Query psy8965
Match_columns 193
No_of_seqs 114 out of 504
Neff 6.1
Searched_HMMs 46136
Date Sat Aug 17 00:13:48 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8965.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8965hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00391 transport protein par 100.0 2.7E-60 5.8E-65 384.8 16.9 159 34-193 1-165 (168)
2 KOG3315|consensus 100.0 2.5E-58 5.5E-63 369.4 15.9 181 12-193 6-187 (191)
3 PF04051 TRAPP: Transport prot 100.0 2.7E-50 5.8E-55 321.4 16.7 147 38-187 1-152 (152)
4 COG5128 Transport protein part 100.0 4E-50 8.7E-55 322.1 12.4 174 18-192 25-204 (208)
5 KOG3316|consensus 100.0 4.8E-44 1E-48 282.3 12.5 145 37-186 5-162 (163)
6 KOG3330|consensus 100.0 2.5E-35 5.5E-40 234.2 9.1 156 32-190 14-176 (183)
7 COG1719 Predicted hydrocarbon 93.6 2.6 5.6E-05 33.8 12.2 105 59-185 46-156 (158)
8 PF09536 DUF2378: Protein of u 84.1 2 4.3E-05 35.3 4.7 36 149-184 139-177 (178)
9 TIGR02265 Mxa_TIGR02265 Myxoco 83.1 2.1 4.5E-05 35.4 4.4 36 149-184 140-178 (179)
10 PF02830 V4R: V4R domain; Int 78.6 5.8 0.00013 26.5 4.7 34 150-183 22-61 (62)
11 TIGR02019 BchJ bacteriochlorop 76.0 45 0.00097 27.8 10.2 131 33-182 43-188 (188)
12 PF06505 XylR_N: Activator of 57.0 36 0.00079 25.5 5.5 43 33-80 24-66 (103)
13 PRK14741 spoVM stage V sporula 56.0 8.7 0.00019 21.7 1.5 14 151-164 10-23 (26)
14 PF05266 DUF724: Protein of un 54.5 57 0.0012 27.1 6.8 53 32-84 41-104 (190)
15 KOG0037|consensus 53.5 54 0.0012 28.0 6.5 80 20-106 101-190 (221)
16 smart00843 Ftsk_gamma This dom 43.2 65 0.0014 22.1 4.5 39 41-80 5-44 (63)
17 PF09413 DUF2007: Domain of un 42.8 25 0.00054 23.4 2.4 24 151-174 9-32 (67)
18 PF11565 PorB: Alpha helical P 42.4 20 0.00044 26.8 2.1 19 148-166 16-34 (98)
19 PF15251 DUF4588: Domain of un 36.6 1.4E+02 0.0029 25.7 6.5 45 58-102 70-115 (232)
20 PF08183 SpoV: Stage V sporula 32.8 32 0.00069 19.7 1.4 15 151-165 10-24 (26)
21 PF09397 Ftsk_gamma: Ftsk gamm 31.2 81 0.0017 21.7 3.5 38 42-80 7-45 (65)
22 PF07524 Bromo_TP: Bromodomain 25.8 1.1E+02 0.0025 20.9 3.6 17 56-72 60-76 (77)
23 COG4009 Uncharacterized protei 25.1 49 0.0011 24.1 1.6 19 55-73 60-78 (88)
24 cd02414 jag_KH jag_K homology 25.0 1.5E+02 0.0033 20.4 4.1 28 156-183 3-31 (77)
25 PHA03081 putative metalloprote 24.9 9.8 0.00021 36.3 -2.6 35 148-182 499-548 (595)
26 PF03410 Peptidase_M44: Protei 24.7 9.8 0.00021 36.3 -2.6 27 148-174 495-534 (590)
27 PF00447 HSF_DNA-bind: HSF-typ 24.5 93 0.002 22.6 3.1 34 97-131 1-34 (103)
28 PF11848 DUF3368: Domain of un 24.4 80 0.0017 20.0 2.4 25 56-80 20-44 (48)
29 smart00576 BTP Bromodomain tra 23.7 1.4E+02 0.0029 20.7 3.7 16 57-72 61-76 (77)
30 COG5169 HSF1 Heat shock transc 23.3 1.1E+02 0.0024 27.1 3.8 36 95-131 10-45 (282)
31 KOG0766|consensus 21.7 94 0.002 27.1 2.9 56 108-164 164-229 (297)
32 PF10026 DUF2268: Predicted Zn 21.6 61 0.0013 26.5 1.8 19 65-83 160-178 (195)
33 smart00415 HSF heat shock fact 21.1 1.2E+02 0.0026 22.3 3.1 66 97-170 4-69 (105)
34 COG2345 Predicted transcriptio 21.0 5.3E+02 0.011 22.0 9.0 132 35-186 77-215 (218)
No 1
>PTZ00391 transport protein particle component (TRAPP) superfamily; Provisional
Probab=100.00 E-value=2.7e-60 Score=384.76 Aligned_cols=159 Identities=47% Similarity=0.787 Sum_probs=153.3
Q ss_pred chHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHhhhhhhHHHHHHHhhhccCCcccccHHHHHHHHHHHHHHhhhCcccc
Q psy8965 34 ISINLYALLFSELVQYCQNKSLSVPEFQSKLHEVGQSIGAKLIDINFYREKNGKREIKLLNILQFVKINLWKNIFGKECD 113 (193)
Q Consensus 34 Vs~s~f~~L~~EiV~~~~~~~~~~~ev~~kLe~~G~~VG~rL~E~l~~r~~~~~R~~~~ld~lkFIck~~Wk~lFgkqaD 113 (193)
||+|+|+|||+|||+|+++++++.++++++|+++||+||.||+|++..|++..+|+++++++|+|||+++|+.+||||+|
T Consensus 1 vslsafafLf~EmV~y~~~~~~~~~ele~rL~~~G~~VG~rllE~l~~r~~~~~R~~~~L~iLkFI~~~~W~~lFgk~aD 80 (168)
T PTZ00391 1 VSLSSFAFLFSEIVQYCLSKSKRGYRLEDKLHEMGLRVGYKLNELLPYREKNQKRETKILSILTFISKHVWKYLFGHSSD 80 (168)
T ss_pred CCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHhHHHhHHHHHHHHHhccCCCccchHHHHHHHHHHHHHHHHhCchhh
Confidence 79999999999999999999999999999999999999999999999999878999999999999999999999999999
Q ss_pred ccccccCCCCEEEEEcCCcccccceeccCCCCCcchhhhhHHHHHHHHhhCCCceEEEEEe------CCceEEEEEechh
Q psy8965 114 KLERANDDERTYYLIEQESLVNKFISVPKDKGSLNCAIFVAGIVEAVLNNCGFKSTVTAHW------HKGTTYMIQFDEQ 187 (193)
Q Consensus 114 ~L~~~tn~~g~yvl~D~~pl~~~~is~P~~~~~l~~~~f~cGIIrGaL~~lG~~~~Vta~~------~~~~~f~Ikf~~~ 187 (193)
+|+ .+||+|+|||+||+|++++|+|+|++++.++|++|+||||||+|+++||+|+||||+ +.+|+|+|||+++
T Consensus 81 ~Lk-t~d~~~~Y~i~Dn~~~~~~~iS~p~~~~~~~~~aF~~GII~G~L~~~Gf~a~VTA~~~~~~~~~~~t~~likf~~~ 159 (168)
T PTZ00391 81 LLK-SQDSDDEYMINDKNLLLNKFISVPKDLGHINCAAFAAGIVEGILCSAEFPANVTAHTVEDTPKNFSTTILIKFYPE 159 (168)
T ss_pred hhc-ccCCCCeEEEEeCchhheeeeeccccccccchhhhhHHHHHHHHhhCCCCcEEEEEeccCCCCCCceEEEEEecHH
Confidence 995 446999999999999999999999999999999999999999999999999999998 4699999999999
Q ss_pred hhhccC
Q psy8965 188 VIARDK 193 (193)
Q Consensus 188 v~~re~ 193 (193)
|++||+
T Consensus 160 v~~Re~ 165 (168)
T PTZ00391 160 VIEREK 165 (168)
T ss_pred HHHHHh
Confidence 999996
No 2
>KOG3315|consensus
Probab=100.00 E-value=2.5e-58 Score=369.38 Aligned_cols=181 Identities=52% Similarity=0.954 Sum_probs=175.5
Q ss_pred ccccCCCCccccCccCccCcccchHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHhhhhhhHHHHHHHhhhccCCccccc
Q psy8965 12 ISIIQPKTSILDKPINTKVKHDISINLYALLFSELVQYCQNKSLSVPEFQSKLHEVGQSIGAKLIDINFYREKNGKREIK 91 (193)
Q Consensus 12 ~~~~~~~~~i~~~~l~~~~~~~Vs~s~f~~L~~EiV~~~~~~~~~~~ev~~kLe~~G~~VG~rL~E~l~~r~~~~~R~~~ 91 (193)
