Query psy8848
Match_columns 459
No_of_seqs 159 out of 1199
Neff 7.9
Searched_HMMs 46136
Date Fri Aug 16 20:47:06 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8848.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8848hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK11040 peptidase PmbA; Provi 100.0 9.4E-90 2E-94 713.2 50.7 440 11-459 7-446 (446)
2 PRK10735 tldD protease TldD; P 100.0 1.8E-87 3.9E-92 699.5 52.5 425 21-459 20-480 (481)
3 COG0312 TldD Predicted Zn-depe 100.0 6.4E-80 1.4E-84 644.5 44.2 430 20-459 3-454 (454)
4 PF01523 PmbA_TldD: Putative m 100.0 8.6E-50 1.9E-54 395.0 34.6 291 35-332 1-293 (293)
5 TIGR03884 sel_bind_Methan sele 28.7 2.8E+02 0.0061 21.5 6.5 48 16-77 25-72 (74)
6 KOG2792|consensus 23.5 1.7E+02 0.0036 28.5 5.3 60 80-152 145-204 (280)
7 PF07311 Dodecin: Dodecin; In 21.6 3.7E+02 0.0079 20.4 6.5 50 14-66 12-61 (66)
8 COG4815 Uncharacterized protei 16.5 92 0.002 26.7 1.7 43 307-349 66-110 (145)
9 PF07338 DUF1471: Protein of u 16.4 3.9E+02 0.0084 19.3 4.8 27 18-44 17-43 (56)
10 TIGR01431 adm_rel adenosine de 15.9 65 0.0014 34.3 0.8 83 11-106 188-284 (479)
No 1
>PRK11040 peptidase PmbA; Provisional
Probab=100.00 E-value=9.4e-90 Score=713.20 Aligned_cols=440 Identities=38% Similarity=0.659 Sum_probs=409.9
Q ss_pred cccCHHHHHHHHHHHHHHHHHcCCCEEEEEEEEeeeEEEEEECCeeeEEEEecceeEEEEEEEeCCeeeEEEEEEeCCCC
Q psy8848 11 FIYSKSEFQQLAQDMLNYAKKIGASHSSIEFNEGNGFSVFVRKGKIDVIEQNNDKNMNVIIYIQDGKKMFYGNSSTSDFC 90 (459)
Q Consensus 11 ~~~~~~~~~~~~~~~l~~a~~~g~~~~ev~~~~~~~~~v~~~~~~i~~~~~~~~~gi~iRv~~~~gr~~~~G~ast~~l~ 90 (459)
|..+++++++++++++++|++ |+++|||++++.++.++.+++|+|+++....+.|++|||++ ||| |||++|++++
T Consensus 7 ~~~~~~~~~~~~~~~~~~a~~-~~d~~Ei~~~~~~~~si~~~~g~l~~~~~~~~~gvgvRVi~-~gk---~Gfa~t~~l~ 81 (446)
T PRK11040 7 VAAQRKILEEAVSTALELASG-KSDGAEVAVSKTTGISVSTRYGEVENVEFNSDGALGITVYH-QQR---KGSASSTDLS 81 (446)
T ss_pred hhhhHHHHHHHHHHHHHHHHh-CCCcEEEEEEEcCceEEEEECCccceEEeccCCCEEEEEEE-CCe---EEEEEecCCC
Confidence 345567899999999999987 89999999999999999999999999999999999999999 999 9999999999
Q ss_pred HHHHHHHHHHHHHHhhhcCCCCCCCCCCCCcccCCCCCCccCCCCCCCHHHHHHHHHHHHHHHhcCCCCeeEecceEEEE
Q psy8848 91 KKSLYDTINAAYNIARFTASDNFAGLPDENTLEMNPLDFKLYTPWFLSIDDAKLIAYRCENEAFNFNSLIVNNENTGVTT 170 (459)
Q Consensus 91 ~~~l~~~v~~A~~~a~~~~~d~~~~l~~~~~~~~~~~~~~~~~~~~~~~ee~~~~~~~~~~~~~~~~~~i~~~~~~~~~~ 170 (459)
++++++++++|+++|+..+++++..+++...+...++....|++..+++++++++++++++.+++.+++|.++.++.|+.
