.|+|+||+|| ++||||+||+|+.+||++|+.+||.++|++|
T Consensus 2 ~~l~~l~~~~~N~~CaDCg~~~p~w~s~~~GiflC~~Cag~HR~lg~~is~VkSi~~d~w~~~ev~~~~~~GN~~~n~~~ 81 (116)
T PF01412_consen 2 KILRELLKKPGNKVCADCGAPNPTWASLNYGIFLCLECAGIHRSLGVHISRVKSITMDNWSPEEVQRMREGGNKRANSIW 81 (116)
T ss_dssp HHHHHHHCSTTCTB-TTT-SBS--EEETTTTEEE-HHHHHHHHHHTTTT--EEETTTS---HHHHHHHHHSHHHHHHHHH
T ss_pred HHHHHHHcCcCcCcCCCCCCCCCCEEEeecChhhhHHHHHHHHHhcccchhccccccCCCCHHHHHHHHHHChHHHHHHH
Confidence 6899999999999999999999999999999999999999999999 6999999999999999999999999999999
Q ss_pred hhcCCcccCCCCCCCchHHHHHHHHHHHhcccccCC
Q 006366 89 LKDWDFQRQRLPDNSNVNKVRDFIKNVYVDRRYAGG 124 (648)
Q Consensus 89 ea~~d~~r~~~P~~sd~~~rreFIraKYveKrF~~~ 124 (648)
|++.+ ...+++..++.+.+++||++||++|+|+.+
T Consensus 82 e~~~~-~~~~~~~~~~~~~~~~fI~~KY~~k~f~~~ 116 (116)
T PF01412_consen 82 EANSP-PPKKPPPSSDQEKREQFIRAKYVEKAFISK 116 (116)
T ss_dssp TTTST-TTTTHCTTSHHHHHHHHHHHHHTTHTTS-C
T ss_pred HcCCC-CCCCCCCCCcHHHHHHHHHHHHHhhhhccC
Confidence 99932 234566678888999999999999999853
No 6
>smart00105 ArfGap Putative GTP-ase activating proteins for the small GTPase, ARF. Putative zinc fingers with GTPase activating proteins (GAPs) towards the small GTPase, Arf. The GAP of ARD1 stimulates GTPase hydrolysis for ARD1 but not ARFs.
Probab=100.00 E-value=2.1e-33 Score=253.30 Aligned_cols=106 Identities=31% Similarity=0.701 Sum_probs=97.4
Q ss_pred CCCCCCcCCCCCCCCeeEecceehhhhhhhhhhhcCC-C--ceeecccCCCCHHHHHHHHhcCcHHHHHHHhhcCCcccC
Q 006366 21 PPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHREFT-H--RVKSVSMSKFTSQEVEALQNGGNQRAREIYLKDWDFQRQ 97 (648)
Q Consensus 21 PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~LG-h--rVKSltLDkWt~eEVe~Lq~gGN~~AN~iwea~~d~~r~ 97 (648)
|+|++|||||+++|+|||++||||||++|+||||+|| | +||||+||+|++++|++|+.+||.++|++||++++....
T Consensus 1 ~~N~~CaDC~~~~p~w~s~~~GifvC~~CsgiHR~lg~his~VkSl~md~w~~~~i~~~~~~GN~~~n~~~e~~~~~~~~ 80 (112)
T smart00105 1 PGNKKCFDCGAPNPTWASVNLGVFLCIECSGIHRSLGVHISKVRSLTLDTWTEEELRLLQKGGNENANSIWESNLDDFSL 80 (112)
T ss_pred CCCCcccCCCCCCCCcEEeccceeEhHHhHHHHHhcCCCcCeeeecccCCCCHHHHHHHHHhhhHHHHHHHHhhCCcccc
Confidence 5899999999999999999999999999999999998 4 699999999999999999999999999999999987655
Q ss_pred CCCCCCchHHHHHHHHHHHhcccccCCCC
Q 006366 98 RLPDNSNVNKVRDFIKNVYVDRRYAGGKT 126 (648)
Q Consensus 98 ~~P~~sd~~~rreFIraKYveKrF~~~k~ 126 (648)
+.+...+.+.+++||++||++|+|+....
T Consensus 81 ~~~~~~~~~~~~~fI~~KY~~k~f~~~~~ 109 (112)
T smart00105 81 KPPDSDDQQKYESFIAAKYEEKLFVPPES 109 (112)
T ss_pred CCCCCchHHHHHHHHHHHHHhhhcccccc
Confidence 55666667888999999999999987643
No 7
>COG5347 GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
Probab=99.96 E-value=1.6e-30 Score=271.56 Aligned_cols=117 Identities=24% Similarity=0.576 Sum_probs=103.6
Q ss_pred HHHHHHHHHHhcCCCCCCCcCCCCCCCCeeEecceehhhhhhhhhhhcCC-C--ceeecccCCCCHHHHHHHHhcCcHHH
Q 006366 8 ERNEKIIRGLMKLPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHREFT-H--RVKSVSMSKFTSQEVEALQNGGNQRA 84 (648)
Q Consensus 8 ErnekiLr~Llk~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~LG-h--rVKSltLDkWt~eEVe~Lq~gGN~~A 84 (648)
...++++..|++.++|+.|||||+++|+||++|||||||++||||||+|| | +||||+||+|+.+||++|..+||.+|
T Consensus 5 ~~~~~~l~~l~~~~~Nk~CaDCga~~P~W~S~nlGvfiCi~CagvHRsLGvhiS~VKSitLD~wt~~~l~~m~~gGN~~a 84 (319)
T COG5347 5 SEDRKLLKLLKSDSSNKKCADCGAPNPTWASVNLGVFLCIDCAGVHRSLGVHISKVKSLTLDNWTEEELRRMEVGGNSNA 84 (319)
T ss_pred hHHHHHHHHHhhccccCccccCCCCCCceEecccCeEEEeecchhhhccccceeeeeeeecccCCHHHHHHHHHhcchhh
Confidence 45677888899999999999999999999999999999999999999999 4 99999999999999999999999999
Q ss_pred HHHHhhcCCcc-cCCCCCCCchHHHHHHHHHHHhcccccCC
Q 006366 85 REIYLKDWDFQ-RQRLPDNSNVNKVRDFIKNVYVDRRYAGG 124 (648)
Q Consensus 85 N~iwea~~d~~-r~~~P~~sd~~~rreFIraKYveKrF~~~ 124 (648)
|.||+++.-.. ..++-...+...+++||+.||++++|...
T Consensus 85 ~~~~e~~~~~~~~~~~k~~yd~~v~~~y~~~ky~~~~~~~~ 125 (319)
T COG5347 85 NRFYEKNLLDQLLLPIKAKYDSSVAKKYIRKKYELKKFIDD 125 (319)
T ss_pred hhHhccCCCcccccccccccCHHHHHHHHHHHHHhhhcccc
Confidence 99999886432 12222456778889999999999999876
No 8
>KOG0704 consensus ADP-ribosylation factor GTPase activator [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=99.95 E-value=2.9e-28 Score=253.73 Aligned_cols=86 Identities=33% Similarity=0.690 Sum_probs=80.9
Q ss_pred HHHHHHHHHHHhcCCCCCCCcCCCCCCCCeeEecceehhhhhhhhhhhcCC-C--ceeecccCCCCHHHHHHHHhcCcHH
Q 006366 7 EERNEKIIRGLMKLPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHREFT-H--RVKSVSMSKFTSQEVEALQNGGNQR 83 (648)
Q Consensus 7 ~ErnekiLr~Llk~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~LG-h--rVKSltLDkWt~eEVe~Lq~gGN~~ 83 (648)
..|+++.|++|+...+|+.|+||++++|+|||++||||||++|+|+||.|| | +|||||||+|.+.||++|++|||++
T Consensus 3 sprtrr~L~~lkp~deNk~CfeC~a~NPQWvSvsyGIfICLECSG~HRgLGVhiSFVRSVTMD~wkeiel~kMeaGGN~~ 82 (386)
T KOG0704|consen 3 SPRTRRVLLELKPQDENKKCFECGAPNPQWVSVSYGIFICLECSGKHRGLGVHISFVRSVTMDKWKEIELKKMEAGGNER 82 (386)
T ss_pred ChHHHHHHHhcCccccCCceeecCCCCCCeEeecccEEEEEecCCcccccceeeEEEEeeecccccHHHHHHHHhccchh
Confidence 357888899999888999999999999999999999999999999999999 4 9999999999999999999999999
Q ss_pred HHHHHhhcC
Q 006366 84 AREIYLKDW 92 (648)
Q Consensus 84 AN~iwea~~ 92 (648)
++++++..-
T Consensus 83 ~~eFL~s~~ 91 (386)
T KOG0704|consen 83 FREFLSSQG 91 (386)
T ss_pred HHHHHhhCc
Confidence 999988663
No 9
>PLN03114 ADP-ribosylation factor GTPase-activating protein AGD10; Provisional
Probab=99.92 E-value=1.2e-25 Score=235.49 Aligned_cols=116 Identities=22% Similarity=0.414 Sum_probs=96.0
Q ss_pred HHHHHHHhcCCCCCCCcCCCCCCCCeeEecceehhhhhhhhhhhcCC-C--ceeecccCCCCHHHHHHHHhcCcHHHHHH
Q 006366 11 EKIIRGLMKLPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHREFT-H--RVKSVSMSKFTSQEVEALQNGGNQRAREI 87 (648)
Q Consensus 11 ekiLr~Llk~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~LG-h--rVKSltLDkWt~eEVe~Lq~gGN~~AN~i 87 (648)
.++|++|+++|+|++|+|||+++|+|+++|||||||++|+||||.|| | +|||++||+|+.++|++|+.+||.++|++
T Consensus 10 ~~vfrkL~~kPgNk~CaDCga~nPtWASvn~GIFLCl~CSGVHRsLGvHISfVRSltLD~Ws~eqL~~Mk~GGN~rA~~f 89 (395)
T PLN03114 10 ISVFKKLKAKSDNKICFDCNAKNPTWASVTYGIFLCIDCSAVHRSLGVHISFVRSTNLDSWSSEQLKMMIYGGNNRAQVF 89 (395)
T ss_pred HHHHHHHHhCcCCCcCccCCCCCCCceeeccceeehhhhhHhhccCCCCCceeecccCCCCCHHHHHHHHHhcCHHHHHH
Confidence 45699999999999999999999999999999999999999999999 4 89999999999999999999999999999
Q ss_pred HhhcCCcccCCC--CCCCchHHHHHHHHHHHhcccccCCCC
Q 006366 88 YLKDWDFQRQRL--PDNSNVNKVRDFIKNVYVDRRYAGGKT 126 (648)
Q Consensus 88 wea~~d~~r~~~--P~~sd~~~rreFIraKYveKrF~~~k~ 126 (648)
|+.+.-.....+ -..+...++.+-+.+|++++.+..+..