.+.+..+.+|+|++|. +.|.+||+|+|+|||+|||+|+++++.++.|++.+|+++||+||.||+|++..|++..+|+++
T Consensus 6 ~s~~~~~s~il~~~L~-~~rtEvslS~fA~Lfsemiqy~q~qv~tv~d~e~kL~~~G~~VG~rllel~~~rEr~~kREtk 84 (191)
T KOG3315|consen 6 ASTMRIPSNILDKSLS-KGRTEVSLSAFAFLFSEMIQYLQSQVFTVADLETKLADYGYQVGIRLLELLNFRERGQKRETK 84 (191)
T ss_pred ccccccccchhhhhhh-ccCccccHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhHHHHHHHHHHhhcchhHHH
Confidence 3456778899999999 999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhhhCccccccccccCCCCEEEEEcCCcccccceeccCCCCCcchhhhhHHHHHHHHhhCCCceEEE
Q psy8965 92 LLNILQFVKINLWKNIFGKECDKLERANDDERTYYLIEQESLVNKFISVPKDKGSLNCAIFVAGIVEAVLNNCGFKSTVT 171 (193)
Q Consensus 92 ~ld~lkFIck~~Wk~lFgkqaD~L~~~tn~~g~yvl~D~~pl~~~~is~P~~~~~l~~~~f~cGIIrGaL~~lG~~~~Vt 171 (193)
++++|.||+.++||++|||.+|.|+|++++.++|+|+|++|++++|||+|+|++.++|++|+||||+|+|.+.||||.||
T Consensus 85 ilgiL~fi~~tvwk~Lfgk~ad~LEka~d~~~tYmiid~~pl~n~fISVPke~~~lnc~~fvaGIiea~L~~agfpckVT 164 (191)
T KOG3315|consen 85 ILGILQFIHSTVWKYLFGKEADKLEKANDDDRTYMIIDKEPLVNTFISVPKENGTLNCAAFVAGIIEAVLDNAGFPCKVT 164 (191)
T ss_pred HHHHHHHHHHHHHHHHhcchHHHHHhcccccceEEEEcCcchhhhceecccccCcccHHHHHHHHHHHHHHhCCCCCcee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeC-CceEEEEEechhhhhccC
Q psy8965 172 AHWH-KGTTYMIQFDEQVIARDK 193 (193)
Q Consensus 172 a~~~-~~~~f~Ikf~~~v~~re~ 193 (193)
||++ .+|+++|||+++|++||+
T Consensus 165 Ah~~P~gt~~~IkF~~~Viare~ 187 (191)
T KOG3315|consen 165 AHWHPEGTTYLIKFDESVIAREG 187 (191)
T ss_pred eeecCCCCeEEEEecHHHHhhhh
Confidence 9995 799999999999999985
No 3
>PF04051 TRAPP: Transport protein particle (TRAPP) component; InterPro: IPR007194 TRAPP plays a key role in the targeting and/or fusion of ER-to-Golgi transport vesicles with their acceptor compartment. TRAPP is a large multimeric protein that contains at least 10 subunits. This family contains many TRAPP family proteins. The Bet3 subunit is one of the better characterised TRAPP proteins and has a dimeric structure [] with hydrophobic channels. The channel entrances are located on a putative membrane-interacting surface that is distinctively flat, wide and decorated with positively charged residues. Bet3 is proposed to localise TRAPP to the Golgi [].; PDB: 2J3R_A 1WC9_A 2J3T_A 2PWN_A 2J3W_E 1WC8_A 3CUE_N 2C0J_B 3KXC_A 2CFH_A ....
Probab=100.00 E-value=2.7e-50 Score=321.40 Aligned_cols=147 Identities=34% Similarity=0.642 Sum_probs=136.4
Q ss_pred HHHHHHHHHHHHHHHhcCChhHHHHHHHHhhhhhhHHHHHHHhhhccCCcccccHHHHHHHHHHHHHHhhhCcccccccc
Q psy8965 38 LYALLFSELVQYCQNKSLSVPEFQSKLHEVGQSIGAKLIDINFYREKNGKREIKLLNILQFVKINLWKNIFGKECDKLER 117 (193)
Q Consensus 38 ~f~~L~~EiV~~~~~~~~~~~ev~~kLe~~G~~VG~rL~E~l~~r~~~~~R~~~~ld~lkFIck~~Wk~lFgkqaD~L~~ 117 (193)
+|+|||+|||+|+++++ +.++++++|++|||+||.||+|+++.+.+..+|+.+++|+++||||++|+++||||+|+|+
T Consensus 1 ~f~~l~~e~V~~~~~~~-~~~e~~~~Le~~G~~vG~rl~E~~~~~~~~~~r~~~~~~~~~fI~k~~W~~~fgk~~d~l~- 78 (152)
T PF04051_consen 1 AFALLFGEMVQYLLRRE-DVEEVNKRLERMGYNVGQRLAERLLRRRKNSPRFTDILDILKFICKDFWKMLFGKQADNLK- 78 (152)
T ss_dssp HHHHHHHHHHHHHHHCS-SHHHHHHHHHHHHHHHHHHHHHHHHHHCSSTCSTSSHHHHHHHHHHHHHHHHHSS--SEEE-
T ss_pred CHHHHHHHHHHHHHHhC-CHHHHHHHHHHHHHHHhHHHHHHHHHHhccCcccCCHHHHHHHHHHHHHHHHhCCCCcccc-
Confidence 69999999999999955 8899999999999999999999999885667999999999999999999999999999999
Q ss_pred ccCC-CCEEEEEcCCcccccceeccCCCCCcchhhhhHHHHHHHHhhCCCceEEEEEe----CCceEEEEEechh
Q psy8965 118 ANDD-ERTYYLIEQESLVNKFISVPKDKGSLNCAIFVAGIVEAVLNNCGFKSTVTAHW----HKGTTYMIQFDEQ 187 (193)
Q Consensus 118 ~tn~-~g~yvl~D~~pl~~~~is~P~~~~~l~~~~f~cGIIrGaL~~lG~~~~Vta~~----~~~~~f~Ikf~~~ 187 (193)
+|| +|+|+|+|++|++++|+++|++++.++|++|+||||||||+++||+|+|+|+. +|+|+|+|||++.
T Consensus 79 -~n~~~~~y~i~d~~~~~~~~v~~p~~~~~l~~~~f~~GiIrGaL~~lg~~~~Vta~~~~~~~~~~~f~Ik~~~~ 152 (152)
T PF04051_consen 79 -TNHDRGEYVITDNDFPLNQFVSLPEEYEGLNYLAFPCGIIRGALESLGFPAEVTAESDPLNGPQTTFQIKFEKQ 152 (152)
T ss_dssp -EETTSTEEEEEEST-CCCTTSTTCGCGTTSHTTHHHHHHHHHHHHHTTEEEEEEEEECCCGTTEEEEEEEEEHH
T ss_pred -ccCCCCeEEEecCccchhhhhccchhhccCchhhhHHHHHHHHHHHCCCceEEEEEEeccCCCCeEEEEEEecC
Confidence 888 99999999999999999999888899999999999999999999999999999 3789999999874
No 4
>COG5128 Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion]
Probab=100.00 E-value=4e-50 Score=322.11 Aligned_cols=174 Identities=33% Similarity=0.709 Sum_probs=167.7
Q ss_pred CCccccCccCccCcccchHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHhhhhhhHHHHHHHhhhccCCcccccHHHHHH
Q psy8965 18 KTSILDKPINTKVKHDISINLYALLFSELVQYCQNKSLSVPEFQSKLHEVGQSIGAKLIDINFYREKNGKREIKLLNILQ 97 (193)
Q Consensus 18 ~~~i~~~~l~~~~~~~Vs~s~f~~L~~EiV~~~~~~~~~~~ev~~kLe~~G~~VG~rL~E~l~~r~~~~~R~~~~ld~lk 97 (193)
+.+||+++|- -.+++|+.|+|+|||.||++|+++..+...++|.+|.++||+||+||+|++.+|.++.+|+.+++++++
T Consensus 25 ~~~vy~qnl~-~~~~ev~lStmaflf~emI~~l~~q~s~~~dfE~kL~~~Gy~vGikLlEL~nfr~rnpkre~rIl~iLq 103 (208)
T COG5128 25 GKSVYEQNLK-IMKREVPLSTMAFLFCEMIEYLMEQRSGIQDFEAKLKSIGYEVGIKLLELCNFRRRNPKREVRILTILQ 103 (208)
T ss_pred chhHHHHhHH-HHhccCchHHHHHHHHHHHHHHHHHhhhhHhHHHHHHHhhHHHHHHHHHHHHHhhhCccchhhHHHHHH
Confidence 3488999995 778899999999999999999999999999999999999999999999999999988899999999999
Q ss_pred HHHHHHHHhhhCccccccccccCCCCEEEEEcCCcccccceeccCCCCCcchhhhhHHHHHHHHhhCCCceEEEEEe---
Q psy8965 98 FVKINLWKNIFGKECDKLERANDDERTYYLIEQESLVNKFISVPKDKGSLNCAIFVAGIVEAVLNNCGFKSTVTAHW--- 174 (193)
Q Consensus 98 FIck~~Wk~lFgkqaD~L~~~tn~~g~yvl~D~~pl~~~~is~P~~~~~l~~~~f~cGIIrGaL~~lG~~~~Vta~~--- 174 (193)
||+.++|+++||+.+|.|+|+.+..++|||+||+|++++|||+|+|+++++|.+|+||||+|+|.+.||+|+||||.