T Consensus 82 ~~~l~~av~~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~ 161 (446)
T PRK11040 82 PQAIARTVQAALDIARYTSPDPCAGPADKELLAFDAPDLDLFHPAEVDPDEAIELAARAEQAALQADKRITNTEGGSFNS 161 (446)
T ss_pred HHHHHHHHHHHHHHHhccCCCcccCCCChHHcccCCCcccccCcCCCCHHHHHHHHHHHHHHHHhcCCCeEeecCceEEe
Confidence 99999999999999999888776543332222223344556788888999999999999999988889998887668999
Q ss_pred EEEEEEEEecCCcceeeeeeEEEEEEEEEEEeCCceeeeeeeccCCCCCCCCChhhHHHHHHHHHHHHcCCCCCCCceEe
Q psy8848 171 QQSHFLLANSHGFMSGYPFSKHIISISPIAIKGKEMQRDNWYSSNSDPKKLDQPEIIGFYAAKRTISRLKAKKISTRKCP 250 (459)
Q Consensus 171 ~~~~~~i~nS~G~~~~~~~~~~~~~~~~~a~~g~~~~~~~~~~~~~~~~~l~~~~~~~~~a~~~a~~~l~a~~~~~g~y~ 250 (459)
...+++|+||+|+.++++.+.+++++.+++++++...++|++..++.+.++++++.++++|+++|+.+|+++++++|+||
T Consensus 162 ~~~~~~i~NS~G~~~~~~~~~~~~~~~~~a~~~g~~~s~~~~~~~~~~~~l~~~~~~~~~a~~~a~~~l~a~~i~~g~~~ 241 (446)
T PRK11040 162 HYGIKVFGNSHGMLQSYCSSRHSLSSCVIAEENGDMERDYAYTIGRAMDDLQTPEWVGAECARRTLSRLSPRKLSTMKAP 241 (446)
T ss_pred eEEEEEEEeCCCcccccccccEEEEEEEEEEcCCceeccceeeeecChhhcCCHHHHHHHHHHHHHHhcCCccCCCCeee
Confidence 99999999999999999999999999999987767777888888888888867899999999999999999999999999
Q ss_pred EEecchhHHHHHHHHHhcccccccccccCccccCCCCeecCCCceEEeCCCCCCCCcccccCCcCccccceeEEeCcEEc
Q psy8848 251 VLFEAPLAFELLNIFARLISGNSLYRKSTFLVDSLGKKIFSSHIQIIEDPHILGSFGSSSFDNEGVKTQKRLVVKNGIIQ 330 (459)
Q Consensus 251 Vvl~p~a~~~ll~~~~~~l~~~~~~~g~S~l~~klG~~vas~~ltl~Ddp~~~~~~gs~~fDdEGv~t~~~~LIe~Gvl~ 330 (459)
|||+|.+++.|++++.++|+|+++++|+|+|++|+|++||||.|||+|||++|+++++++|||||+|+++++|||||||+
T Consensus 242 Vi~~p~~~~~ll~~~~~~~~~~~v~~g~S~~~~klGe~v~s~~~ti~Ddp~~~~~~~s~~fDdEGv~~~~~~lIe~Gvlk 321 (446)
T PRK11040 242 VIFAAEVATGLFGHLVGAISGGSVYRKSTFLLDSLGKQILPEWLTIEEHPHLLKGLASTPFDSEGVRTERRDIIKDGVLQ 321 (446)
T ss_pred EEECchHHHHHHHHHHHhcCHHHHhcCCccccccCCCeecCCccEEEccCCCCCCCcCCCcCCCCCccCccEEEECCEEe
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccChHHHHHcCCCCCcCcccccceEEeCCCCCCCCCHHHHHHcCCCEEEEEEeCCCccccccccEEEeeEEEEEeCCE
Q psy8848 331 GYFLSTYSAKKLGMKTTGNSGGAHHLIIISNKTKSSDNLKEMLKKMNTGLLVTELMGDGINYITGDYSKGAFGYWIENGK 410 (459)
Q Consensus 331 ~~l~d~~~A~~~g~~~TGna~~~~N~~i~~g~~~~~~s~~eli~~~~~Gi~v~~~~g~~~n~~tG~Fs~~~~g~~IenGe 410 (459)
+||||++||+++|.+|||||++++|++|+|| +.|++|||+++++||||+++||+++|++||+||+++.||||||||
T Consensus 322 ~~l~~~~~A~~~g~~~TGna~~~~n~~i~~g----~~s~~eli~~~~~Gi~v~~~~g~~~~~~tGdFs~~~~g~~IenGe 397 (446)
T PRK11040 322 TWLLTSYSARKLGLKSTGHAGGIHNWRIAGQ----GLSFEQMLKEMGTGLVVTELMGQGVSAVTGDYSRGAAGFWVENGE 397 (446)
T ss_pred eeccCHHHHHHcCCCCCcCCCCcceEEECCC----CCCHHHHHHhhCCEEEEEeccCCccCCCcccEEeeEeEEEEECCE
Confidence 9999999999999999999999999999999 999999999999999999999988999999999999999999999
Q ss_pred EecceeceEEEecHHHHHHhhHHccCcccccCCCccceEEEeeEEEecC
Q psy8848 411 IQYSVEEITISGKLQNMFKQIVAIGSDVLTRNSNTSGSILIENMIIAGK 459 (459)
Q Consensus 411 i~~pV~~~~isgn~~~~L~~I~~v~~d~~~~~~~~~P~i~v~~l~v~G~ 459 (459)
+++||++++|+||++++|++|++||+|+++.++..||+++|++|+|+|+
T Consensus 398 i~~pv~~~~i~gn~~~~L~~i~~vg~~~~~~~~~~~~~~~~~~~~V~G~ 446 (446)
T PRK11040 398 IQYPVSEITIAGNLKDMWRNIVTVGNDIETRSNIQCGSVLLPEMKIAGQ 446 (446)
T ss_pred EcceeeeEEEEecHHHHHHhhhhhcccceecCCCcCCeEEECcEEeccC
Confidence 9999999999999999999999999999998889999999999999996
No 2
>PRK10735 tldD protease TldD; Provisional
Probab=100.00 E-value=1.8e-87 Score=699.52 Aligned_cols=425 Identities=18% Similarity=0.237 Sum_probs=390.2
Q ss_pred HHHHHHHHHHHcCCCEEEEEEEEeeeEEEEEECCeeeEEEEecceeEEEEEEEeCCeeeEEEEEEeCCCCHHHHHHHHHH
Q psy8848 21 LAQDMLNYAKKIGASHSSIEFNEGNGFSVFVRKGKIDVIEQNNDKNMNVIIYIQDGKKMFYGNSSTSDFCKKSLYDTINA 100 (459)
Q Consensus 21 ~~~~~l~~a~~~g~~~~ev~~~~~~~~~v~~~~~~i~~~~~~~~~gi~iRv~~~~gr~~~~G~ast~~l~~~~l~~~v~~ 100 (459)
.++++++++++.|++++||++++.+..++.+++++|+.+....+.|++|||++ ||+ |||++|+++++++|++++++