T Consensus 90 F~qhG~~~~~~~~~KY~S~aA~~Yre~L~keVa~~~a~~~~ 130 (395)
T PLN03114 90 FKQYGWSDGGKTEAKYTSRAADLYKQILAKEVAKSKAEEEL 130 (395)
T ss_pred HHHcCCCCCCCcccccCCHHHHHHHHHHHHHHHHhhhcccc
Confidence 987531111111 122444455556888899998876654
No 10
>KOG0706 consensus Predicted GTPase-activating protein [Signal transduction mechanisms]
Probab=99.91 E-value=5.2e-25 Score=235.33 Aligned_cols=85 Identities=24% Similarity=0.598 Sum_probs=80.5
Q ss_pred HHHHHHHHHHhcCCCCCCCcCCCCCCCCeeEecceehhhhhhhhhhhcCC-C--ceeecccCCCCHHHHHHHHhcCcHHH
Q 006366 8 ERNEKIIRGLMKLPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHREFT-H--RVKSVSMSKFTSQEVEALQNGGNQRA 84 (648)
Q Consensus 8 ErnekiLr~Llk~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~LG-h--rVKSltLDkWt~eEVe~Lq~gGN~~A 84 (648)
...+.+++.|+..+.||+|||||+++|+|++|+|||||||+|+++||+|| | +|||..||+|+.+||++|+.|||.+|
T Consensus 8 ~d~~~vfkkLRs~~~NKvCFDCgAknPtWaSVTYGIFLCiDCSAvHRnLGVHiSFVRSTnLDsWs~~qLR~M~~GGN~nA 87 (454)
T KOG0706|consen 8 QDIQTVFKKLRSQSENKVCFDCGAKNPTWASVTYGIFLCIDCSAVHRNLGVHISFVRSTNLDSWSWEQLRRMQVGGNANA 87 (454)
T ss_pred hhHHHHHHHHhcCCCCceecccCCCCCCceeecceEEEEEecchhhhccccceEEEeecccccCCHHHHhHhhhcCchhH
Confidence 34578899999999999999999999999999999999999999999999 5 99999999999999999999999999
Q ss_pred HHHHhhcC
Q 006366 85 REIYLKDW 92 (648)
Q Consensus 85 N~iwea~~ 92 (648)
+.++..+-
T Consensus 88 ~~FFkqhg 95 (454)
T KOG0706|consen 88 RVFFKQHG 95 (454)
T ss_pred HHHHHHcC
Confidence 99998763
No 11
>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]
Probab=99.89 E-value=7.4e-24 Score=231.17 Aligned_cols=115 Identities=19% Similarity=0.455 Sum_probs=103.0
Q ss_pred HHHHHHHhcCCCCCCCcCCCCCCCCeeEecceehhhhhhhhhhhcCC---CceeecccCCCCHHHHHHHHhcCcHHHHHH
Q 006366 11 EKIIRGLMKLPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHREFT---HRVKSVSMSKFTSQEVEALQNGGNQRAREI 87 (648)
Q Consensus 11 ekiLr~Llk~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~LG---hrVKSltLDkWt~eEVe~Lq~gGN~~AN~i 87 (648)
.-.|+.|+..+||.+|+||+.++|.||++|+|++||++|+||||.|| +|||+|.||.|..|.+..|..+||+.||++
T Consensus 501 a~a~qairn~rgn~~c~dc~~~n~~wAslnlg~l~cieCsgihr~lgt~lSrvr~LeLDdWPvEl~~Vm~aiGN~~AN~v 580 (749)
T KOG0705|consen 501 AMALQAIRNMRGNSHCVDCGTPNPKWASLNLGVLMCIECSGIHRNLGTHLSRVRSLELDDWPVELLKVMSAIGNDLANSV 580 (749)
T ss_pred HHHHHHHhcCcCCceeeecCCCCcccccccCCeEEEEEchhhhhhhhhhhhhhhccccccCcHHHHHHHHHhhhhHHHHH
Confidence 34588999999999999999999999999999999999999999999 399999999999999999999999999999
Q ss_pred HhhcCCcccCCCCCCCchHHHHHHHHHHHhcccccCCCC
Q 006366 88 YLKDWDFQRQRLPDNSNVNKVRDFIKNVYVDRRYAGGKT 126 (648)
Q Consensus 88 wea~~d~~r~~~P~~sd~~~rreFIraKYveKrF~~~k~ 126 (648)
||......+. +...+..++++.||++||++|.|.....
T Consensus 581 WE~~~~G~~K-Ps~~s~REEkErwIr~KYeqklFLaPl~ 618 (749)
T KOG0705|consen 581 WEGSSQGQTK-PSPDSSREEKERWIRAKYEQKLFLAPLP 618 (749)
T ss_pred hhhhccCCcC-CCccccHHHHHHHHHHHHHHHhhcCCCC
Confidence 9986655433 3344678889999999999999987644
No 12
>KOG0521 consensus Putative GTPase activating proteins (GAPs) [Signal transduction mechanisms]
Probab=99.81 E-value=9.5e-21 Score=217.48 Aligned_cols=115 Identities=26% Similarity=0.543 Sum_probs=101.6
Q ss_pred HHHHHhcCCCCCCCcCCCCCCCCeeEecceehhhhhhhhhhhcCC-C--ceeecccCCCCHHHHHHHHhcCcHHHHHHHh
Q 006366 13 IIRGLMKLPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHREFT-H--RVKSVSMSKFTSQEVEALQNGGNQRAREIYL 89 (648)
Q Consensus 13 iLr~Llk~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~LG-h--rVKSltLDkWt~eEVe~Lq~gGN~~AN~iwe 89 (648)
.+..+++.|+|.+|+|||++.|+|+++|+||.+||+|+||||+|| | ||+|++||.|..+.+.+++++||..+|.|||
T Consensus 416 ~~~~vq~~pgN~~c~Dcg~p~ptw~S~NLgv~~CIecSGvhRslGvh~SkvrsLtLD~~~~~l~~l~~~lgn~~~N~i~e 495 (785)
T KOG0521|consen 416 VIEEVQSVPGNAQCCDCGAPEPTWASINLGVLLCIECSGVHRSLGVHISKVRSLTLDVWEPELLLLFKNLGNKYVNEIYE 495 (785)
T ss_pred hhhhhhcCCchhhhhhcCCCCCchHhhhhchhhHhhccccccccCchhhhhhhhhhhccCcHHHHHHHHhCcchhhhhhh
Confidence 367888999999999999999999999999999999999999999 4 9999999999999999999999999999999
Q ss_pred hcCCcccCCCC-CCCchHHHHHHHHHHHhcccccCCCCC
Q 006366 90 KDWDFQRQRLP-DNSNVNKVRDFIKNVYVDRRYAGGKTP 127 (648)
Q Consensus 90 a~~d~~r~~~P-~~sd~~~rreFIraKYveKrF~~~k~~ 127 (648)
+.+.....+.| ..++...++.||++||++++|..+...