T Consensus 104 ~ih~~lwsylf~~~~d~leKs~e~d~eYmivDn~plls~FIsvP~E~n~lsc~~~vcGiI~gfL~~agfpc~vtAh~~P~ 183 (208)
T COG5128 104 RIHFDLWSYLFGDSDDRLEKSREVDREYMIVDNDPLLSRFISVPDEWNGLSCDSIVCGIIQGFLMAAGFPCEVTAHPEPS 183 (208)
T ss_pred HHHHHHHHHHhccchHHHHHhhhcCceeEEecCchHHHHHhcCcchhcCcchHHHHHHHHHHHHHhcCCCCcceeccCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred ---CCceEEEEEechhhhhcc
Q psy8965 175 ---HKGTTYMIQFDEQVIARD 192 (193)
Q Consensus 175 ---~~~~~f~Ikf~~~v~~re 192 (193)
+.+|+|+|+|++.|++||
T Consensus 184 ~~~p~Rtv~lI~~d~~vi~re 204 (208)
T COG5128 184 ENLPNRTVFLIRIDDLVIARE 204 (208)
T ss_pred cCCCcceEEEEEecHHHHhhh
Confidence 458999999999999998
No 5
>KOG3316|consensus
Probab=100.00 E-value=4.8e-44 Score=282.29 Aligned_cols=145 Identities=24% Similarity=0.359 Sum_probs=125.7
Q ss_pred HHHHHHHHHHHHHHHHhcCCh---------hHHHHHHHHhhhhhhHHHHHHHhhhccCCcccccHHHHHHHHHHHHHHhh
Q psy8965 37 NLYALLFSELVQYCQNKSLSV---------PEFQSKLHEVGQSIGAKLIDINFYREKNGKREIKLLNILQFVKINLWKNI 107 (193)
Q Consensus 37 s~f~~L~~EiV~~~~~~~~~~---------~ev~~kLe~~G~~VG~rL~E~l~~r~~~~~R~~~~ld~lkFIck~~Wk~l 107 (193)
-+|++|+.|||.++.+..++. .+..++||.|||+||++|.||++ +++ +|+.|.||+|||||||+|+.+
T Consensus 5 v~f~~Lh~EmV~~~~~~e~d~e~g~~~~~k~~~~~~LE~IGFqVG~~L~Erl~-~e~--~rf~deLeimKFiCkDfW~~V 81 (163)
T KOG3316|consen 5 VLFDFLHNEMVHTALRSEEDSENGRASIEKSHDLARLESIGFQVGRKLSERLT-RER--NRFKDELEIMKFICKDFWSIV 81 (163)
T ss_pred HHHHHHHHHHHHHHHHhcchhhcccccccchHHHHHHHHhhhHHHHHHHHHHh-hhh--hhHHHHHHHHHHHHHHHHHHH
Confidence 469999999999988875431 23668999999999999999997 765 799999999999999999999
Q ss_pred hCccccccccccCCCCEEEEEcCCcccccceeccCCC--CCcchhhhhHHHHHHHHhhCCCceEEEEEe--CCceEEEEE
Q psy8965 108 FGKECDKLERANDDERTYYLIEQESLVNKFISVPKDK--GSLNCAIFVAGIVEAVLNNCGFKSTVTAHW--HKGTTYMIQ 183 (193)
Q Consensus 108 FgkqaD~L~~~tn~~g~yvl~D~~pl~~~~is~P~~~--~~l~~~~f~cGIIrGaL~~lG~~~~Vta~~--~~~~~f~Ik 183 (193)
|+||+|||+ |||+|+||++|+.+.+.+.+|-.+++ ....|++|+||+|||+|++||++|.|+|++ .|.|.|+|+
T Consensus 82 F~KQiDNLr--TNhrG~yVlqD~~Fr~l~~~s~G~~~~~~a~~flaFpcGliRGvLs~LGi~siVtA~v~slPtckFhV~ 159 (163)
T KOG3316|consen 82 FKKQIDNLR--TNHRGTYVLQDNKFRWLTSMSPGTQYLEEAPKFLAFPCGLIRGVLSNLGISSIVTASVSSLPTCKFHVQ 159 (163)
T ss_pred Hhhhhhhcc--ccCCceEEEecCceeeeeecCchhHHHHhcCCeEEeehhHHHHHHhhCCCceEEeeecCCCCceEEEEE
Confidence 999999999 99999999999997655455522222 234799999999999999999999999999 799999999
Q ss_pred ech
Q psy8965 184 FDE 186 (193)
Q Consensus 184 f~~ 186 (193)
+.+
T Consensus 160 v~~ 162 (163)
T KOG3316|consen 160 VQP 162 (163)
T ss_pred ecC
Confidence 875
No 6
>KOG3330|consensus
Probab=100.00 E-value=2.5e-35 Score=234.19 Aligned_cols=156 Identities=17% Similarity=0.280 Sum_probs=143.4
Q ss_pred ccchHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHhhhhhhHHHHHHHhhhccCCcccccHHHHHHHHHHHHHHhhhCcc
Q psy8965 32 HDISINLYALLFSELVQYCQNKSLSVPEFQSKLHEVGQSIGAKLIDINFYREKNGKREIKLLNILQFVKINLWKNIFGKE 111 (193)
Q Consensus 32 ~~Vs~s~f~~L~~EiV~~~~~~~~~~~ev~~kLe~~G~~VG~rL~E~l~~r~~~~~R~~~~ld~lkFIck~~Wk~lFgkq 111 (193)
.++|+++|.++|+.||.++.++.++.++|+.+|++|||+||.||+|.+++|.. -+||.|+.++...|||..+|+++|.+
T Consensus 14 ~k~naELFtLTYGaiV~ql~kDyed~e~Vn~qLdkMGyNiG~RLiedFLAks~-vpRC~dfretaevlak~afkmyLgit 92 (183)
T KOG3330|consen 14 KKMNAELFTLTYGAIVTQLCKDYEDPEDVNKQLDKMGYNIGIRLIEDFLAKSN-VPRCVDFRETAEVLAKVAFKMYLGIT 92 (183)
T ss_pred HhhhhhhhhhhHHHHHHHHHHhhcCHHHHHHHHHhccchhhHHHHHHHHhhcC-CchhhhHHHHHHHHHHhhhheeeecc
Confidence 38999999999999999999999999999999999999999999999999975 69999999999999999999999999
Q ss_pred ccccccccCCCCEE-EEEcCCcccccceeccCC-CCCcchhhhhHHHHHHHHhhCCCceEEEEEe-----CCceEEEEEe
Q psy8965 112 CDKLERANDDERTY-YLIEQESLVNKFISVPKD-KGSLNCAIFVAGIVEAVLNNCGFKSTVTAHW-----HKGTTYMIQF 184 (193)
Q Consensus 112 aD~L~~~tn~~g~y-vl~D~~pl~~~~is~P~~-~~~l~~~~f~cGIIrGaL~~lG~~~~Vta~~-----~~~~~f~Ikf 184 (193)
+..- .|+.+.++| +|.|+|||+. ||+.|++ .++|+|++++||+|||||+++.+++.|++.. +..|+++|+|
T Consensus 93 psit-swss~~~efsliLe~NPL~e-fVe~p~d~~ssL~YsnlLcGviRGALEmV~m~~dv~f~~d~lrGd~~tEIrv~f 170 (183)
T KOG3330|consen 93 PSIT-SWSSDGNEFSLILEDNPLVE-FVEEPPDARSSLWYSNLLCGVIRGALEMVQMKVDVVFLSDTLRGDSVTEIRVRF 170 (183)
T ss_pred ccee-eecCCCCEEEEEecCCcHHH-HHHhCHHHhhhHHHHHHHHHHHHhHHHHHhhhheeeeeeehhcCCCceeeeeeH
Confidence 9876 578888899 7799999998 9977755 5789999999999999999999999999887 5679999999
Q ss_pred chhhhh
Q psy8965 185 DEQVIA 190 (193)
Q Consensus 185 ~~~v~~ 190 (193)
.+.+-+
T Consensus 171 ~r~lkd 176 (183)
T KOG3330|consen 171 LRILKD 176 (183)
T ss_pred HHHHhh
Confidence 987654
No 7
>COG1719 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]
Probab=93.55 E-value=2.6 Score=33.84 Aligned_cols=105 Identities=17% Similarity=0.241 Sum_probs=63.2
Q ss_pred HHHHHHHHhhhhhhHHHHHHHhhhccCCcccccHHHHHHHHHHHHHHhhhCccccccccccCCCCEEEEEcCCcccccce
Q psy8965 59 EFQSKLHEVGQSIGAKLIDINFYREKNGKREIKLLNILQFVKINLWKNIFGKECDKLERANDDERTYYLIEQESLVNKFI 138 (193)
Q Consensus 59 ev~~kLe~~G~~VG~rL~E~l~~r~~~~~R~~~~ld~lkFIck~~Wk~lFgkqaD~L~~~tn~~g~yvl~D~~pl~~~~i 138 (193)
+....+.++|+.+|..++.. . ...++..|+.. |....+.-.+. + .+...+..+.|..+-.