T Consensus 20 ~~~~~~~~~~~~g~d~~Ev~~~~~~~~si~~~~g~ve~~~~~~~~GigvRVi~-~g~---~Gfast~dl~~~~l~~av~~ 95 (481)
T PRK10735 20 DLFAILGQLAERRLDYGDLYFQSSYHESWVLEDRIIKDGSYNIDQGVGVRAIS-GEK---TGFAYADQISLLALEQSAQA 95 (481)
T ss_pred HHHHHHHHHHHcCCCEEEEEEEEeeeEEEEEECCEeeEEEecCcceEEEEEEE-CCc---EEEEEeCCCCHHHHHHHHHH
Confidence 58999999999999999999999999999999999999999999999999999 999 99999999999999999999
Q ss_pred HHHHhhhcCCCCCCCCCCCCcccCCCCCCccCCC-CCCCHHHHHHHHHHHHHHHhcCCCCeeEecceEEEEEEEEEEEEe
Q psy8848 101 AYNIARFTASDNFAGLPDENTLEMNPLDFKLYTP-WFLSIDDAKLIAYRCENEAFNFNSLIVNNENTGVTTQQSHFLLAN 179 (459)
Q Consensus 101 A~~~a~~~~~d~~~~l~~~~~~~~~~~~~~~~~~-~~~~~ee~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~n 179 (459)
|.++|+..+++++..+... + ..+.+..++| .++++++++++++++++.+++++++|+++. +.|+....+++|+|
T Consensus 96 A~~~a~~~~~~~~~~~~~~---~-~~~~~~~~~~~~~~~~~ekie~~~~~e~~~~~~d~~I~~v~-~~~~~~~~~~~i~n 170 (481)
T PRK10735 96 ARTIVRDSGDGKVQTLGAV---E-HSPLYTSLDPLQSMSREEKLDILRRVDKVARAADKRVQEVT-ASLTGVYELILVAA 170 (481)
T ss_pred HHHHhhhccCCcccccccc---c-ccccccccCCcccCCHHHHHHHHHHHHHHHHhcCCCeEEEE-EEEEEEEEEEEEEe
Confidence 9999998877764444321 1 1112334666 578999999999999999998889999884 88999999999999
Q ss_pred cCCcceeeeeeEEEEEEEEEEEeCCceee---------eeeeccCCCCCCCCChhhHHHHHHHHHHHHcCCCCCCCceEe
Q psy8848 180 SHGFMSGYPFSKHIISISPIAIKGKEMQR---------DNWYSSNSDPKKLDQPEIIGFYAAKRTISRLKAKKISTRKCP 250 (459)
Q Consensus 180 S~G~~~~~~~~~~~~~~~~~a~~g~~~~~---------~~~~~~~~~~~~l~~~~~~~~~a~~~a~~~l~a~~~~~g~y~ 250 (459)
|+|+.++++.+++++++.+++.+++.+++ +|++...+.+.++ +++.++++|+++|+.+|+++++++|+||
T Consensus 171 S~G~~~~~~~~~~~~~~~~va~~~g~~~~~~~~~~~~~g~e~~~~~~~~~l-~~e~i~~~a~~~a~~~l~a~~i~~g~y~ 249 (481)
T PRK10735 171 TDGTLAADVRPLVRLSVSVLVEEDGKRERGASGGGGRFGYEYFLADLDGEV-RADAWAKEAVRMALVNLSAVAAPAGTMP 249 (481)
T ss_pred CCCCEEEEEeeEEEEEEEEEEEcCCEEEeeeccCCccCCchHhhccccccc-CHHHHHHHHHHHHHHhcCCccCCCceee
Confidence 99999999999999999999987766655 5655544544566 4899999999999999999999999999
Q ss_pred EEecchhHHHHHHHHH-hcccccccccccCccccCCCCeecCCCceEEeCCCCCCCCcccccCCcCccccceeEEeCcEE
Q psy8848 251 VLFEAPLAFELLNIFA-RLISGNSLYRKSTFLVDSLGKKIFSSHIQIIEDPHILGSFGSSSFDNEGVKTQKRLVVKNGII 329 (459)
Q Consensus 251 Vvl~p~a~~~ll~~~~-~~l~~~~~~~g~S~l~~klG~~vas~~ltl~Ddp~~~~~~gs~~fDdEGv~t~~~~LIe~Gvl 329 (459)
|||+|.+++.|+|+++ ++|+|+++++|+|+|++|+|++|||+.|||+|||++|+++++++|||||+|++++.||+||||
T Consensus 250 VIl~p~~~~~ll~~~~~~~~~~d~~~~g~S~l~~klG~~vas~~lti~Ddp~~~~~~gs~~fDdEGv~t~~~~lI~~GvL 329 (481)
T PRK10735 250 VVLGAGWPGVLLHEAVGHGLEGDFNRRGTSVFSGQVGELVASELCTVVDDGTMVDRRGSVAIDDEGTPGQYNVLIENGIL 329 (481)
T ss_pred EEECCcHHHHHHHHHhhhhhchhhHhhCCchhhhcCCCeeCCCccEEEECCCCCCCCcCCCcCCCCCCccccEEEECCEE
Confidence 9999999999999965 589999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccChHHHHHcCCCCCcCcc----------cccceEEeCCCCCCCCCHHHHHHcCCCEEEEEEeCCCccccccccEEE
Q psy8848 330 QGYFLSTYSAKKLGMKTTGNSG----------GAHHLIIISNKTKSSDNLKEMLKKMNTGLLVTELMGDGINYITGDYSK 399 (459)
Q Consensus 330 ~~~l~d~~~A~~~g~~~TGna~----------~~~N~~i~~g~~~~~~s~~eli~~~~~Gi~v~~~~g~~~n~~tG~Fs~ 399 (459)
++||||++||+++|.+|||||+ +|+|++|+|| +.+++|||+++++||||++++|+++||.+|+||+
T Consensus 330 ~~~l~d~~tA~~~g~~sTGna~r~~~~~~p~~~~~N~~i~~g----~~s~~eli~~~~~Gl~v~~~~g~~~n~~sGdFs~ 405 (481)
T PRK10735 330 KGYMQDKLNARLMGVAPTGNGRRESYAHLPMPRMTNTYMLAG----KSTPQEIIESVEYGIYAPNFGGGQVDITSGKFVF 405 (481)
T ss_pred echhhhhHHHHHcCCCCCCCcccccCCCCCcCccceEEEeCC----CCCHHHHHHhcCCEEEEEcCcCcccCCCceEEEE
Confidence 9999999999999999999997 5999999999 9999999999999999999999899999999999
Q ss_pred ee-EEEEEeCCEEecceeceEEEecHHHHHHhhHHccCcccccC--------------CCccceEEEeeEEEecC
Q psy8848 400 GA-FGYWIENGKIQYSVEEITISGKLQNMFKQIVAIGSDVLTRN--------------SNTSGSILIENMIIAGK 459 (459)
Q Consensus 400 ~~-~g~~IenGei~~pV~~~~isgn~~~~L~~I~~v~~d~~~~~--------------~~~~P~i~v~~l~v~G~ 459 (459)
++ .||||||||+++||++++|+||++++|++|++||+|++|.+ +.++|+|+|++|+|+|.