T Consensus 496 ~~l~~~~~~~~~~~~~~~~r~~~i~~kyve~~F~~k~~~ 534 (785)
T KOG0521|consen 496 ALLPSYDSSKPTASSSRQAREAWIKAKYVERRFSVKEPQ 534 (785)
T ss_pred cccccccccCCCCccchhhhhHhhhcccceeeEeecccc
Confidence 99865433333 334577788999999999999877543
No 13
>KOG1117 consensus Rho- and Arf-GTPase activating protein ARAP3 [Signal transduction mechanisms; Cytoskeleton]
Probab=99.62 E-value=1.6e-16 Score=179.69 Aligned_cols=109 Identities=26% Similarity=0.514 Sum_probs=97.1
Q ss_pred HHHhcCCCCCCCcCCCCCCCCeeEecceehhhhhhhhhhhcCC---CceeecccC--CCCHHHHHHHHhcCcHHHHHHHh
Q 006366 15 RGLMKLPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHREFT---HRVKSVSMS--KFTSQEVEALQNGGNQRAREIYL 89 (648)
Q Consensus 15 r~Llk~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~LG---hrVKSltLD--kWt~eEVe~Lq~gGN~~AN~iwe 89 (648)
.++.....|+.|||||++.|.||++|++|.||-.|+|-||.|| ++|+|++|| .|+.+-|+++...||.++|.+|-
T Consensus 290 eriW~ne~nr~cadC~ssrPdwasiNL~vvIck~caGqhrslgs~dSkvrslkmd~svwsneliElfivlgn~~an~Fwa 369 (1186)
T KOG1117|consen 290 ERIWLNEENRECADCGSSRPDWASINLCVVICKPCAGQHRSLGSGDSKVRSLKMDPSVWSNELIELFIVLGNPRANRFWA 369 (1186)
T ss_pred HHHHhccccccccccCCCCCcccccccceEEcccCCCccccCCCccccccccccCcccccchhhhhheeecCcccccccc
Confidence 4566778999999999999999999999999999999999998 599999998 79999999999999999999999
Q ss_pred hcCCcccCCCCCCCchHHHHHHHHHHHhcccccCC
Q 006366 90 KDWDFQRQRLPDNSNVNKVRDFIKNVYVDRRYAGG 124 (648)
Q Consensus 90 a~~d~~r~~~P~~sd~~~rreFIraKYveKrF~~~ 124 (648)
.++++...-.|+ +.+..|++||++||.+.+|...
T Consensus 370 ~nl~~~e~lh~d-ssp~~r~~fi~~Kykeg~fRk~ 403 (1186)
T KOG1117|consen 370 GNLPPNEHLHPD-SSPSTRRQFIKEKYKEGKFRKE 403 (1186)
T ss_pred cCCCCccccCCC-CCcchhhhHHHHHhhccccccc
Confidence 998765444443 5677899999999999988654
No 14
>KOG0818 consensus GTPase-activating proteins of the GIT family [Signal transduction mechanisms]
Probab=99.62 E-value=5.8e-17 Score=175.54 Aligned_cols=133 Identities=20% Similarity=0.382 Sum_probs=100.6
Q ss_pred hcCCCCCCCcCCCCCCCCeeEecceehhhhhhhhhhhcCC-C--ceeecccCCCCHHHHHHHHhcCcHHHHHHHhhcC-C
Q 006366 18 MKLPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHREFT-H--RVKSVSMSKFTSQEVEALQNGGNQRAREIYLKDW-D 93 (648)
Q Consensus 18 lk~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~LG-h--rVKSltLDkWt~eEVe~Lq~gGN~~AN~iwea~~-d 93 (648)
++...-+.|+|||+++|.||||+-|||||.+|..+||.|| | .||+|....|.++.|+++....|..+|.|||..+ +
T Consensus 3 k~~l~~evC~DC~~~dp~WASvnrGt~lC~eCcsvHrsLGrhIS~vrhLR~s~W~pt~l~~V~tLn~~gaNsIWEh~Lld 82 (669)
T KOG0818|consen 3 KRLLSSEVCADCSGPDPSWASVNRGTFLCDECCSVHRSLGRHISQVRHLRHTPWPPTLLQMVETLNNNGANSIWEHSLLD 82 (669)
T ss_pred ccchhhhhhcccCCCCCcceeecCceEehHhhhHHHhhhcchHHHHHHhccCCCCHHHHHHHHHHHhcCcchhhhhhccC
Confidence 3445678999999999999999999999999999999999 4 8999999999999999999999999999999876 3
Q ss_pred c----ccCCCCCCCchH--HHHHHHHHHHhcccccCCC-CCCCCCCCccCCCCCccccccCCCC
Q 006366 94 F----QRQRLPDNSNVN--KVRDFIKNVYVDRRYAGGK-TPDKPPKDTQGLGSHLDESRRASSY 150 (648)
Q Consensus 94 ~----~r~~~P~~sd~~--~rreFIraKYveKrF~~~k-~~DkPpr~~q~l~~~~~e~rrsssy 150 (648)
+ .+.++|...|.. .+.+|||+||+...|+.+. +.|.-....+++..+.....|+..+
T Consensus 83 ~st~~sg~rk~~pqD~~Hp~K~eFIkaKy~~LtFv~~~~~rDdD~~~~~~LsrQLhasvRt~nl 146 (669)
T KOG0818|consen 83 PATIMSGRRKANPQDKVHPNKAEFIRAKYQMLAFVHRLPCRDDDSVTAKDLSKQLHSSVRTGNL 146 (669)
T ss_pred chhhhcccCCCCCcCCCCccHHHHHHHHHHheeeeccCCCCCcchhhHHHHHHHHHHHhhcccH
Confidence 2 223344444432 3568999999999998743 3443322223333344455555543
No 15
>PLN03131 hypothetical protein; Provisional
Probab=97.20 E-value=0.065 Score=61.80 Aligned_cols=39 Identities=15% Similarity=0.425 Sum_probs=25.1
Q ss_pred CCCCCCCCCccCCCcc-----ccc-cccccccccCCCCCCCCCCC
Q 006366 345 VPSTAPPIDLFQLPET-----SAA-SVNMSEMSQASSVPSTNTYQ 383 (648)
Q Consensus 345 ~~~~~~~~dlf~~p~~-----~~~-~v~~f~~~~~~~~~s~~~~q 383 (648)
.+....++|+|+.|++ +.| ||||||-.+.|.++++++.|
T Consensus 336 ~~~~~~s~d~f~~~v~p~~~~~~a~pIDLFqlp~ts~a~~vdlf~ 380 (705)
T PLN03131 336 GSGSHASLDHFKAPVAPEAAAPMAPPIDLFQLPATSPAPPVDLFE 380 (705)
T ss_pred cccccccccccccccccccccccCCchhhhhccCCCCCCcccccc
Confidence 3366789999996663 334 99999754444444444444
No 16
>PLN03119 putative ADP-ribosylation factor GTPase-activating protein AGD14; Provisional
Probab=95.75 E-value=0.56 Score=54.09 Aligned_cols=39 Identities=21% Similarity=0.361 Sum_probs=23.8
Q ss_pred Cccc-cccccccccccCCCCCCCCCCCCCCCCCCCCcccc
Q 006366 358 PETS-AASVNMSEMSQASSVPSTNTYQPAQTSSPSSLNFF 396 (648)
Q Consensus 358 p~~~-~~~v~~f~~~~~~~~~s~~~~q~~q~~~~~~~d~f 396 (648)
.+++ ++||||||-.+.|.++++++.|+.=.++-++|+++
T Consensus 318 ~~~~~aapIDLFqlp~ts~a~~vdlf~~~~~p~~p~~n~~ 357 (648)
T PLN03119 318 VAESTKAPIDLFQLPGAPVAQSVDTFQPSIAPRSPPVNLQ 357 (648)
T ss_pred cccccCCchhhhhccCCCCCccccccccccCCCCCccccC
Confidence 3344 44999998666666666666664444444555555
No 17
>KOG0702 consensus Predicted GTPase-activating protein [Signal transduction mechanisms]
Probab=94.65 E-value=0.053 Score=60.94 Aligned_cols=142 Identities=20% Similarity=0.161 Sum_probs=105.0
Q ss_pred CCCCCCCCCCccchhhhccccccccccCCCCCCCCCCCCCCCCcccCCCCCchhhhhcccccCCCccccccccccCCCCC
Q 006366 150 YHSYSQSPPYDYQYEDRRYGKLGAVLTRKPGSDRGHYVGKISSLVHSPGRMSEQMFEDRFANEGSCSRISDYSVSSGGDP 229 (648)
Q Consensus 150 y~S~sQSpp~d~~~Edrr~~k~~~~l~Rkpgsd~~~~~gk~s~~~~sP~r~s~~~~~DRfa~e~s~~r~sdfs~s~~g~~ 229 (648)