T Consensus 46 ~~~~~~y~~G~~~G~~l~~~--------~---~~~~~~~f~~~--~~~~~~~v~~~-~--~~~~~~v~v~~c~~c~---- 105 (158)
T COG1719 46 GAEPVLYEAGKEIGKALIKE--------K---LIEELENFLEF--WEEVGGGVLEV-E--EEEPLVVEVYDCIECA---- 105 (158)
T ss_pred CcHHHHHHHHHHHHHHhcch--------h---chHHHHHHHHH--HHhhcceEEEc-c--cCCCceEEEEcCchhh----
Confidence 44567888999999988861 1 23344455533 88777764443 2 2223455555555422
Q ss_pred eccCCCCCcchhhhhHHHHHHHHhhCCCceEEEEEe------CCceEEEEEec
Q psy8965 139 SVPKDKGSLNCAIFVAGIVEAVLNNCGFKSTVTAHW------HKGTTYMIQFD 185 (193)
Q Consensus 139 s~P~~~~~l~~~~f~cGIIrGaL~~lG~~~~Vta~~------~~~~~f~Ikf~ 185 (193)
-+|. .+-.-+.|.+|+|.|+|+...=+-..--++ ++.|+|.|+..
T Consensus 106 ~~p~--~~ePvC~~~aG~iag~l~~~~~k~~~v~Et~C~~~G~~~C~F~i~~~ 156 (158)
T COG1719 106 GLPG--IGEPVCHLEAGFIAGFLEEILGKKVEVEETECAAEGDDRCVFEIRLK 156 (158)
T ss_pred cCCC--CCCcchhHHhhHHHHHHHHHhCCCeEEEEEEEeecCCCceEEEEEec
Confidence 1232 112247889999999999875443322222 78999999864
No 8
>PF09536 DUF2378: Protein of unknown function (DUF2378); InterPro: IPR011751 This family consists of a set of at least 17 paralogous proteins in Myxococcus xanthus (strain DK 1622). Members are about 200 amino acids in length. No other homologs are known; the function is unknown.
Probab=84.12 E-value=2 Score=35.34 Aligned_cols=36 Identities=25% Similarity=0.425 Sum_probs=30.1
Q ss_pred hhhhhHHHHHHHHhhCCCce-EEEEEe--CCceEEEEEe
Q psy8965 149 CAIFVAGIVEAVLNNCGFKS-TVTAHW--HKGTTYMIQF 184 (193)
Q Consensus 149 ~~~f~cGIIrGaL~~lG~~~-~Vta~~--~~~~~f~Ikf 184 (193)
.-.|.+|+++|+|+..|-+. .|.... ...|+|.|.-
T Consensus 139 ~p~f~~G~l~~~L~~~Ga~~~~V~~~~~~~~~~~y~i~W 177 (178)
T PF09536_consen 139 PPAFHEGVLEAALEAAGARGPRVRVRERGGDDAEYRIRW 177 (178)
T ss_pred ChHHHHHHHHHHHHHcCCCCCEEEEEecCCCceEEEEEe
Confidence 45789999999999999994 777666 6789999864
No 9
>TIGR02265 Mxa_TIGR02265 Myxococcus xanthus paralogous family TIGR02265. This family consists of a set of at least 17 paralogous proteins in Myxococcus xanthus DK 1622. Members are about 200 amino acids in length. No other homologs are known; the function is unknown.
Probab=83.07 E-value=2.1 Score=35.37 Aligned_cols=36 Identities=19% Similarity=0.313 Sum_probs=28.0
Q ss_pred hhhhhHHHHHHHHhhCC-CceEEEEEe--CCceEEEEEe
Q psy8965 149 CAIFVAGIVEAVLNNCG-FKSTVTAHW--HKGTTYMIQF 184 (193)
Q Consensus 149 ~~~f~cGIIrGaL~~lG-~~~~Vta~~--~~~~~f~Ikf 184 (193)
...|.+|+++|+|+..| -...|.... ...|+|.|.-
T Consensus 140 ~~~f~~G~l~~aLe~~Ga~~~~V~~~~~g~~~~~y~i~W 178 (179)
T TIGR02265 140 PPAYHEGVLHAALRAVGARDVRVRGRAFGGLDATYRLSW 178 (179)
T ss_pred chHHHHHHHHHHHHHcCCCCCEEEEEecCCCCceEEEEe
Confidence 37899999999999999 334555444 7899999864
No 10
>PF02830 V4R: V4R domain; InterPro: IPR004096 Central cellular functions such as metabolism, solute transport and signal transduction are regulated, in part, via binding of small molecules by specialised domains. The 4-vinyl reductase (4VR) domain is a predicted small molecular binding domain, that may bind to hydrocarbons []. Proteins that contain this domain include a regulator of the phenol catabolic pathway and a protein involved in chlorophyll biosynthesis.; PDB: 2OSD_A 2OSO_A.
Probab=78.63 E-value=5.8 Score=26.52 Aligned_cols=34 Identities=18% Similarity=0.310 Sum_probs=23.9
Q ss_pred hhhhHHHHHHHHhhC-CCceEEEEEe-----CCceEEEEE
Q psy8965 150 AIFVAGIVEAVLNNC-GFKSTVTAHW-----HKGTTYMIQ 183 (193)
Q Consensus 150 ~~f~cGIIrGaL~~l-G~~~~Vta~~-----~~~~~f~Ik 183 (193)
.+|.+|++.|+++.+ |-+.+|+=.. ++.|+|.|+
T Consensus 22 C~~~~G~~~G~~~~~~~~~~~v~E~~C~a~G~~~C~F~i~ 61 (62)
T PF02830_consen 22 CWFTAGYLAGFFSALFGKEVEVEETKCQAMGDDHCEFVIR 61 (62)
T ss_dssp -HHHHHHHHHHHHHHHSSEEEEEEEE-GGGT-SSEEEEEE
T ss_pred EHHHHHHHHHHHHHHhCCceEEEEeEEEcCCCCeeEEEEE
Confidence 579999999999654 5555553322 789999986
No 11
>TIGR02019 BchJ bacteriochlorophyll 4-vinyl reductase. This model represents the component of bacteriochlorophyll synthetase responsible for reduction of the B-ring pendant ethylene (4-vinyl) group. It appears that this step must precede the reduction of ring D, at least by the "dark" protochlorophyllide reductase enzymes BchN, BchB and BchL. This family appears to be present in photosynthetic bacteria except for the cyanobacterial clade. Cyanobacteria must use a non-orthologous gene to carry out this required step for the biosynthesis of both bacteriochlorophyll and chlorophyll.