T Consensus 406 ~~~~g~~IenGei~~pV~~~~i~Gn~~~~L~~I~~vg~d~~~~~~~g~Cgk~~q~v~v~~g~P~i~v~~i~VgG~ 480 (481)
T PRK10735 406 STSEAYLIENGKVTKPVKGATLIGSGIEAMQQISMVGNDLKLDNGVGVCGKEGQSLPVGVGQPTLKVDNLTVGGT 480 (481)
T ss_pred EeEEEEEEECCEEcceeeeEEEEecHHHHHHhhhhccccceeccCCCccCCCCcccccccCCCCEEEccEEEccC
Confidence 99 79999999999999999999999999999999999999864 57889999999999995
No 3
>COG0312 TldD Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]
Probab=100.00 E-value=6.4e-80 Score=644.46 Aligned_cols=430 Identities=30% Similarity=0.482 Sum_probs=388.3
Q ss_pred HHHHHHHHHHHHcCCCEEEEEEEEeeeEEEEEECCeeeEEEEecceeEEEEEEEeCCeeeEEEEEEeCCCCHHHHHHHHH
Q psy8848 20 QLAQDMLNYAKKIGASHSSIEFNEGNGFSVFVRKGKIDVIEQNNDKNMNVIIYIQDGKKMFYGNSSTSDFCKKSLYDTIN 99 (459)
Q Consensus 20 ~~~~~~l~~a~~~g~~~~ev~~~~~~~~~v~~~~~~i~~~~~~~~~gi~iRv~~~~gr~~~~G~ast~~l~~~~l~~~v~ 99 (459)
++++++++.+++.|++++||++++....++.++++++++.+...+.|++|||++ +++ +||++|+++++ +++++++
T Consensus 3 ~~~~~~l~~~~~~~a~~~ei~~~~~~~~~v~~~~~~v~~~~~~~~~g~~vRv~~-~~~---~~~a~t~~~~~-~~~~~v~ 77 (454)
T COG0312 3 ELLEKLLELALKAGADEAEVRVERSSGESVSLRNGEVETVSFSIDRGVGVRVIK-GGG---WGFASTNDLSE-ALEAAVE 77 (454)
T ss_pred hHHHHHHHHHHhcCCCeEEEEEEEeeeeEEEEECCEEeeccccccccEEEEEEE-CCe---EEEEEcCCCCH-HHHHHHH
Confidence 678899999999999999999999999999999999999999999999999999 999 99999999999 9999999
Q ss_pred HHHHHhhhcCCCCCCCCCCCCcccC-CCCCCccCCCCCCCHHHHHHHHHHHHHHHhcCCCCeeEecceEEEEEEEEEEEE
Q psy8848 100 AAYNIARFTASDNFAGLPDENTLEM-NPLDFKLYTPWFLSIDDAKLIAYRCENEAFNFNSLIVNNENTGVTTQQSHFLLA 178 (459)
Q Consensus 100 ~A~~~a~~~~~d~~~~l~~~~~~~~-~~~~~~~~~~~~~~~ee~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~ 178 (459)
+|+++|+..++++...+.++..... .+..+..+++.+.+++++++++.++++.+++.+++|.. .++.++....++.|+
T Consensus 78 ~A~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~i~~-~~~~~~~~~~~~~~~ 156 (454)
T COG0312 78 AALKIARLAGEDEEAGLAPPEPLAPASYPDLDLKDPEDVSLEEKVELLKRAEAAARAADPRINS-VSASYSDSVSEVVIA 156 (454)
T ss_pred HHHHHHhccccCCccccccccccccccccccccCCcccCCHHHHHHHHHHHHHHHhhccCccee-EEEEEEEEEEEEEEE
Confidence 9999999886666544533332222 45666777888999999999999999999998998844 448999999999999
Q ss_pred ecCCcceeeeeeEEEEEEEEEEEeCCc-eeeeeeeccCCCCCCCCC-hhhHHHHHHHHHHHHcCCCCCCCceEeEEecch
Q psy8848 179 NSHGFMSGYPFSKHIISISPIAIKGKE-MQRDNWYSSNSDPKKLDQ-PEIIGFYAAKRTISRLKAKKISTRKCPVLFEAP 256 (459)
Q Consensus 179 nS~G~~~~~~~~~~~~~~~~~a~~g~~-~~~~~~~~~~~~~~~l~~-~~~~~~~a~~~a~~~l~a~~~~~g~y~Vvl~p~ 256 (459)
||+|+.+++..+++++++++++++++. +...+.+.+.+++.++.+ ++.++++|+++|+.++.++++|+|+|||||+|.