|+++.+.+.|+|.|+-||++|..++ |+=-.=..+ +...-+.+.++++-.++.++-+.+....+|..++++..-+++
T Consensus 1 ~a~~~ke~E~~~ek~iR~l~kLP~N--rrC~nCnsl--~~~t~~~~~~g~fv~~~~sg~ls~l~~ahRvksiSmttft~q 76 (524)
T KOG0702|consen 1 YAGYKKEDEYDYEKEIRRLLKLPEN--RRCINCNSL--VAATYVVYTVGSFVCTMCSGLLSGLNPAHRVKSISMTTFTDQ 76 (524)
T ss_pred CCcccccchhHHHHHHHHHhcCCCC--Cceeecccc--ccceEEEeeccceeeeccchhhccCCCccccceeeeeecccc
Confidence 5778888999999999999998633 332121122 223446688999999999999999999999999999999998
Q ss_pred CCCCCCC-CC-cccccCCCCCCcccccccccccccCCCCCCCCCCCCccccCCCccccCCCccccccccCCCCc
Q 006366 230 FRPGAQS-PN-FQKDAGFNSPPVQLSRDVSSLKANFKRDVDGIPHPKRTTSLGSMGSFDSNSVSLKSCNSGGLT 301 (648)
Q Consensus 230 ~k~~~~s-p~-~~Kd~~~ssp~v~~~~~~~~~~~~~~~~~~~~~~~qrt~ss~S~~s~~~~~~~~k~~~s~sl~ 301 (648)
.....|+ +| ..|++.+-.+-.++ +..+..++.--....||+.....--.++.|.+.+++|+.++|-
T Consensus 77 evs~lQshgNq~~k~i~fkl~D~q~------S~vPD~rn~~~~kef~q~~y~~kr~~v~~n~~k~~s~tr~s~s 144 (524)
T KOG0702|consen 77 EVSFLQSHGNQVCKEIWFKLFDFQR------SNVPDSRNPQKVKEFQQEKYVKKRYYVPKNQMKIPSYTRGSLS 144 (524)
T ss_pred chHHHhhcchhhhhhhhhcchhhhh------ccCCCcccchhhHHHHhhhhccceeecCccccccccccccccc
Confidence 8888887 76 66666444433222 2334445555556678888888888899999999999997764
No 18
>KOG0521 consensus Putative GTPase activating proteins (GAPs) [Signal transduction mechanisms]
Probab=88.72 E-value=0.12 Score=61.51 Aligned_cols=67 Identities=16% Similarity=0.282 Sum_probs=49.5
Q ss_pred CCCCCCCcCCCC-CCCCeeEecceehhhhhhhhhhhcCC-C--ceeecccCCCCHHHHHHHHhcCcHHHHHHH
Q 006366 20 LPPNRRCINCNS-LGPQYVCTNFWTFVCMTCSGIHREFT-H--RVKSVSMSKFTSQEVEALQNGGNQRAREIY 88 (648)
Q Consensus 20 ~PgNk~CADCGa-~~P~WaSvnfGVFVCi~CSGIHR~LG-h--rVKSltLDkWt~eEVe~Lq~gGN~~AN~iw 88 (648)
...+..|++|++ ..-.|+++++.+.+|+.|+++|+.++ | .++++.|+...+ |..+...||..++..|
T Consensus 627 ~~~~~~~~~~~~~~~~~~~~~n~~~~~~~~~s~lh~a~~~~~~~~~e~ll~~ga~--vn~~d~~g~~plh~~~ 697 (785)
T KOG0521|consen 627 ASSDGECLPRIATALAHGCCENWPVVLCIGCSLLHVAVGTGDSGAVELLLQNGAD--VNALDSKGRTPLHHAT 697 (785)
T ss_pred hccCccchhhhhhhhcchhhhccchhhhcccchhhhhhccchHHHHHHHHhcCCc--chhhhccCCCcchhhh
Confidence 345889999997 57899999999999999999999996 4 555555655555 5555555555444444
No 19
>PRK12495 hypothetical protein; Provisional
Probab=77.07 E-value=1.9 Score=44.74 Aligned_cols=37 Identities=19% Similarity=0.227 Sum_probs=27.4
Q ss_pred HHHHHHhc--CCCCCCCcCCCCCCCCeeEecceehhhhhhhhh
Q 006366 12 KIIRGLMK--LPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGI 52 (648)
Q Consensus 12 kiLr~Llk--~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGI 52 (648)
++-..|++ ...++.|-+||.+=|.+ -|+.+|..|..+
T Consensus 29 ~ma~lL~~gatmsa~hC~~CG~PIpa~----pG~~~Cp~CQ~~ 67 (226)
T PRK12495 29 RMSELLLQGATMTNAHCDECGDPIFRH----DGQEFCPTCQQP 67 (226)
T ss_pred HHHHHHHhhcccchhhcccccCcccCC----CCeeECCCCCCc
Confidence 33344444 35889999999988832 599999999865
No 20
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=76.29 E-value=1.7 Score=32.60 Aligned_cols=40 Identities=15% Similarity=0.421 Sum_probs=33.2
Q ss_pred CCCCCcCCCCCCCCeeEecceehhhhhhhhh-hhcCCCceeec
Q 006366 22 PNRRCINCNSLGPQYVCTNFWTFVCMTCSGI-HREFTHRVKSV 63 (648)
Q Consensus 22 gNk~CADCGa~~P~WaSvnfGVFVCi~CSGI-HR~LGhrVKSl 63 (648)
.+..|..|+.....+.+.+=+++||..|... |+. |+|.+|
T Consensus 2 ~~~~C~~H~~~~~~~~C~~C~~~~C~~C~~~~H~~--H~~~~i 42 (42)
T PF00643_consen 2 QEPKCPEHPEEPLSLFCEDCNEPLCSECTVSGHKG--HKIVPI 42 (42)
T ss_dssp SSSB-SSTTTSBEEEEETTTTEEEEHHHHHTSTTT--SEEEEC
T ss_pred cCccCccCCccceEEEecCCCCccCccCCCCCCCC--CEEeEC
Confidence 3578999998878999999999999999987 887 877664
No 21
>PRK00085 recO DNA repair protein RecO; Reviewed
Probab=54.06 E-value=7 Score=39.49 Aligned_cols=32 Identities=22% Similarity=0.413 Sum_probs=26.4
Q ss_pred CCCCCCCcCCCCCCC-CeeEecceehhhhhhhh
Q 006366 20 LPPNRRCINCNSLGP-QYVCTNFWTFVCMTCSG 51 (648)
Q Consensus 20 ~PgNk~CADCGa~~P-~WaSvnfGVFVCi~CSG 51 (648)
.|.-..|+-||.... .|.+..-|.++|..|..
T Consensus 146 ~p~l~~C~~Cg~~~~~~~f~~~~gg~~c~~c~~ 178 (247)
T PRK00085 146 GLDLDHCAVCGAPGDHRYFSPKEGGAVCSECGD 178 (247)
T ss_pred ccchhhHhcCCCCCCceEEecccCCcccccccC
Confidence 355579999998644 78899999999999973
No 22
>TIGR00613 reco DNA repair protein RecO. All proteins in this family for which functions are known are DNA binding proteins that are involved in the initiation of recombination or recombinational repair.
Probab=53.40 E-value=9.2 Score=38.50 Aligned_cols=33 Identities=18% Similarity=0.390 Sum_probs=26.9
Q ss_pred CCCCCCCcCCCCCCC-CeeEecceehhhhhhhhh
Q 006366 20 LPPNRRCINCNSLGP-QYVCTNFWTFVCMTCSGI 52 (648)
Q Consensus 20 ~PgNk~CADCGa~~P-~WaSvnfGVFVCi~CSGI 52 (648)
.|.-..|+.||..++ .|.+...|.++|..|...
T Consensus 144 ~p~l~~C~~cg~~~~~~~fs~~~gg~~C~~c~~~ 177 (241)
T TIGR00613 144 ALDLDKCAVCGSKEDLIYFSMTYGGALCRQCGEK 177 (241)
T ss_pred CcccCccCCCCCcCCCceEchhcCeEEChhhCcc
Confidence 456679999998544 678899999999999864
No 23
>TIGR02419 C4_traR_proteo phage/conjugal plasmid C-4 type zinc finger protein, TraR family. Members of this family are putative C4-type zinc finger proteins found almost exclusively in prophage regions, actual phage, or conjugal transfer regions of the Proteobactia. This small protein (about 70 amino acids) appears homologous to but is smaller than DksA (DnaK suppressor protein), found to be critical for regulating transcription of ribosomal RNA.