Probab=75.97 E-value=45 Score=27.76 Aligned_cols=131 Identities=14% Similarity=0.114 Sum_probs=65.9
Q ss_pred cchHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHhhhhhhHHH-HHHHhhhccCCcccccHHHH-------HHHHHHHHH
Q psy8965 33 DISINLYALLFSELVQYCQNKSLSVPEFQSKLHEVGQSIGAKL-IDINFYREKNGKREIKLLNI-------LQFVKINLW 104 (193)
Q Consensus 33 ~Vs~s~f~~L~~EiV~~~~~~~~~~~ev~~kLe~~G~~VG~rL-~E~l~~r~~~~~R~~~~ld~-------lkFIck~~W 104 (193)
=|+.+.+.-|+..+=..+ ..+.-..-|.+.|.+.|.++ ..++. +. ..+..+.++. +.-|.|++|
T Consensus 43 mv~E~~~~aL~~aL~~el-----G~~aa~~vl~~~G~~ta~y~l~~rIp-~~--~q~~Lr~lp~~~~~r~l~~aI~k~aW 114 (188)
T TIGR02019 43 MLPESQFSTLHRWLRDTL-----GETAAARLLRESGLATADYILANRIP-PP--AQRLIRALPAGLAARVLLTAIAKHAW 114 (188)
T ss_pred cCCHHHHHHHHHHHHHHh-----CHHHHHHHHHHHhHHHHHHHHHHHhh-HH--HHHHHHHCChHHHHHHHHHHHHHHHH
Confidence 467777776665543322 22234456777777777777 44432 10 1122233333 345688999
Q ss_pred Hhh-hCccccccccccCCCCEEEEEcCCcccccceeccCCCCCcchhhhhHHHHHHHHhhC-CCceEEEEEe-----CCc
Q psy8965 105 KNI-FGKECDKLERANDDERTYYLIEQESLVNKFISVPKDKGSLNCAIFVAGIVEAVLNNC-GFKSTVTAHW-----HKG 177 (193)
Q Consensus 105 k~l-FgkqaD~L~~~tn~~g~yvl~D~~pl~~~~is~P~~~~~l~~~~f~cGIIrGaL~~l-G~~~~Vta~~-----~~~ 177 (193)
+.- +|+ +. ....+--.+-+.++|... ..|. +... ++|-+|+++|.++.+ |=++.|.-.. ++.
T Consensus 115 tf~G~G~----fs-~~~~~~l~i~I~ds~~a~---~~~~--~~P~-C~~~aGife~lFs~lv~~~~~v~Et~C~a~G~~~ 183 (188)
T TIGR02019 115 TFAGSGK----FR-YVSGPPLSFEIARNPVVA---GESS--DTPV-CHWYAAVFERLLRRLVWPHVAVRETACCAKGAPR 183 (188)
T ss_pred hhcccce----EE-EeeCCCeEEEEecChhhh---cCCC--CCce-eeeeHHHHHHHHHHHhCCCceEEeehHhhcCCCc
Confidence 432 111 11 111111122233333321 1121 2223 568899999999875 5566654443 678
Q ss_pred eEEEE
Q psy8965 178 TTYMI 182 (193)
Q Consensus 178 ~~f~I 182 (193)
|.|.|
T Consensus 184 C~F~~ 188 (188)
T TIGR02019 184 CRFEL 188 (188)
T ss_pred ceeeC
Confidence 88864
No 12
>PF06505 XylR_N: Activator of aromatic catabolism; InterPro: IPR010523 This domain is found at the N terminus of a subset of sigma54-dependent transcriptional activators in several proteobacteria, including activators of phenol degradation such as XylR. It is found adjacent to IPR004096 from INTERPRO.
Probab=57.03 E-value=36 Score=25.51 Aligned_cols=43 Identities=14% Similarity=0.119 Sum_probs=35.9
Q ss_pred cchHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHhhhhhhHHHHHHHh
Q psy8965 33 DISINLYALLFSELVQYCQNKSLSVPEFQSKLHEVGQSIGAKLIDINF 80 (193)
Q Consensus 33 ~Vs~s~f~~L~~EiV~~~~~~~~~~~ev~~kLe~~G~~VG~rL~E~l~ 80 (193)
-+..+++..|--|+|..+ ..+....-|-++||.-|.|-+|.+.
T Consensus 24 L~~~~alg~LRkELi~~l-----G~~~AR~iltR~Gy~~G~~DAe~~~ 66 (103)
T PF06505_consen 24 LMHASALGALRKELIETL-----GEERARGILTRMGYASGWRDAELAR 66 (103)
T ss_pred EEchhHHHHHHHHHHHHh-----CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 479999999999999775 3345557799999999999999984
No 13
>PRK14741 spoVM stage V sporulation protein M; Provisional
Probab=55.98 E-value=8.7 Score=21.73 Aligned_cols=14 Identities=43% Similarity=0.717 Sum_probs=12.0
Q ss_pred hhhHHHHHHHHhhC
Q psy8965 151 IFVAGIVEAVLNNC 164 (193)
Q Consensus 151 ~f~cGIIrGaL~~l 164 (193)
-|+.|+||++|.++
T Consensus 10 kflgg~vra~l~~f 23 (26)
T PRK14741 10 KFLGGIVRAMLGSF 23 (26)
T ss_pred HHHHHHHHHHHHHh
Confidence 47899999999875
No 14
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana.
Probab=54.49 E-value=57 Score=27.05 Aligned_cols=53 Identities=17% Similarity=0.211 Sum_probs=38.2
Q ss_pred ccchHHHHHHHHHHHHHHHHHhcC--ChhHH------HHHHHHhhhhhhH---HHHHHHhhhcc
Q psy8965 32 HDISINLYALLFSELVQYCQNKSL--SVPEF------QSKLHEVGQSIGA---KLIDINFYREK 84 (193)
Q Consensus 32 ~~Vs~s~f~~L~~EiV~~~~~~~~--~~~ev------~~kLe~~G~~VG~---rL~E~l~~r~~ 84 (193)
++-.+...-++|..+|....+-.- +.+.+ -..||..||+|+. ||.+++..++.
T Consensus 41 REg~A~Glm~~f~~l~e~v~~l~idd~~~~f~~~~~tl~~LE~~GFnV~~l~~RL~kLL~lk~~ 104 (190)
T PF05266_consen 41 REGMAVGLMVTFANLAEKVKKLQIDDSRSSFESLMKTLSELEEHGFNVKFLRSRLNKLLSLKDD 104 (190)
T ss_pred hhHHHHHHHHHHHHHHHHHHHcccCCcHHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHHh
Confidence 466777788889988877655432 22333 2579999999996 88998887763
No 15
>KOG0037|consensus
Probab=53.50 E-value=54 Score=28.05 Aligned_cols=80 Identities=13% Similarity=0.207 Sum_probs=54.0
Q ss_pred ccccCccCccCcccchHHHHHHHHHHHHHH--HHHhcC-------ChhHHHHHHHHhhhhhhHHHHHHHhhhccCCccc-
Q psy8965 20 SILDKPINTKVKHDISINLYALLFSELVQY--CQNKSL-------SVPEFQSKLHEVGQSIGAKLIDINFYREKNGKRE- 89 (193)
Q Consensus 20 ~i~~~~l~~~~~~~Vs~s~f~~L~~EiV~~--~~~~~~-------~~~ev~~kLe~~G~~VG~rL~E~l~~r~~~~~R~- 89 (193)
+++|++ ..++|+..-|..|+.-|=+| +.++.+ +..|+.+.|..|||++--.+.+.+.-|-. +.
T Consensus 101 ~mfd~~----~~G~i~f~EF~~Lw~~i~~Wr~vF~~~D~D~SG~I~~sEL~~Al~~~Gy~Lspq~~~~lv~kyd---~~~ 173 (221)
T KOG0037|consen 101 SMFDRD----NSGTIGFKEFKALWKYINQWRNVFRTYDRDRSGTIDSSELRQALTQLGYRLSPQFYNLLVRKYD---RFG 173 (221)
T ss_pred HHhcCC----CCCccCHHHHHHHHHHHHHHHHHHHhcccCCCCcccHHHHHHHHHHcCcCCCHHHHHHHHHHhc---ccc
Confidence 566664 34679999999999988877 333322 34689999999999999999988864421 22
Q ss_pred ccHHHHHHHHHHHHHHh
Q psy8965 90 IKLLNILQFVKINLWKN 106 (193)
Q Consensus 90 ~~~ld~lkFIck~~Wk~ 106 (193)
..-++.-+||.--+|..