T Consensus 157 nS~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~a~~~l~~~~~~~g~~~VIl~p~ 236 (454)
T COG0312 157 NSEGSEVEYERTRVSLSVSVIAGEGGRGEERSGRGGGSRGFEELLEEPEEVAEEAARRALSLLEARPVPSGRYPVILSPE 236 (454)
T ss_pred EcCCcEEEEEeeeEEEEEEEEEEeCCceEEeeccCCCcCCHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCcccEEECCC
Confidence 999999999999999999999987654 444444555556666655 789999999999999999999999999999999
Q ss_pred hHHHHHHHHH-hcccccccccccCc-cccCCCCeecCCCceEEeCCCCCCCCcccccCCcCccccceeEEeCcEEccccc
Q psy8848 257 LAFELLNIFA-RLISGNSLYRKSTF-LVDSLGKKIFSSHIQIIEDPHILGSFGSSSFDNEGVKTQKRLVVKNGIIQGYFL 334 (459)
Q Consensus 257 a~~~ll~~~~-~~l~~~~~~~g~S~-l~~klG~~vas~~ltl~Ddp~~~~~~gs~~fDdEGv~t~~~~LIe~Gvl~~~l~ 334 (459)
+++.|+|+.+ ++++|+++++|+|+ |.+++|+||+||.|||+|||++|+++||++|||||+|++++.|||||||++|||
T Consensus 237 ~~~~llhea~gh~~e~d~v~~~~s~~~~~~~G~~v~se~lti~Ddp~~~~~~gs~~fDdEGv~t~~~~lIe~GvL~~yl~ 316 (454)
T COG0312 237 AAGVLLHEALGHALEGDRVYKGESSLLADKLGKRVASELLTIIDDPTLPGGLGSYPFDDEGVPTRRTVLIENGVLKGYLH 316 (454)
T ss_pred chheeeehhhccchhhhhhhcccchHhhhhhhhhhcCceeEEEeCCCCCCCccCcccCCCCCccceeEEEEcCEEeehhc
Confidence 9999999655 57999999999887 899999999999999999999999999999999999999999999999999999
Q ss_pred ChHHHHHcCCCCCcCcc----------cccceEEeCCCCCCCCCHHHHHHcCCCEEEEEEeCCCccccccccEEEee-EE
Q psy8848 335 STYSAKKLGMKTTGNSG----------GAHHLIIISNKTKSSDNLKEMLKKMNTGLLVTELMGDGINYITGDYSKGA-FG 403 (459)
Q Consensus 335 d~~~A~~~g~~~TGna~----------~~~N~~i~~g~~~~~~s~~eli~~~~~Gi~v~~~~g~~~n~~tG~Fs~~~-~g 403 (459)
|+++|+++|++|||||+ ||+|++|+|| +.+++|||+++++||||+++||++.|+.+|.|++.+ .|
T Consensus 317 ~~~sA~~~G~~~TGnar~~~~~~~p~~rm~N~~i~~G----~~s~eeli~~~~~Giyv~~~~gg~~~~~~~~f~~~~~~g 392 (454)
T COG0312 317 DRYSARKLGLESTGNARRGSYAHVPIPRMTNTYIEPG----DYSFEELIEDVKRGLYVTNLWGGQNDITGGFFRFSGAEG 392 (454)
T ss_pred chhhHHHhCCCcCcccccccCCcCCccceecccccCC----CCCHHHHHHhhCcEEEEecccCceeccCCceEEEEeeEE
Confidence 99999999999999996 7999999999 999999999999999999999988888778888877 99
Q ss_pred EEEeCCEEecceeceEEEecHHHHHHhhHHccCcccccC--CCcc----ceEEEeeEEEecC
Q psy8848 404 YWIENGKIQYSVEEITISGKLQNMFKQIVAIGSDVLTRN--SNTS----GSILIENMIIAGK 459 (459)
Q Consensus 404 ~~IenGei~~pV~~~~isgn~~~~L~~I~~v~~d~~~~~--~~~~----P~i~v~~l~v~G~ 459 (459)
||||||||++||++++|+||++++|++|.+||+|+++.. ++.+ |+++|+++.|+|.
T Consensus 393 y~IenGei~~pv~~~~i~gn~~e~l~~I~~vg~d~~~~~~~g~~gk~g~P~i~v~~~~v~G~ 454 (454)
T COG0312 393 YLIENGEITYPVKGITLSGNLLELLKNIVAVGKDLELDEGRGFCGKVGGPSIRVRGVIVAGG 454 (454)
T ss_pred EEEECCEEcccccccEEEEeHHHHHhhchhccccceeccCCccccCCCCccEEEeeeEecCC
Confidence 999999999999999999999999999999999977643 3444 9999999999884
No 4
>PF01523 PmbA_TldD: Putative modulator of DNA gyrase; InterPro: IPR002510 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. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This group of peptidases belong to MEROPS peptidase family U62 (clan U-). The type example is microcin-processing peptidase 1 from Escherichia coli, which is the product of the gene PmbA. It has been suggests that the pmbA gene product acts to inhibit the interaction between the letD protein and the A subunit of DNA gyrase. The letA (ccdA) and letD (ccdB) genes of the F plasmid, located just outside the sequence essential for F-plasmid replication, contribute to stable maintenance of the plasmid in E. coli cells. The letD gene product acts to inhibit partitioning of chromosomal DNA and cell division by inhibiting DNA gyrase activity, whereas the letA gene product acts to reverse the inhibitory activity of the letD gene product []. It has also been proposed that PmbA facilitates the secretion of microcin B17 (MccB17) the by completing its maturation []. Microcin B17 (MccB17) is a peptide antibiotic produced by E. coli strains harbouring plasmid pMccB17. ; PDB: 1VPB_A 1VL4_A 3TV9_A 3QTD_B.