Probab=50.70 E-value=8.9 Score=32.28 Aligned_cols=33 Identities=24% Similarity=0.410 Sum_probs=22.5
Q ss_pred CCCCCCCcCCCCCCC--CeeEecceehhhhhhhhhh
Q 006366 20 LPPNRRCINCNSLGP--QYVCTNFWTFVCMTCSGIH 53 (648)
Q Consensus 20 ~PgNk~CADCGa~~P--~WaSvnfGVFVCi~CSGIH 53 (648)
.++...|.+||.+=| ++.- --|+..|+.|...+
T Consensus 28 ~~s~g~C~~Cg~~Ip~~Rl~a-~p~~~~Cv~Cq~~~ 62 (63)
T TIGR02419 28 GPSLRECEDCGEPIPEARREA-LPGVTRCVSCQEIL 62 (63)
T ss_pred CCCCCeeccCCCcChHHHHhh-cCCcCCcHHHHhhc
Confidence 456789999998633 2222 23788999998754
No 24
>COG1734 DksA DnaK suppressor protein [Signal transduction mechanisms]
Probab=47.93 E-value=9.5 Score=36.14 Aligned_cols=43 Identities=19% Similarity=0.335 Sum_probs=24.3
Q ss_pred HHHHHHHhcCCCC--CCCcCCCCCCCCe-eEecceehhhhhhhhhh
Q 006366 11 EKIIRGLMKLPPN--RRCINCNSLGPQY-VCTNFWTFVCMTCSGIH 53 (648)
Q Consensus 11 ekiLr~Llk~PgN--k~CADCGa~~P~W-aSvnfGVFVCi~CSGIH 53 (648)
++|-..|.++... .+|.+||.+=|.= .-.--+..+|+.|.-.|
T Consensus 66 ~~i~~al~rIe~gtYG~Ce~cG~~Ip~~RL~A~P~A~~Ci~cQ~~~ 111 (120)
T COG1734 66 RKIESALDRIEEGTYGICEECGEPIPEARLEARPTARLCIECQERA 111 (120)
T ss_pred HHHHHHHHHHHcCCccchhccCCcCCHHHHhhCcchHHHHHHHHHH
Confidence 3333344443333 4899999862210 11122578999999775
No 25
>PRK11019 hypothetical protein; Provisional
Probab=46.11 E-value=11 Score=33.99 Aligned_cols=33 Identities=15% Similarity=0.314 Sum_probs=22.9
Q ss_pred CCCCCcCCCCCCC--CeeEecceehhhhhhhhhhhc
Q 006366 22 PNRRCINCNSLGP--QYVCTNFWTFVCMTCSGIHRE 55 (648)
Q Consensus 22 gNk~CADCGa~~P--~WaSvnfGVFVCi~CSGIHR~ 55 (648)
.-..|.+||.+=| .+.-+. ++-.|++|...+-.
T Consensus 35 syg~C~~CG~~Ip~~Rl~A~P-~a~~Cv~Cq~~~E~ 69 (88)
T PRK11019 35 SLTECEECGEPIPEARRKAIP-GVRLCVACQQEKDL 69 (88)
T ss_pred cCCeeCcCCCcCcHHHHhhcC-CccccHHHHHHHHH
Confidence 4579999998633 333333 67889999987543
No 26
>PRK13715 conjugal transfer protein TraR; Provisional
Probab=43.32 E-value=11 Score=32.82 Aligned_cols=31 Identities=16% Similarity=0.270 Sum_probs=20.5
Q ss_pred CCCCcCCCCCCCCeeE-ecceehhhhhhhhhh
Q 006366 23 NRRCINCNSLGPQYVC-TNFWTFVCMTCSGIH 53 (648)
Q Consensus 23 Nk~CADCGa~~P~WaS-vnfGVFVCi~CSGIH 53 (648)
...|.|||.+=|.==- .--|+..|+.|...+
T Consensus 34 ~~~C~~Cg~~Ip~~Rl~a~p~~~~Cv~Cq~~~ 65 (73)
T PRK13715 34 VYLCEACGNPIPEARRKIFPGVTLCVECQAYQ 65 (73)
T ss_pred cccHhhcCCcCCHHHHhcCCCcCCCHHHHHHH
Confidence 4589999986432111 122788999998754
No 27
>PHA00080 DksA-like zinc finger domain containing protein
Probab=42.49 E-value=12 Score=32.39 Aligned_cols=46 Identities=17% Similarity=0.345 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHhc---CCCCCCCcCCCCCC--CCeeEecceehhhhhhhhhh
Q 006366 7 EERNEKIIRGLMK---LPPNRRCINCNSLG--PQYVCTNFWTFVCMTCSGIH 53 (648)
Q Consensus 7 ~ErnekiLr~Llk---~PgNk~CADCGa~~--P~WaSvnfGVFVCi~CSGIH 53 (648)
+...+..|...+. ..+...|.+||..= ..+.-+. |+..|+.|...+
T Consensus 12 e~~~~~al~~~~~~~~~~~~~~C~~Cg~~Ip~~Rl~a~P-~~~~Cv~Cq~~~ 62 (72)
T PHA00080 12 ELQRERALANRRNKYQAPSATHCEECGDPIPEARREAVP-GCRTCVSCQEIL 62 (72)
T ss_pred HHHHHHHHHHHHhcccCCCCCEecCCCCcCcHHHHHhCC-CccCcHHHHHHH
Confidence 3334444444433 34556899999853 2333233 667799998865
No 28
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=41.29 E-value=16 Score=27.69 Aligned_cols=28 Identities=25% Similarity=0.565 Sum_probs=23.4
Q ss_pred CCCCCCcCCCCCCCCeeEecceehhhhhhhh
Q 006366 21 PPNRRCINCNSLGPQYVCTNFWTFVCMTCSG 51 (648)
Q Consensus 21 PgNk~CADCGa~~P~WaSvnfGVFVCi~CSG 51 (648)
..|..|..|++. |....=|-++|.+|-.
T Consensus 6 ~~~~~C~~C~~~---~~~~~dG~~yC~~cG~ 33 (36)
T PF11781_consen 6 GPNEPCPVCGSR---WFYSDDGFYYCDRCGH 33 (36)
T ss_pred cCCCcCCCCCCe---EeEccCCEEEhhhCce
Confidence 456779999987 8888889999999953
No 29
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=39.70 E-value=11 Score=29.10 Aligned_cols=27 Identities=26% Similarity=0.492 Sum_probs=20.4
Q ss_pred CCcCCCCCCCCeeEecceehhhhhhhhh
Q 006366 25 RCINCNSLGPQYVCTNFWTFVCMTCSGI 52 (648)
Q Consensus 25 ~CADCGa~~P~WaSvnfGVFVCi~CSGI 52 (648)
+|-.||+.. ....-.-|-+||..|.-|
T Consensus 2 ~Cp~Cg~~~-~~~D~~~g~~vC~~CG~V 28 (43)
T PF08271_consen 2 KCPNCGSKE-IVFDPERGELVCPNCGLV 28 (43)
T ss_dssp SBTTTSSSE-EEEETTTTEEEETTT-BB
T ss_pred CCcCCcCCc-eEEcCCCCeEECCCCCCE
Confidence 699999976 444566899999999544
No 30
>COG1381 RecO Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=39.53 E-value=16 Score=37.97 Aligned_cols=30 Identities=27% Similarity=0.676 Sum_probs=25.9
Q ss_pred CCCCCCcCCCCCC-CCeeEecceehhhhhhh
Q 006366 21 PPNRRCINCNSLG-PQYVCTNFWTFVCMTCS 50 (648)
Q Consensus 21 PgNk~CADCGa~~-P~WaSvnfGVFVCi~CS 50 (648)
+.=..|+.||... +..+++-.|-++|.+|.