T Consensus 174 ~g~i~FD~FI~ccv~L~ 190 (221)
T KOG0037|consen 174 GGRIDFDDFIQCCVVLQ 190 (221)
T ss_pred CCceeHHHHHHHHHHHH
Confidence 33344455555445543
No 16
>smart00843 Ftsk_gamma This domain directs oriented DNA translocation and forms a winged helix structure. Mutated proteins with substitutions in the FtsK gamma DNA-recognition helix are impaired in DNA binding.
Probab=43.24 E-value=65 Score=22.14 Aligned_cols=39 Identities=23% Similarity=0.245 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHhcC-ChhHHHHHHHHhhhhhhHHHHHHHh
Q psy8965 41 LLFSELVQYCQNKSL-SVPEFQSKLHEVGQSIGAKLIDINF 80 (193)
Q Consensus 41 ~L~~EiV~~~~~~~~-~~~ev~~kLe~~G~~VG~rL~E~l~ 80 (193)
=||-+.+++..+... +++-+ ++=-++||+=-.||+|.+-
T Consensus 5 ~ly~~a~~~V~~~~~~S~S~l-QR~~~IGynrAariid~lE 44 (63)
T smart00843 5 ELYDEAVELVIETQKASTSLL-QRRLRIGYNRAARLIDQLE 44 (63)
T ss_pred HHHHHHHHHHHHhCCCChHHH-HHHHhcchhHHHHHHHHHH
Confidence 378888888777543 44555 4455799999999999985
No 17
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=42.82 E-value=25 Score=23.39 Aligned_cols=24 Identities=17% Similarity=0.282 Sum_probs=16.0
Q ss_pred hhhHHHHHHHHhhCCCceEEEEEe
Q psy8965 151 IFVAGIVEAVLNNCGFKSTVTAHW 174 (193)
Q Consensus 151 ~f~cGIIrGaL~~lG~~~~Vta~~ 174 (193)
.+-|.+|++.|++-|++|.|.-+.
T Consensus 9 ~~ea~~i~~~L~~~gI~~~v~~~~ 32 (67)
T PF09413_consen 9 PIEAELIKGLLEENGIPAFVKNEH 32 (67)
T ss_dssp HHHHHHHHHHHHHTT--EE--S--
T ss_pred HHHHHHHHHHHHhCCCcEEEECCc
Confidence 566999999999999999986444
No 18
>PF11565 PorB: Alpha helical Porin B; InterPro: IPR021114 This entry represents the putative cell wall channel-forming proteins porin B and porin C from Corynebacterium sp. Porin B from Corynebacterium glutamicum (Brevibacterium flavum) allows the exchange of material across the mycolic acid layer, which is the protective nonpolar barrier. Porin B has an alpha helical core structure consisting of four alpha-helices surrounding a nonpolar interior. There is a disulphide bridge between helices 1 and 4 to form a stable covalently bound ring []. The channel of PorB is oligomeric [].; PDB: 2VQG_G 2VQL_C 2VQK_A 2VQH_A.
Probab=42.37 E-value=20 Score=26.83 Aligned_cols=19 Identities=21% Similarity=0.191 Sum_probs=16.1
Q ss_pred chhhhhHHHHHHHHhhCCC
Q psy8965 148 NCAIFVAGIVEAVLNNCGF 166 (193)
Q Consensus 148 ~~~~f~cGIIrGaL~~lG~ 166 (193)
-+.++-||++|++|...|+
T Consensus 16 ~i~~~dC~~lr~~L~~~Gl 34 (98)
T PF11565_consen 16 LIDNADCGILRTGLKATGL 34 (98)
T ss_dssp GGSHHHHHHHHHHHHHTT-
T ss_pred ccCcccccHHHhhhhhhcc
Confidence 3678899999999999984
No 19
>PF15251 DUF4588: Domain of unknown function (DUF4588)
Probab=36.63 E-value=1.4e+02 Score=25.70 Aligned_cols=45 Identities=16% Similarity=0.116 Sum_probs=29.3
Q ss_pred hHHHHHHHHhhhhhhH-HHHHHHhhhccCCcccccHHHHHHHHHHH
Q psy8965 58 PEFQSKLHEVGQSIGA-KLIDINFYREKNGKREIKLLNILQFVKIN 102 (193)
Q Consensus 58 ~ev~~kLe~~G~~VG~-rL~E~l~~r~~~~~R~~~~ld~lkFIck~ 102 (193)
.+-.++..+.||..|. +..+.+..--+..+|.++-.|++.|+|+.
T Consensus 70 ~d~~~~~~~~Gy~~g~~d~~~di~~W~~k~r~~irRedLl~~l~~k 115 (232)
T PF15251_consen 70 NDSNRRSFDKGYQSGLQDRAKDIEAWAKKKRRMIRREDLLNFLCGK 115 (232)
T ss_pred HHHhhHHHHHHHHHHHHhhHHHHHHHHHhccccccHHHHHHHHhcC
Confidence 3556788999999997 44444443222224567777888888763
No 20
>PF08183 SpoV: Stage V sporulation protein family; InterPro: IPR012609 This family consists of the stage V sporulation (SpoV) proteins of Bacillus subtilis which includes SpoVM. SpoVM is an small, 26 residue-long protein that is produced in the mother cell chamber of the sporangium during the process of sporulation in B. subtilis. SpoVM forms an amphipathic alpha-helix and is recruited to the polar septum shortly after the sporangium undergoes asymmetric division. The function of SpoVM depends on proper subcellular localisation [].
Probab=32.80 E-value=32 Score=19.65 Aligned_cols=15 Identities=33% Similarity=0.552 Sum_probs=12.2
Q ss_pred hhhHHHHHHHHhhCC
Q psy8965 151 IFVAGIVEAVLNNCG 165 (193)
Q Consensus 151 ~f~cGIIrGaL~~lG 165 (193)
-|+.|+|++.|.++.
T Consensus 10 kf~Gg~v~~~L~sf~ 24 (26)
T PF08183_consen 10 KFLGGVVRALLFSFK 24 (26)
T ss_pred HHHhHHHHHHHHHHh
Confidence 367999999998864
No 21
>PF09397 Ftsk_gamma: Ftsk gamma domain; InterPro: IPR018541 This domain directs oriented DNA translocation and forms a winged helix structure []. Mutated proteins with substitutions in the FtsK gamma DNA-recognition helix are impaired in DNA binding []. ; PDB: 2VE9_B 2VE8_E 2J5O_A 2J5P_A.
Probab=31.19 E-value=81 Score=21.73 Aligned_cols=38 Identities=21% Similarity=0.363 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHhcC-ChhHHHHHHHHhhhhhhHHHHHHHh
Q psy8965 42 LFSELVQYCQNKSL-SVPEFQSKLHEVGQSIGAKLIDINF 80 (193)
Q Consensus 42 L~~EiV~~~~~~~~-~~~ev~~kLe~~G~~VG~rL~E~l~ 80 (193)
||-+.+++...... +++-+ ++=-++||+=..||+|.|-
T Consensus 7 ly~~a~~~V~~~~~~S~S~l-QR~~rIGynrAariid~LE 45 (65)
T PF09397_consen 7 LYEEAVEFVIEEGKASISLL-QRKFRIGYNRAARIIDQLE 45 (65)
T ss_dssp THHHHHHHHHHCTCECHHHH-HHHHT--HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCccHHHH-HHHhCCCHHHHHHHHHHHH
Confidence 67778888766543 44445 5556799999999999985
No 22
>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO). The tandem PHD finger-bromodomain is found in many chromatin-associated proteins. It is involved in gene silencing by the human co-repressor KRAB-associated protein 1 (KAP1). The tandem PHD finger-bromodomain of KAP1 has a distinct structure that joins the two protein modules. The first helix, alpha(Z), of an atypical bromodomain forms the central hydrophobic core that anchors the other three helices of the bromodomain on one side and the zinc binding PHD finger on the other []. The Rap1 GTPase-activating protein, Sipa1, is modulated by the cellular bromodomain protein, Brd4. Brd4 belongs to the BET family and is a multifunctional protein involved in transcription, replication, the signal transduction pathway, and cell cycle progression. All of these functions are linked to its association with acetylated chromatin. It has tandem bromodomains []. The dysregulation of the Brd4-associated pathways may play an important role in breast cancer progression []. Bovine papillomavirus type 1 E2 also binds to chromosomes in a complex with Brd4. Interaction with Brd4 is additionally important for E2-mediated transcriptional regulation [, ].