Probab=100.00 E-value=8.6e-50 Score=394.99 Aligned_cols=291 Identities=25% Similarity=0.340 Sum_probs=226.3
Q ss_pred CEEEEEEEEeeeEEEEEECCeeeEEEEecceeEEEEEEEeCCeeeEEEEEEeCCCCHHHHHHHHHHHHHHhhhcCCCCCC
Q psy8848 35 SHSSIEFNEGNGFSVFVRKGKIDVIEQNNDKNMNVIIYIQDGKKMFYGNSSTSDFCKKSLYDTINAAYNIARFTASDNFA 114 (459)
Q Consensus 35 ~~~ev~~~~~~~~~v~~~~~~i~~~~~~~~~gi~iRv~~~~gr~~~~G~ast~~l~~~~l~~~v~~A~~~a~~~~~d~~~ 114 (459)
|+|||++++.++.++++++|++++.....+.|++|||++ ||| +|+++++++++++|++++++|+++|+..++ ++.
T Consensus 1 D~aei~~~~~~~~~i~~~~~~i~~~~~~~~~g~~vrv~~-~gk---~g~~~~~~l~~~~l~~~i~~a~~~a~~~~~-~~~ 75 (293)
T PF01523_consen 1 DEAEIRVQRSESESIRFENGEIEQNSSSESSGIGVRVIK-DGK---WGFASTNDLDEEALERAIERALEAAKLSPE-EPE 75 (293)
T ss_dssp SEEEEEEEEEEEEEEEEETTEEEEEEEEEEEEEEEEEEE-TTE---EEEEEESS-SHHHHHHHHHHHHHHHTCS---TT-
T ss_pred CeEEEEEEEEEEEEEEEECCEEEEeeeeeeeeEEEEEEE-CCE---EEEEEcCCCCHHHHHHHHHHHHHHHhhcCc-ccc
Confidence 689999999999999999999999999999999999999 999 999999999999999999999999999887 445
Q ss_pred CCCCCCcccCCC-CCCccCCCCCCCHHHHHHHHHHHHHHHhcCCCCeeEecceEEEEEEEEEEEEecCCcceeeeeeEEE
Q psy8848 115 GLPDENTLEMNP-LDFKLYTPWFLSIDDAKLIAYRCENEAFNFNSLIVNNENTGVTTQQSHFLLANSHGFMSGYPFSKHI 193 (459)
Q Consensus 115 ~l~~~~~~~~~~-~~~~~~~~~~~~~ee~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~nS~G~~~~~~~~~~~ 193 (459)
.+|++.+..... .+....++..+++++++++++++++.+++.++.++.. +.|.....++.++||+|..+++..+++.
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~nS~G~~~~~~~~~~~ 153 (293)
T PF01523_consen 76 ELPDPSPEEPEKIFDPEDAEFDSISPEEKIELLKELEEAARESDPRIISV--GSYSDGREEKAIANSEGTDVSQERTRFS 153 (293)
T ss_dssp SS--GGGB-SS--S-TTGGGS----HHHHHHHHHHHHHHHHHSTTTEEEE--EEEEEEEEEEEEEETTTEEEEEEEEEEE
T ss_pred cCCCccccccccccccccCCcccCCHHHHHHHHHHHHHHHhhcCCceEEE--EEEEEEEEEEEEECCCCCeeEEEEeeEe
Confidence 577655432110 1111122345699999999999999999888877665 8899999999999999999999999999
Q ss_pred EEEEEEEEeCCceeeeeeeccCCCCCCCCChhhHHHHHHHHHHHHcCCCCCCCceEeEEecchhHHHHHHHHHh-ccccc
Q psy8848 194 ISISPIAIKGKEMQRDNWYSSNSDPKKLDQPEIIGFYAAKRTISRLKAKKISTRKCPVLFEAPLAFELLNIFAR-LISGN 272 (459)
Q Consensus 194 ~~~~~~a~~g~~~~~~~~~~~~~~~~~l~~~~~~~~~a~~~a~~~l~a~~~~~g~y~Vvl~p~a~~~ll~~~~~-~l~~~ 272 (459)
+++.+.+++|+...++|++.+...+.+..+++.+++++++++...++++++++|+|||||+|.++++|+|++++ .|+|+
T Consensus 154 ~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~g~y~Vil~p~a~~~ll~~~~~~~~~a~ 233 (293)
T PF01523_consen 154 LSVSVFAEDGGEVESGYGYGGASRRLSDLDPEELAREAAERALASLGAKPIPSGKYPVILSPEAAGELLHEAFGHAFEAD 233 (293)
T ss_dssp EEEEEEEESTTEEEEEEEEEEESSGGGCS-HHHHHHHHHHHHHHTTT-B---SEEEEEEE-HHHHHHHHHHHHHHHTBHH
T ss_pred EEEEEEEecCCeEEEEeccccccccccccCHHHHHHHHHHHHHHHhCCCcCCCCeEEEEECcHHHHHHHHHHhhhhccCc
Confidence 99999999887777664444333443333689999999999999999999999999999999999999998775 69999
Q ss_pred ccccccCccccCCCCeecCCCceEEeCCCCCCCCcccccCCcCccccceeEEeCcEEccc
Q psy8848 273 SLYRKSTFLVDSLGKKIFSSHIQIIEDPHILGSFGSSSFDNEGVKTQKRLVVKNGIIQGY 332 (459)
Q Consensus 273 ~~~~g~S~l~~klG~~vas~~ltl~Ddp~~~~~~gs~~fDdEGv~t~~~~LIe~Gvl~~~ 332 (459)
++++|.|+|++|+|++|+||.|||+|||++|+++++++|||||+|+++++|||||||++|
T Consensus 234 ~v~~g~S~l~~klG~~v~s~~ltl~Ddp~~~~~~~s~~fDdEG~~~~~~~LIe~GvLk~f 293 (293)
T PF01523_consen 234 SVYKGRSPLAGKLGEKVASELLTLIDDPTLPGGPGSRPFDDEGVPTQRTTLIENGVLKNF 293 (293)
T ss_dssp HHHTT--TTTT-TTSB-S-TT--EEEETT-TT-TT--SB-TTSBB---EEEEETTEE---
T ss_pred hhhcCCchhhccCCCEEecCceEEEEcCCCCCCCcCCCCCCCCCcCcceEEEECCEEeCC
Confidence 999999999999999999999999999999999999999999999999999999999997
No 5
>TIGR03884 sel_bind_Methan selenium-binding protein. This model describes a homopentameric selenium-binding protein with a suggested role in selenium transport and delivery to selenophosphate synthase, the SelD protein. This protein family is closely related to pfam01906, but is shorter because of several deleted regions. It is restricted to the archaeal genus Methanococcus.