T Consensus 152 ~~l~~Ca~cg~~~~~~~~s~~~~~~~C~~~~ 182 (251)
T COG1381 152 PNLTSCARCGTPVDPVYFSPKSGGFLCSKCA 182 (251)
T ss_pred cchHHHhCcCCcCCCcceeeccCcccchhcc
Confidence 3447999999975 57999999999999999
No 31
>KOG2057 consensus Predicted equilibrative nucleoside transporter protein [Nucleotide transport and metabolism]
Probab=38.24 E-value=43 Score=37.11 Aligned_cols=81 Identities=22% Similarity=0.249 Sum_probs=45.0
Q ss_pred CCCCCccCCCccccc-cccccccc----cCCCCCCCCCCCCCCCCCCC-CcccccccCCCccccccC--CCCCCCCCCCC
Q 006366 349 APPIDLFQLPETSAA-SVNMSEMS----QASSVPSTNTYQPAQTSSPS-SLNFFQITEQPSTAILNR--NPQELSIPKNE 420 (648)
Q Consensus 349 ~~~~dlf~~p~~~~~-~v~~f~~~----~~~~~~s~~~~q~~q~~~~~-~~d~f~~~~~~~~~~~~~--~~~~~~~~~n~ 420 (648)
..-.|||+--+-+.+ .-|||..- .+-++++||.-|..-++--- =.|+|+|.+-|+-+.++. +...+..|.||
T Consensus 327 gdl~dLFDgsa~s~~gaadlfG~faDf~~aaaagsfn~a~atA~Sg~GdfgD~~AF~aAPsgpmAqSgef~g~aaaPa~e 406 (499)
T KOG2057|consen 327 GDLDDLFDGSAPSPAGAADLFGAFADFFGAAAAGSFNAAPATAPSGGGDFGDLFAFGAAPSGPMAQSGEFAGPAAAPANE 406 (499)
T ss_pred ccHHHHhcCcCCCCCCchhhcCchhhhhhhhccCccccccccccCCCCcchhhhhhcCCCCccccccccccCccccchhh
Confidence 345677874444433 44444431 13456788887776665543 378999999886554443 33344445544
Q ss_pred ----CcccccCCC
Q 006366 421 ----GWATFDTPP 429 (648)
Q Consensus 421 ----gwatfd~p~ 429 (648)
-..-||-|+
T Consensus 407 ~~nGS~na~~~~p 419 (499)
T KOG2057|consen 407 ASNGSFNAFDFGP 419 (499)
T ss_pred hccCccccCCCCc
Confidence 234455444
No 32
>TIGR02890 spore_yteA sporulation protein, yteA family. Members of this predicted regulatory protein are found only in endospore-forming members of the Firmicutes group of bacteria, and in nearly every such species; Clostridium perfringens seems to be an exception. The member from Bacillus subtilis, the model system for the study of the sporulation program, has been designated both yteA and yzwB. Some (but not all) members of this family show a strong sequence match to PFAM family pfam01258 the C4-type zinc finger protein, DksA/TraR family, but only one of the four key Cys residues is conserved. All members of this protein family share an additional C-terminal domain. The function of proteins in this family is unknown. YteA was detected in mature spores of Bacillus subtilis by Kuwana, et al., and appears to be expressed under control of sigma-K.
Probab=37.41 E-value=22 Score=35.07 Aligned_cols=42 Identities=12% Similarity=0.218 Sum_probs=24.4
Q ss_pred HHHHHHHHhcCCCCCCCcCCCCCC--CCeeEecceehhhhhhhhhh
Q 006366 10 NEKIIRGLMKLPPNRRCINCNSLG--PQYVCTNFWTFVCMTCSGIH 53 (648)
Q Consensus 10 nekiLr~Llk~PgNk~CADCGa~~--P~WaSvnfGVFVCi~CSGIH 53 (648)
.+++|++|.. ..=-.|.+||..= -+.--+. ++-.|+.|...+
T Consensus 74 Ie~AL~Ri~~-G~YG~Ce~CGe~I~~~RL~a~P-~a~~Ci~Cq~~~ 117 (159)
T TIGR02890 74 IEHALQKIEN-GTYGICEVCGKPIPYERLEAIP-TATTCVECQNRK 117 (159)
T ss_pred HHHHHHHHhC-CCCCeecccCCcccHHHHhhCC-CcchhHHHHHHh
Confidence 3344444533 3445899999841 1222222 467899999865
No 33
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=35.73 E-value=11 Score=28.56 Aligned_cols=27 Identities=30% Similarity=0.599 Sum_probs=16.6
Q ss_pred CCCcCCCCC-CCCeeEecceehhhhhhh
Q 006366 24 RRCINCNSL-GPQYVCTNFWTFVCMTCS 50 (648)
Q Consensus 24 k~CADCGa~-~P~WaSvnfGVFVCi~CS 50 (648)
..|.+||.. .-+|..-+|+.-||..|.
T Consensus 4 ~~C~eC~~~f~dSyL~~~F~~~VCD~CR 31 (34)
T PF01286_consen 4 PKCDECGKPFMDSYLLNNFDLPVCDKCR 31 (34)
T ss_dssp EE-TTT--EES-SSCCCCTS-S--TTT-
T ss_pred chHhHhCCHHHHHHHHHhCCcccccccc
Confidence 479999985 678999999999999995
No 34
>smart00401 ZnF_GATA zinc finger binding to DNA consensus sequence [AT]GATA[AG].
Probab=33.87 E-value=26 Score=28.32 Aligned_cols=36 Identities=19% Similarity=0.396 Sum_probs=29.5
Q ss_pred CCCCCcCCCC-CCCCeeEeccee-hhhhhhhhhhhcCC
Q 006366 22 PNRRCINCNS-LGPQYVCTNFWT-FVCMTCSGIHREFT 57 (648)
Q Consensus 22 gNk~CADCGa-~~P~WaSvnfGV-FVCi~CSGIHR~LG 57 (648)
..+.|..|+. .-|.|=.-..|- +||-.|.-..+..+
T Consensus 2 ~~~~C~~C~~~~T~~WR~g~~g~~~LCnaCgl~~~k~~ 39 (52)
T smart00401 2 SGRSCSNCGTTETPLWRRGPSGNKTLCNACGLYYKKHG 39 (52)
T ss_pred CCCCcCCCCCCCCCccccCCCCCCcEeecccHHHHHcC
Confidence 3579999997 468898888886 99999988777655
No 35
>PRK10778 dksA RNA polymerase-binding transcription factor; Provisional
Probab=30.43 E-value=60 Score=31.84 Aligned_cols=35 Identities=11% Similarity=0.136 Sum_probs=21.6
Q ss_pred CCCCCCCcCCCCCCCCe-eEecceehhhhhhhhhhh
Q 006366 20 LPPNRRCINCNSLGPQY-VCTNFWTFVCMTCSGIHR 54 (648)
Q Consensus 20 ~PgNk~CADCGa~~P~W-aSvnfGVFVCi~CSGIHR 54 (648)
.+.-..|-+||.+=|.= .-+-=++..|+.|...|-
T Consensus 108 ~gtYG~Ce~CGe~I~~~RL~A~P~A~~CI~CQe~~E 143 (151)
T PRK10778 108 DEDFGYCESCGVEIGIRRLEARPTADLCIDCKTLAE 143 (151)
T ss_pred CCCCceeccCCCcccHHHHhcCCCccccHHHHHHHH
Confidence 45668999999852100 001114578999998764
No 36
>cd00021 BBOX B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
Probab=27.01 E-value=52 Score=23.74 Aligned_cols=36 Identities=19% Similarity=0.421 Sum_probs=23.9
Q ss_pred CCcCCCCCCCCeeEecceehhhhhhhh-hhhcCCCceee
Q 006366 25 RCINCNSLGPQYVCTNFWTFVCMTCSG-IHREFTHRVKS 62 (648)
Q Consensus 25 ~CADCGa~~P~WaSvnfGVFVCi~CSG-IHR~LGhrVKS 62 (648)
.|-.|+.....+-+.+=+..||..|.- .|+ +|.+..
T Consensus 2 ~C~~H~~~~~~~fC~~~~~~iC~~C~~~~H~--~H~~~~ 38 (39)
T cd00021 2 LCDEHGEEPLSLFCETDRALLCVDCDLSVHS--GHRRVP 38 (39)
T ss_pred CCCccCCcceEEEeCccChhhhhhcChhhcC--CCCEee
Confidence 466666555566677778899999963 265 565543
No 37
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=26.73 E-value=23 Score=32.84 Aligned_cols=44 Identities=23% Similarity=0.509 Sum_probs=29.7
Q ss_pred cCCCCCCCcCCCCCCCCeeEecceehhhhhhhhhhhcC--CC--ceeecccC
Q 006366 19 KLPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHREF--TH--RVKSVSMS 66 (648)
Q Consensus 19 k~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~L--Gh--rVKSltLD 66 (648)
..|.--+|.+||. +..+....+.|-.|.+..-.+ |. +|++|.++
T Consensus 66 ~~p~~~~C~~Cg~----~~~~~~~~~~CP~Cgs~~~~i~~G~El~I~~ie~~ 113 (115)
T TIGR00100 66 DEPVECECEDCSE----EVSPEIDLYRCPKCHGIMLQVRAGKELNLKSIEVE 113 (115)
T ss_pred eeCcEEEcccCCC----EEecCCcCccCcCCcCCCcEEecCCeEEEEEEEEE
Confidence 3567779999994 233332357899999876444 42 88888764
No 38
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=26.69 E-value=22 Score=32.96 Aligned_cols=44 Identities=11% Similarity=0.290 Sum_probs=30.3
Q ss_pred cCCCCCCCcCCCCCCCCeeEecceehhhhhhhhhhhcC--CC--ceeeccc
Q 006366 19 KLPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHREF--TH--RVKSVSM 65 (648)
Q Consensus 19 k~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~L--Gh--rVKSltL 65 (648)
..|..-+|-+||. .+....+..+.|-.|.+....+ |. +|++|-+
T Consensus 66 ~~p~~~~C~~Cg~---~~~~~~~~~~~CP~Cgs~~~~i~~G~El~i~~iEv 113 (114)
T PRK03681 66 EQEAECWCETCQQ---YVTLLTQRVRRCPQCHGDMLRIVADDGLQIRRIEI 113 (114)
T ss_pred eeCcEEEcccCCC---eeecCCccCCcCcCcCCCCcEEccCCeEEEEEEEE
Confidence 3567789999995 2333344557899999886665 32 7887754
No 39
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=25.44 E-value=56 Score=29.80 Aligned_cols=30 Identities=13% Similarity=0.273 Sum_probs=23.8
Q ss_pred CCCCCCcCCCCCCCCeeEecceehhhhhhhhh
Q 006366 21 PPNRRCINCNSLGPQYVCTNFWTFVCMTCSGI 52 (648)
Q Consensus 21 PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGI 52 (648)
-.--.|-.|+.+ .---+..|||.|..|-..