Probab=25.77 E-value=1.1e+02 Score=20.93 Aligned_cols=17 Identities=24% Similarity=0.526 Sum_probs=12.3
Q ss_pred ChhHHHHHHHHhhhhhh
Q psy8965 56 SVPEFQSKLHEVGQSIG 72 (193)
Q Consensus 56 ~~~ev~~kLe~~G~~VG 72 (193)
+..++..-|++||.+|+
T Consensus 60 ~~~Dv~~al~~~gi~v~ 76 (77)
T PF07524_consen 60 NLQDVEQALEEMGISVN 76 (77)
T ss_pred CHHHHHHHHHHhCCCCC
Confidence 45677778888887765
No 23
>COG4009 Uncharacterized protein conserved in archaea [Function unknown]
Probab=25.14 E-value=49 Score=24.08 Aligned_cols=19 Identities=26% Similarity=0.396 Sum_probs=15.5
Q ss_pred CChhHHHHHHHHhhhhhhH
Q psy8965 55 LSVPEFQSKLHEVGQSIGA 73 (193)
Q Consensus 55 ~~~~ev~~kLe~~G~~VG~ 73 (193)
++.+++++.|++||..|-.
T Consensus 60 ~s~eev~~ele~mga~in~ 78 (88)
T COG4009 60 ESEEEVERELEDMGAEINR 78 (88)
T ss_pred CCHHHHHHHHHHhCchhcc
Confidence 3558999999999988754
No 24
>cd02414 jag_KH jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=24.98 E-value=1.5e+02 Score=20.38 Aligned_cols=28 Identities=21% Similarity=0.229 Sum_probs=20.4
Q ss_pred HHHHHHhhCCCceEEEEEe-CCceEEEEE
Q psy8965 156 IVEAVLNNCGFKSTVTAHW-HKGTTYMIQ 183 (193)
Q Consensus 156 IIrGaL~~lG~~~~Vta~~-~~~~~f~Ik 183 (193)
.++.+|..+|+++.|.... .+...+.|.
T Consensus 3 ~L~~il~~mg~~~~v~~~~~~~~i~i~i~ 31 (77)
T cd02414 3 FLEEVLELMGIEADVDVEEEGDTVEVNIS 31 (77)
T ss_pred HHHHHHHHcCCCcEEEEEecCCEEEEEEe
Confidence 4678899999999998876 444444443
No 25
>PHA03081 putative metalloprotease; Provisional
Probab=24.85 E-value=9.8 Score=36.35 Aligned_cols=35 Identities=29% Similarity=0.387 Sum_probs=22.9
Q ss_pred chhhhhHHHHHH-------------HHhhCCCceEEEEEe--CCceEEEE
Q psy8965 148 NCAIFVAGIVEA-------------VLNNCGFKSTVTAHW--HKGTTYMI 182 (193)
Q Consensus 148 ~~~~f~cGIIrG-------------aL~~lG~~~~Vta~~--~~~~~f~I 182 (193)
.+++|+||||+| -|..+|+-=...... .|.|-+..
T Consensus 499 T~SsFVCGivKG~~ls~~~lt~~MW~LKk~GlIYsLe~tkl~~~~tfYiF 548 (595)
T PHA03081 499 TKSSFVCGIVKGKSLSNESLTNMMWDLKKKGLIYSLEFTKLLSKNTFYLF 548 (595)
T ss_pred EeccEEEEEeecccccHHHHHHHHHHHHhcceEEEEeeeccCCCceEEEE
Confidence 468899999999 466777765554444 44443333
No 26
>PF03410 Peptidase_M44: Protein G1; InterPro: IPR005072 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M44 (clan ME). The active site residues for members of this family and family M16 occur in the motif HXXEHProtein. The type example is the vaccinia virus-type metalloendopeptidase G1 from vaccinia virus, it is a metalloendopeptidase expressed by many Poxviridae which appears to play a role in the maturation of viral proteins.; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0019067 viral assembly, maturation, egress, and release
Probab=24.72 E-value=9.8 Score=36.32 Aligned_cols=27 Identities=26% Similarity=0.327 Sum_probs=19.4
Q ss_pred chhhhhHHHHHHH-------------HhhCCCceEEEEEe
Q psy8965 148 NCAIFVAGIVEAV-------------LNNCGFKSTVTAHW 174 (193)
Q Consensus 148 ~~~~f~cGIIrGa-------------L~~lG~~~~Vta~~ 174 (193)
.+++|+||||+|- |...|+-=......
T Consensus 495 t~SsFVCGivKG~~l~~~~lt~~MW~LKkkGLIYsle~tk 534 (590)
T PF03410_consen 495 TKSSFVCGIVKGKSLSNESLTDMMWELKKKGLIYSLEFTK 534 (590)
T ss_pred EecceEEEEeecccccHHHHHHHHHHHHhcceEEEEeeee
Confidence 4789999999996 55677765554444
No 27
>PF00447 HSF_DNA-bind: HSF-type DNA-binding; InterPro: IPR000232 Heat shock factor (HSF) is a transcriptional activator of heat shock genes []: it binds specifically to heat shock promoter elements, which are palindromic sequences rich with repetitive purine and pyrimidine motifs []. Under normal conditions, HSF is a homo-trimeric cytoplasmic protein, but heat shock activation results in relocalisation to the nucleus []. Each HSF monomer contains one C-terminal and three N-terminal leucine zipper repeats []. Point mutations in these regions result in disruption of cellular localisation, rendering the protein constitutively nuclear []. Two sequences flanking the N-terminal zippers fit the consensus of a bi- partite nuclear localisation signal (NLS). Interaction between the N- and C-terminal zippers may result in a structure that masks the NLS sequences: following activation of HSF, these may then be unmasked, resulting in relocalisation of the protein to the nucleus []. The DNA-binding component of HSF lies to the N terminus of the first NLS region, and is referred to as the HSF domain.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1FBQ_B 1FYL_B 1FBS_A 1FYM_B 3HTS_B 2HTS_A 3HSF_A 1FBU_B 1FYK_A 2LDU_A ....
Probab=24.54 E-value=93 Score=22.59 Aligned_cols=34 Identities=18% Similarity=0.337 Sum_probs=25.7
Q ss_pred HHHHHHHHHhhhCccccccccccCCCCEEEEEcCC
Q psy8965 97 QFVKINLWKNIFGKECDKLERANDDERTYYLIEQE 131 (193)
Q Consensus 97 kFIck~~Wk~lFgkqaD~L~~~tn~~g~yvl~D~~ 131 (193)
+|+.| +|.++=....+.+=.|+.+.+.|+|.|.+
T Consensus 1 ~F~~k-L~~~l~~~~~~~~I~W~~~G~~fiI~d~~ 34 (103)
T PF00447_consen 1 KFLSK-LYEMLEDPENSDIIRWSPDGDSFIIHDPE 34 (103)
T ss_dssp HHHHH-HHHHHCTTTTTTTCEECTTSSEEEES-HH
T ss_pred ChHHH-HHHHHcCCCCCCEEEEeCCCCEEEEeecH
Confidence 58877 89998877666644698888899998855
No 28
>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.