Probab=28.68 E-value=2.8e+02 Score=21.51 Aligned_cols=48 Identities=13% Similarity=0.086 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHHcCCCEEEEEEEEeeeEEEEEECCeeeEEEEecceeEEEEEEEeCCe
Q psy8848 16 SEFQQLAQDMLNYAKKIGASHSSIEFNEGNGFSVFVRKGKIDVIEQNNDKNMNVIIYIQDGK 77 (459)
Q Consensus 16 ~~~~~~~~~~l~~a~~~g~~~~ev~~~~~~~~~v~~~~~~i~~~~~~~~~gi~iRv~~~~gr 77 (459)
+++.+.++++.+.|+++|++ |-|-+.-..+ .+ .---.|..|++.. +..
T Consensus 25 ~d~d~Al~eM~e~A~~lGAn-AVVGvr~d~s------~~------eV~ayGTAV~~~~-~q~ 72 (74)
T TIGR03884 25 DNVDEIVENLREKVKAKGGM-GLIAFRITCA------DG------KFLGYGTAVKADE-GQF 72 (74)
T ss_pred CCHHHHHHHHHHHHHHcCCC-EEEEEEEEcC------CC------EEEEEEEEEEEEc-ceE
Confidence 37788999999999999987 3333322222 22 2345677888877 653
No 6
>KOG2792|consensus
Probab=23.49 E-value=1.7e+02 Score=28.49 Aligned_cols=60 Identities=17% Similarity=0.194 Sum_probs=34.4
Q ss_pred EEEEEEeCCCCHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCcccCCCCCCccCCCCCCCHHHHHHHHHHHHHH
Q psy8848 80 FYGNSSTSDFCKKSLYDTINAAYNIARFTASDNFAGLPDENTLEMNPLDFKLYTPWFLSIDDAKLIAYRCENE 152 (459)
Q Consensus 80 ~~G~ast~~l~~~~l~~~v~~A~~~a~~~~~d~~~~l~~~~~~~~~~~~~~~~~~~~~~~ee~~~~~~~~~~~ 152 (459)
|.||+.+.++.+++|++++. ++......+ +++. +|-.-..||.-=+++.+.+.+.+..-.
T Consensus 145 YFGFThCPDICPdELeKm~~-~Vd~i~~~~-----~~~~-------~PlFIsvDPeRD~~~~~~eY~~eF~pk 204 (280)
T KOG2792|consen 145 YFGFTHCPDICPDELEKMSA-VVDEIEAKP-----GLPP-------VPLFISVDPERDSVEVVAEYVSEFHPK 204 (280)
T ss_pred EecccCCCCcChHHHHHHHH-HHHHHhccC-----CCCc-------cceEEEeCcccCCHHHHHHHHHhcChh
Confidence 36889999999999998754 333322211 1221 111223556544567777777665443
No 7
>PF07311 Dodecin: Dodecin; InterPro: IPR009923 This entry represents proteins with a Dodecin-like topology. Dodecin flavoprotein is a small dodecameric flavin-binding protein from Halobacterium salinarium (Halobacterium halobium) that contains two flavins stacked in a single binding pocket between two tryptophan residues to form an aromatic tetrade []. Dodecin binds riboflavin, although it appears to have a broad specificity for flavins. Lumichrome, a molecule associated with flavin metabolism, appears to be a ligand of dodecin, which could act as a waste-trapping device. ; PDB: 2VYX_L 2DEG_F 2V18_K 2V19_D 2UX9_B 2CZ8_E 2V21_F 2CC8_A 2CCB_A 2VX9_A ....