T Consensus 33 ~~~~~Cp~C~~~--~VkR~a~GIW~C~kCg~~ 62 (89)
T COG1997 33 RAKHVCPFCGRT--TVKRIATGIWKCRKCGAK 62 (89)
T ss_pred hcCCcCCCCCCc--ceeeeccCeEEcCCCCCe
Confidence 345689999987 555688999999999643
No 40
>cd07171 NR_DBD_ER DNA-binding domain of estrogen receptors (ER) is composed of two C4-type zinc fingers. DNA-binding domain of estrogen receptors (ER) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. ER interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. Estrogen receptor is a transcription regulator that mediates the biological effects of hormone estrogen. The binding of estrogen to the receptor triggers the dimerization and the binding of the receptor dimer to estrogen response element, which is a palindromic inverted repeat: 5'GGTCAnnnTGACC-3', of target genes. Through ER, estrogen regulates development, reproduction and homeostasis. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, ER has a central well-conserved DNA binding domain (DBD), a variable N-terminal domain, a non-conserv
Probab=25.33 E-value=38 Score=29.83 Aligned_cols=31 Identities=13% Similarity=0.470 Sum_probs=25.5
Q ss_pred CCCCCcCCCCCCCCeeEecceehhhhhhhhhhhc
Q 006366 22 PNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHRE 55 (648)
Q Consensus 22 gNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~ 55 (648)
.|..|.=||... ....||++.|..|.+..|.
T Consensus 2 ~~~~C~VCg~~~---~g~hyGv~sC~aC~~FFRR 32 (82)
T cd07171 2 DTHFCAVCSDYA---SGYHYGVWSCEGCKAFFKR 32 (82)
T ss_pred CCCCCeecCCcC---cceEECceeehhhHHhHHH
Confidence 467899999754 3478999999999998865
No 41
>cd07173 NR_DBD_AR DNA-binding domain of androgen receptor (AR) is composed of two C4-type zinc fingers. DNA-binding domain of androgen receptor (AR) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which co-ordinates a single zinc atom. To regulate gene expression, AR interacts with a palindrome of the core sequence 5'-TGTTCT-3' with a 3-bp spacer. It also binds to the direct repeat 5'-TGTTCT-3' hexamer in some androgen controlled genes. AR is activated by the androgenic hormones, testosterone or dihydrotestosterone, which are responsible for primary and for secondary male characteristics, respectively. The primary mechanism of action of ARs is by direct regulation of gene transcription. The binding of androgen results in a conformational change in the androgen receptor which causes its transport from the cytosol into the cell nucleus, and dimerization. The receptor dimer binds to a hormone response element of AR regulated genes and modul
Probab=24.80 E-value=45 Score=29.40 Aligned_cols=31 Identities=16% Similarity=0.613 Sum_probs=25.4
Q ss_pred CCCCCcCCCCCCCCeeEecceehhhhhhhhhhhc
Q 006366 22 PNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHRE 55 (648)
Q Consensus 22 gNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~ 55 (648)
..+.|.=||...- ...||++.|..|.+..|.
T Consensus 2 ~~~~C~VCg~~a~---g~hyGv~sC~aCk~FFRR 32 (82)
T cd07173 2 PQKTCLICGDEAS---GCHYGALTCGSCKVFFKR 32 (82)
T ss_pred CCCCCeecCCcCc---ceEECcchhhhHHHHHHH
Confidence 4667999997653 468999999999998875
No 42
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=24.40 E-value=26 Score=34.56 Aligned_cols=34 Identities=32% Similarity=0.720 Sum_probs=27.1
Q ss_pred CCCCCCcCCCCCCCCeeEecceehhh-hhhhhhhhc
Q 006366 21 PPNRRCINCNSLGPQYVCTNFWTFVC-MTCSGIHRE 55 (648)
Q Consensus 21 PgNk~CADCGa~~P~WaSvnfGVFVC-i~CSGIHR~ 55 (648)
|--+.|+-|| -...|.|++-|.-+| ..|-++|.+
T Consensus 116 P~r~fCaVCG-~~S~ysC~~CG~kyCsv~C~~~Hne 150 (156)
T KOG3362|consen 116 PLRKFCAVCG-YDSKYSCVNCGTKYCSVRCLKTHNE 150 (156)
T ss_pred CcchhhhhcC-CCchhHHHhcCCceeechhhhhccc
Confidence 4456899999 667789999998877 478899865
No 43
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=23.80 E-value=28 Score=32.47 Aligned_cols=44 Identities=18% Similarity=0.310 Sum_probs=28.2
Q ss_pred CCCCCCCcCCCCCCCCeeEecceehhhhhhhhhhhcC--CC--ceeecccC
Q 006366 20 LPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHREF--TH--RVKSVSMS 66 (648)
Q Consensus 20 ~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~L--Gh--rVKSltLD 66 (648)
.|.--+|.+||.. |....+..+.|-.|.+..-.+ |. +|++|.++
T Consensus 68 vp~~~~C~~Cg~~---~~~~~~~~~~CP~Cgs~~~~i~~G~El~I~~iE~~ 115 (117)
T PRK00564 68 EKVELECKDCSHV---FKPNALDYGVCEKCHSKNVIITQGNEMRLLSLEML 115 (117)
T ss_pred cCCEEEhhhCCCc---cccCCccCCcCcCCCCCceEEecCCEEEEEEEEEE
Confidence 3455689999942 222234455699999876554 42 78887653
No 44
>PF00320 GATA: GATA zinc finger; InterPro: IPR000679 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents GATA-type zinc fingers (Znf). A number of transcription factors (including erythroid-specific transcription factor and nitrogen regulatory proteins), specifically bind the DNA sequence (A/T)GATA(A/G) [] in the regulatory regions of genes. They are consequently termed GATA-binding transcription factors. The interactions occur via highly-conserved Znf domains in which the zinc ion is coordinated by 4 cysteine residues [, ]. NMR studies have shown the core of the Znf to comprise 2 irregular anti-parallel beta-sheets and an alpha-helix, followed by a long loop to the C-terminal end of the finger. The N-terminal part, which includes the helix, is similar in structure, but not sequence, to the N-terminal zinc module of the glucocorticoid receptor DNA-binding domain. The helix and the loop connecting the 2 beta-sheets interact with the major groove of the DNA, while the C-terminal tail wraps around into the minor groove. It is this tail that is the essential determinant of specific binding. Interactions between the Znf and DNA are mainly hydrophobic, explaining the preponderance of thymines in the binding site; a large number of interactions with the phosphate backbone have also been observed []. Two GATA zinc fingers are found in the GATA transcription factors. However there are several proteins which only contains a single copy of the domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0008270 zinc ion binding, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 3GAT_A 2GAT_A 1GAU_A 1GAT_A 1Y0J_A 1GNF_A 2L6Z_A 2L6Y_A 3DFV_D 3DFX_B ....
Probab=23.29 E-value=42 Score=25.16 Aligned_cols=30 Identities=23% Similarity=0.480 Sum_probs=21.7
Q ss_pred CcCCCCC-CCCeeEecceeh-hhhhhhhhhhc
Q 006366 26 CINCNSL-GPQYVCTNFWTF-VCMTCSGIHRE 55 (648)
Q Consensus 26 CADCGa~-~P~WaSvnfGVF-VCi~CSGIHR~ 55 (648)
|..|+.. .|.|-....|-. ||-.|.-.+|.