Probab=24.42 E-value=80 Score=20.03 Aligned_cols=25 Identities=28% Similarity=0.428 Sum_probs=20.3
Q ss_pred ChhHHHHHHHHhhhhhhHHHHHHHh
Q psy8965 56 SVPEFQSKLHEVGQSIGAKLIDINF 80 (193)
Q Consensus 56 ~~~ev~~kLe~~G~~VG~rL~E~l~ 80 (193)
+..+.-++|.+.||+|+.++++.++
T Consensus 20 ~~~~~l~~l~~~g~~is~~l~~~~L 44 (48)
T PF11848_consen 20 EVKPLLDRLQQAGFRISPKLIEEIL 44 (48)
T ss_pred hHHHHHHHHHHcCcccCHHHHHHHH
Confidence 4455667889999999999999886
No 29
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=23.66 E-value=1.4e+02 Score=20.75 Aligned_cols=16 Identities=25% Similarity=0.474 Sum_probs=8.2
Q ss_pred hhHHHHHHHHhhhhhh
Q psy8965 57 VPEFQSKLHEVGQSIG 72 (193)
Q Consensus 57 ~~ev~~kLe~~G~~VG 72 (193)
..|+..-|+.+|-++|
T Consensus 61 ~~Dv~~Al~~~gi~~~ 76 (77)
T smart00576 61 LGDVVLALENLGISVG 76 (77)
T ss_pred HHHHHHHHHHhCcccC
Confidence 3455555555555544
No 30
>COG5169 HSF1 Heat shock transcription factor [Transcription]
Probab=23.26 E-value=1.1e+02 Score=27.07 Aligned_cols=36 Identities=25% Similarity=0.361 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHhhhCccccccccccCCCCEEEEEcCC
Q psy8965 95 ILQFVKINLWKNIFGKECDKLERANDDERTYYLIEQE 131 (193)
Q Consensus 95 ~lkFIck~~Wk~lFgkqaD~L~~~tn~~g~yvl~D~~ 131 (193)
+-.||.| +|.+|=+-.-..+=.|+.+...|||.|.+
T Consensus 10 ~~~FV~K-Ly~iLe~~e~~k~I~Ws~~G~sfvI~~~~ 45 (282)
T COG5169 10 PKEFVHK-LYQILEEPEYYKLIQWSPDGRSFVILDPE 45 (282)
T ss_pred hhHHHHH-HHHHhcCcccCCceEECCCCCEEEEeCcc
Confidence 3479988 99999997777777899999999999944
No 31
>KOG0766|consensus
Probab=21.72 E-value=94 Score=27.11 Aligned_cols=56 Identities=23% Similarity=0.340 Sum_probs=35.5
Q ss_pred hCccccccccccCCCCEEEEEcC-C----c--ccccce-eccCC--CCCcchhhhhHHHHHHHHhhC
Q psy8965 108 FGKECDKLERANDDERTYYLIEQ-E----S--LVNKFI-SVPKD--KGSLNCAIFVAGIVEAVLNNC 164 (193)
Q Consensus 108 FgkqaD~L~~~tn~~g~yvl~D~-~----p--l~~~~i-s~P~~--~~~l~~~~f~cGIIrGaL~~l 164 (193)
=|-.+..|+ -..+.|-|+++=+ + | +..+|+ |.|.+ ...-+-.+|.|||+.|+|+.+
T Consensus 164 rGfgaT~LR-DAP~aGlYv~fYe~sKq~lph~l~drf~~~~p~~g~v~~~nivN~~sgi~sg~lAt~ 229 (297)
T KOG0766|consen 164 RGFGATLLR-DAPFAGLYVMFYEQSKQILPHDLVDRFLPSIPVQGTVPHRNIVNFSSGIFSGILATL 229 (297)
T ss_pred hcchhhHhc-cCCccceeeeehhhhhhccchhhhhhcccCCCCCCcccccceeehhHHHHHHHHHHH
Confidence 355677775 4578899966433 2 3 455565 23321 112346799999999999874
No 32
>PF10026 DUF2268: Predicted Zn-dependent protease (DUF2268); InterPro: IPR018728 This domain, found in various hypothetical bacterial proteins, as well as predicted zinc dependent proteases, has no known function.
Probab=21.61 E-value=61 Score=26.52 Aligned_cols=19 Identities=11% Similarity=0.363 Sum_probs=15.8
Q ss_pred HHhhhhhhHHHHHHHhhhc
Q psy8965 65 HEVGQSIGAKLIDINFYRE 83 (193)
Q Consensus 65 e~~G~~VG~rL~E~l~~r~ 83 (193)
..+||.+|.+|++.++.+.
T Consensus 160 ~~~GY~~GY~iVk~yl~~~ 178 (195)
T PF10026_consen 160 RWLGYALGYRIVKAYLEKH 178 (195)
T ss_pred ccchHHHHHHHHHHHHHHC
Confidence 3489999999999998554
No 33
>smart00415 HSF heat shock factor.
Probab=21.12 E-value=1.2e+02 Score=22.27 Aligned_cols=66 Identities=20% Similarity=0.297 Sum_probs=44.1
Q ss_pred HHHHHHHHHhhhCccccccccccCCCCEEEEEcCCcccccceeccCCCCCcchhhhhHHHHHHHHhhCCCceEE
Q psy8965 97 QFVKINLWKNIFGKECDKLERANDDERTYYLIEQESLVNKFISVPKDKGSLNCAIFVAGIVEAVLNNCGFKSTV 170 (193)
Q Consensus 97 kFIck~~Wk~lFgkqaD~L~~~tn~~g~yvl~D~~pl~~~~is~P~~~~~l~~~~f~cGIIrGaL~~lG~~~~V 170 (193)
.|++| +|.++=....+.+-.|+.+...|+|.|..-+.. . -+|.-...-++.+|+ |- |..-||.=..
T Consensus 4 ~F~~k-L~~~l~~~~~~~iI~W~~~G~~f~I~d~~~f~~-~-vLp~~Fk~~~~~SF~----Rq-Ln~yGF~k~~ 69 (105)
T smart00415 4 PFLTK-LYLLVEDPSTDKIISWSPSGKSFVIWDPEEFAK-N-LLPRYFKHNNFSSFV----RQ-LNMYGFRKVD 69 (105)
T ss_pred cHHHH-HHHHHhCCCCCCEEEECCCCCEEEEcCHHHHHH-H-HHHHhcCCCCHHHHH----HH-HHhcCCEEec
Confidence 58877 899988888775556888888999999763322 1 235433344555554 33 8888886544
No 34
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=20.96 E-value=5.3e+02 Score=21.96 Aligned_cols=132 Identities=16% Similarity=0.150 Sum_probs=67.3
Q ss_pred hHHHHHHHHHHHHHHHHHhcC---ChhHHHHHHHHhhhhhhHHHHHHHhhhccCCcccccHHHHHHHHHHHHHHhhhCcc
Q psy8965 35 SINLYALLFSELVQYCQNKSL---SVPEFQSKLHEVGQSIGAKLIDINFYREKNGKREIKLLNILQFVKINLWKNIFGKE 111 (193)
Q Consensus 35 s~s~f~~L~~EiV~~~~~~~~---~~~ev~~kLe~~G~~VG~rL~E~l~~r~~~~~R~~~~ld~lkFIck~~Wk~lFgkq 111 (193)
..+.|..-|+++.-.+.+..+ ..+.++.-|++.+-.+|.-.....-- + .+...++.-.+..+.+ .|.-
T Consensus 77 g~~~f~~~y~~l~~~~l~~l~~~~G~~~l~~~l~~r~~~~~~~~~~~~~~-~--~~~ee~~e~Lv~l~~~------~gy~ 147 (218)
T COG2345 77 GREQFPKRYGELALALLDALEETGGEEALNAFLEKRAQAIGAQYRPAMGG-D--ADLEEKVERLVELLSD------LGYM 147 (218)
T ss_pred chhhcchhhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHhhcCCC-C--CCHHHHHHHHHHHHHh------CCcc
Confidence 334666666666655444332 22445555665555554443333210 0 1233333333333333 3443
Q ss_pred ccccccccCCCCEEEEEcCC-cccccceeccCCCCCcchhhhhHHHHHHHHhhCCCceEEEEEe---CCceEEEEEech
Q psy8965 112 CDKLERANDDERTYYLIEQE-SLVNKFISVPKDKGSLNCAIFVAGIVEAVLNNCGFKSTVTAHW---HKGTTYMIQFDE 186 (193)
Q Consensus 112 aD~L~~~tn~~g~yvl~D~~-pl~~~~is~P~~~~~l~~~~f~cGIIrGaL~~lG~~~~Vta~~---~~~~~f~Ikf~~ 186 (193)
+.. + +-..|.|.|..+| |+.. +-+. .-..++.-+++++++|-...++ .+.+. +..|+|.|+..+
T Consensus 148 ~e~-~--~~~~~~~~l~e~nCPi~~----vA~~--~~~~C~~e~~~~~~~Lg~~~v~--~~~~~~~g~~~C~~~v~~~~ 215 (218)
T COG2345 148 PEL-R--PVDNGRVQLIEHNCPISA----VAEE--FPVACESELALFAEVLGTAHVE--RTEHILDGPGRCTYHVKLES 215 (218)
T ss_pred ccc-c--ccCCCceEEEecCCchHH----HHHH--hHHHHHHHHHHHHHHhccCCcc--ceeeeecCCCceEEEeecCC
Confidence 332 2 2336889999988 7542 1111 1122444567788877664444 55555 678999998764
Done!