Probab=21.56 E-value=3.7e+02 Score=20.37 Aligned_cols=50 Identities=22% Similarity=0.207 Sum_probs=36.2
Q ss_pred CHHHHHHHHHHHHHHHHHcCCCEEEEEEEEeeeEEEEEECCeeeEEEEeccee
Q psy8848 14 SKSEFQQLAQDMLNYAKKIGASHSSIEFNEGNGFSVFVRKGKIDVIEQNNDKN 66 (459)
Q Consensus 14 ~~~~~~~~~~~~l~~a~~~g~~~~ev~~~~~~~~~v~~~~~~i~~~~~~~~~g 66 (459)
|+.-+++.++.+++.|.+- .+ .|..-........+.+|++..++..-.-+
T Consensus 12 S~~S~edAv~~Av~~A~kT-l~--ni~~~eV~e~~~~v~dg~i~~y~v~lkv~ 61 (66)
T PF07311_consen 12 SPKSWEDAVQNAVARASKT-LR--NIRWFEVKEQRGHVEDGKITEYQVNLKVS 61 (66)
T ss_dssp ESSHHHHHHHHHHHHHHHH-SS--SEEEEEEEEEEEEEETTCEEEEEEEEEEE
T ss_pred CCCCHHHHHHHHHHHHhhc-hh--CcEEEEEEEEEEEEeCCcEEEEEEEEEEE
Confidence 5567888999999998875 33 45555566778889999998876554433
No 8
>COG4815 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=16.53 E-value=92 Score=26.75 Aligned_cols=43 Identities=16% Similarity=0.437 Sum_probs=33.7
Q ss_pred cccccCCcCccccceeEEeCcEEcccc-cChHHHHHcCC-CCCcC
Q psy8848 307 GSSSFDNEGVKTQKRLVVKNGIIQGYF-LSTYSAKKLGM-KTTGN 349 (459)
Q Consensus 307 gs~~fDdEGv~t~~~~LIe~Gvl~~~l-~d~~~A~~~g~-~~TGn 349 (459)
-..|||++|....-..+|-|+++.+++ ..|..-...|+ .++++
T Consensus 66 ~n~Pfs~~~~a~~LlI~V~de~~~G~F~Fpre~L~ekGI~ts~~~ 110 (145)
T COG4815 66 QNQPFSDDGMAAGLLIFVIDEVLRGVFRFPREHLAEKGITTSDGQ 110 (145)
T ss_pred CcCCCCcccccCeeEEEEEccccceEEEecHHHHHHhCeeeccCC
Confidence 358999999999999999999999865 56666666775 34453
No 9
>PF07338 DUF1471: Protein of unknown function (DUF1471); InterPro: IPR010854 This entry consists of several hypothetical Enterobacterial proteins of around 90 residues in length. Some of the proteins are annotated as ydgH precursors and contain two copies of this region, one at the N terminus and the other at the C terminus. The function of this family is unknown.; PDB: 2NOC_A 2JNA_B 4EVU_B.
Probab=16.37 E-value=3.9e+02 Score=19.30 Aligned_cols=27 Identities=15% Similarity=0.070 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHcCCCEEEEEEEEe
Q psy8848 18 FQQLAQDMLNYAKKIGASHSSIEFNEG 44 (459)
Q Consensus 18 ~~~~~~~~l~~a~~~g~~~~ev~~~~~ 44 (459)
+.++.+.|-++|.++|+.++-|.....
T Consensus 17 ~~d~~~~la~kAd~~GA~~y~I~~~~~ 43 (56)
T PF07338_consen 17 PDDAEEALAKKADEKGAKYYRITSASE 43 (56)
T ss_dssp HHHHHHHHHHHHHHTT-SEEEEEEEEE
T ss_pred HHHHHHHHHHHHHHcCCCEEEEEEEEc
Confidence 455788889999999999888776665
No 10
>TIGR01431 adm_rel adenosine deaminase-related growth factor. Members of this family have been described as secreted proteins with growth factor activity and regions of adenosine deaminase homology in insects, mollusks, and vertebrates.
Probab=15.86 E-value=65 Score=34.34 Aligned_cols=83 Identities=8% Similarity=0.031 Sum_probs=54.5
Q ss_pred cccCHHHHHHHHHHHHHHHHHcCCCEEEEEEEEeeeEEEEEECCe--------------eeEEEEecceeEEEEEEEeCC
Q psy8848 11 FIYSKSEFQQLAQDMLNYAKKIGASHSSIEFNEGNGFSVFVRKGK--------------IDVIEQNNDKNMNVIIYIQDG 76 (459)
Q Consensus 11 ~~~~~~~~~~~~~~~l~~a~~~g~~~~ev~~~~~~~~~v~~~~~~--------------i~~~~~~~~~gi~iRv~~~~g 76 (459)
+..++..+++.+.++++.+.+.|+.|+|++..-... ...+|. ++..+.....++++|++.
T Consensus 188 ll~y~p~~~~~~~~~l~d~~~DgV~Y~ElR~~p~~~---~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~fi~~rlI~--- 261 (479)
T TIGR01431 188 LLFYAPSWRDYYYRALEEFYADNVQYLELRSTLFIL---YELEGTSHDEEDSVRIYKEVTEKFMAEHPDFIGSKLIY--- 261 (479)
T ss_pred HHcCHHHHHHHHHHHHHHHHHcCCEEEEEEecCchH---hhcCCCCCCHHHHHHHHHHHHHHHHHhCCCCeEEEEEE---
Confidence 467788999999999999999999999999984211 011121 122222222257888877
Q ss_pred eeeEEEEEEeCCCCHHHHHHHHHHHHHHhh
Q psy8848 77 KKMFYGNSSTSDFCKKSLYDTINAAYNIAR 106 (459)
Q Consensus 77 r~~~~G~ast~~l~~~~l~~~v~~A~~~a~ 106 (459)
+..-..+++.+.+.++.|.+..+
T Consensus 262 -------~~~R~~~~~~~~~~~~~a~~~k~ 284 (479)
T TIGR01431 262 -------SPLRNKDKEELDNYIKVAMELKE 284 (479)
T ss_pred -------EccCCCCHHHHHHHHHHHHHHHh
Confidence 22223567888888888887543
Done!