T Consensus 1 C~~C~tt~t~~WR~~~~g~~~LCn~Cg~~~kk 32 (36)
T PF00320_consen 1 CSNCGTTETPQWRRGPNGNRTLCNACGLYYKK 32 (36)
T ss_dssp -TTT--ST-SSEEEETTSEE-EEHHHHHHHHH
T ss_pred CcCCcCCCCchhhcCCCCCCHHHHHHHHHHHH
Confidence 8899974 799998888877 99999876664
No 45
>cd06968 NR_DBD_ROR DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers. DNA-binding domain of Retinoid-related orphan receptors (RORs) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. ROR interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. RORS are key regulators of many physiological processes during embryonic development. RORs bind as monomers to specific ROR response elements (ROREs) consisting of the consensus core motif AGGTCA preceded by a 5-bp A/T-rich sequence. There are three subtypes of retinoid-related orphan receptors (RORs), alpha, beta, and gamma, which differ only in N-terminal sequence and are distributed in distinct tissues. RORalpha plays a key role in the development of the cerebellum particularly in the regulation of the maturation and survival of Purkinje cells. RORbe
Probab=23.21 E-value=44 Score=30.26 Aligned_cols=31 Identities=19% Similarity=0.485 Sum_probs=25.5
Q ss_pred CCCCCcCCCCCCCCeeEecceehhhhhhhhhhhc
Q 006366 22 PNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHRE 55 (648)
Q Consensus 22 gNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~ 55 (648)
.+..|.=||...- ...||++.|..|.+..|-
T Consensus 4 ~~~~C~VCg~~~~---g~hyGv~sC~aC~~FFRR 34 (95)
T cd06968 4 EVIPCKICGDKSS---GIHYGVITCEGCKGFFRR 34 (95)
T ss_pred cccCCcccCCcCc---ceEECceeehhhHHhhHH
Confidence 4678999998653 468999999999998875
No 46
>COG2174 RPL34A Ribosomal protein L34E [Translation, ribosomal structure and biogenesis]
Probab=22.99 E-value=46 Score=30.54 Aligned_cols=35 Identities=20% Similarity=0.435 Sum_probs=24.4
Q ss_pred HhcCCCCCCCcCCCCCC-------C----------CeeEecceehhhhhhhh
Q 006366 17 LMKLPPNRRCINCNSLG-------P----------QYVCTNFWTFVCMTCSG 51 (648)
Q Consensus 17 Llk~PgNk~CADCGa~~-------P----------~WaSvnfGVFVCi~CSG 51 (648)
..+.++--+|++||.+= | .=+.=.||-.+|-+|..
T Consensus 28 ~kK~~~~p~C~~cg~pL~Gi~r~RP~e~~r~skt~krp~RpYGG~lc~~c~~ 79 (93)
T COG2174 28 EKKKPTIPKCAICGRPLGGIPRGRPREFRRLSKTKKRPERPYGGYLCANCVR 79 (93)
T ss_pred eeccCCCCcccccCCccCCccCCCcHHHHhccccccCcCCCcCceecHHHHH
Confidence 45567778999999851 1 11245689999999974
No 47
>COG5145 RAD14 DNA excision repair protein [DNA replication, recombination, and repair]
Probab=21.64 E-value=49 Score=34.90 Aligned_cols=32 Identities=22% Similarity=0.419 Sum_probs=24.9
Q ss_pred CCCCCCcCCCC--CCCCeeEecceehhhhhhhhhh
Q 006366 21 PPNRRCINCNS--LGPQYVCTNFWTFVCMTCSGIH 53 (648)
Q Consensus 21 PgNk~CADCGa--~~P~WaSvnfGVFVCi~CSGIH 53 (648)
.-+.+|++|.. .++.+-+ .||+-||-.|+.-|
T Consensus 114 ~~apkC~eC~~IelD~~l~d-~F~~~VC~~Cr~~~ 147 (292)
T COG5145 114 ALAPKCKECLQIELDDELED-TFGISVCRSCRHSM 147 (292)
T ss_pred hhCccceeeeeeecchHHHh-hhcchhHHhhhhhc
Confidence 46889999997 3444433 58999999999888
No 48
>cd07170 NR_DBD_ERR DNA-binding domain of estrogen related receptors (ERR) is composed of two C4-type zinc fingers. DNA-binding domain of estrogen related receptors (ERRs) is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. ERR interacts with the palindromic inverted repeat, 5'GGTCAnnnTGACC-3', upstream of the target gene and modulates the rate of transcriptional initiation. The estrogen receptor-related receptors (ERRs) are transcriptional regulators, which are closely related to the estrogen receptor (ER) family. Although ERRs lack the ability to bind to estrogen and are so-called orphan receptors, they share target genes, co-regulators and promoters with the estrogen receptor (ER) family. By targeting the same set of genes, ERRs seem to interfere with the classic ER-mediated estrogen response in various ways. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription
Probab=21.45 E-value=47 Score=30.28 Aligned_cols=30 Identities=17% Similarity=0.587 Sum_probs=24.5
Q ss_pred CCCCcCCCCCCCCeeEecceehhhhhhhhhhhc
Q 006366 23 NRRCINCNSLGPQYVCTNFWTFVCMTCSGIHRE 55 (648)
Q Consensus 23 Nk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~ 55 (648)
+..|.=||...- ...||++.|..|.+..|.
T Consensus 4 ~~~C~VCg~~a~---g~hyGv~sC~aCk~FFRR 33 (97)
T cd07170 4 KRLCLVCGDIAS---GYHYGVASCEACKAFFKR 33 (97)
T ss_pred CCCCeecCCcCc---ceEECceeehhhhHHHHH
Confidence 457999997653 468999999999998875
No 49
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=21.34 E-value=45 Score=35.72 Aligned_cols=34 Identities=18% Similarity=0.205 Sum_probs=23.7
Q ss_pred CCCCCCCcCCCCCCCCeeEecceehhhhhhhhhhh
Q 006366 20 LPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHR 54 (648)
Q Consensus 20 ~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR 54 (648)
.....+|-+||... --....-|-.||.+|.-|..
T Consensus 8 ~~~~~~Cp~Cg~~~-iv~d~~~Ge~vC~~CG~Vl~ 41 (310)
T PRK00423 8 EEEKLVCPECGSDK-LIYDYERGEIVCADCGLVIE 41 (310)
T ss_pred cccCCcCcCCCCCC-eeEECCCCeEeecccCCccc
Confidence 34557899999732 22234569999999988643
No 50
>PF10764 Gin: Inhibitor of sigma-G Gin; InterPro: IPR019700 Gin allows sigma-F to delay late forespore transcription by preventing sigma-G to take over before the cell has reached a critical stage of development. Gin is also known as CsfB [].
Probab=20.50 E-value=52 Score=26.37 Aligned_cols=26 Identities=23% Similarity=0.631 Sum_probs=19.5
Q ss_pred CCcCCCCCCCCeeEecceehhhhhhhh
Q 006366 25 RCINCNSLGPQYVCTNFWTFVCMTCSG 51 (648)
Q Consensus 25 ~CADCGa~~P~WaSvnfGVFVCi~CSG 51 (648)
.|+=|+..... .-.=+|-|||.+|-.
T Consensus 1 ~CiiC~~~~~~-GI~I~~~fIC~~CE~ 26 (46)
T PF10764_consen 1 KCIICGKEKEE-GIHIYGKFICSDCEK 26 (46)
T ss_pred CeEeCCCcCCC-CEEEECeEehHHHHH
Confidence 48889887665 344478999999964
No 51
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=20.33 E-value=40 Score=31.26 Aligned_cols=43 Identities=23% Similarity=0.434 Sum_probs=28.3
Q ss_pred cCCCCCCCcCCCCCCCCeeEecceehhhhhhhhhhhcC--CC--ceeeccc
Q 006366 19 KLPPNRRCINCNSLGPQYVCTNFWTFVCMTCSGIHREF--TH--RVKSVSM 65 (648)
Q Consensus 19 k~PgNk~CADCGa~~P~WaSvnfGVFVCi~CSGIHR~L--Gh--rVKSltL 65 (648)
..|.--+|-+||.. ..+....+.|-.|.+....+ |. +|++|.+
T Consensus 66 ~vp~~~~C~~Cg~~----~~~~~~~~~CP~Cgs~~~~i~~G~El~i~~iEv 112 (113)
T PRK12380 66 YKPAQAWCWDCSQV----VEIHQHDAQCPHCHGERLRVDTGDSLIVKSIEV 112 (113)
T ss_pred eeCcEEEcccCCCE----EecCCcCccCcCCCCCCcEEccCCeEEEEEEEE
Confidence 35677799999942 22333455699999765444 43 7887754
No 52
>COG2719 SpoVR Uncharacterized conserved protein [Function unknown]
Probab=20.24 E-value=29 Score=39.58 Aligned_cols=8 Identities=88% Similarity=1.610 Sum_probs=7.3
Q ss_pred CCCCcccc
Q 006366 418 KNEGWATF 425 (648)
Q Consensus 418 ~n~gwatf 425 (648)
-|||||||
T Consensus 270 MNEGWAtf 277 (495)
T COG2719 270 MNEGWATF 277 (495)
T ss_pred hhhhHHHH
Confidence 49999999
No 53
>PRK11767 SpoVR family protein; Provisional
Probab=20.21 E-value=29 Score=40.07 Aligned_cols=8 Identities=88% Similarity=1.610 Sum_probs=7.3
Q ss_pred CCCCcccc
Q 006366 418 KNEGWATF 425 (648)
Q Consensus 418 ~n~gwatf 425 (648)
=|||||||
T Consensus 273 MNEGWAsy 280 (498)
T PRK11767 273 MNEGWATF 280 (498)
T ss_pred HhhHhHHH
Confidence 49999999
Done!