Query psy8083
Match_columns 303
No_of_seqs 91 out of 112
Neff 4.1
Searched_HMMs 46136
Date Fri Aug 16 17:57:50 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8083.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8083hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3811|consensus 100.0 2.1E-87 4.5E-92 649.6 20.0 215 51-265 200-414 (434)
2 PF03299 TF_AP-2: Transcriptio 100.0 2.2E-82 4.8E-87 572.9 21.0 209 53-261 1-209 (209)
3 COG2405 Predicted nucleic acid 37.5 14 0.00029 33.2 0.6 32 140-171 76-109 (157)
4 PF12949 HeH: HeH/LEM domain; 36.3 15 0.00032 25.2 0.5 23 108-130 6-28 (35)
5 COG3851 UhpB Signal transducti 34.0 1.9E+02 0.0042 30.0 8.0 154 134-297 294-461 (497)
6 PF02509 Rota_NS35: Rotavirus 30.5 17 0.00037 35.6 0.0 14 222-235 212-225 (316)
7 KOG1194|consensus 30.1 52 0.0011 34.5 3.4 84 84-168 133-226 (534)
8 KOG4612|consensus 29.3 34 0.00074 28.7 1.6 23 95-117 76-98 (105)
9 TIGR02698 CopY_TcrY copper tra 29.3 3.2E+02 0.007 23.0 7.6 87 75-178 19-107 (130)
10 KOG4257|consensus 28.0 1.6E+02 0.0035 32.7 6.6 84 104-204 874-960 (974)
11 PHA00666 putative protease 24.6 6.4E+02 0.014 24.3 9.4 37 220-261 171-215 (233)
12 PF09141 Talin_middle: Talin, 24.4 67 0.0015 29.0 2.7 27 180-207 113-139 (161)
13 TIGR01630 psiM2_ORF9 phage unc 22.9 38 0.00082 28.2 0.8 69 78-148 20-104 (142)
14 PF02877 PARP_reg: Poly(ADP-ri 22.8 1.5E+02 0.0032 25.2 4.3 43 183-235 43-85 (133)
15 TIGR03190 benz_CoA_bzdN benzoy 21.5 5.9E+02 0.013 25.1 8.9 54 140-208 137-190 (377)
16 PF03623 Focal_AT: Focal adhes 21.3 5E+02 0.011 23.0 7.4 79 104-199 41-122 (139)
17 PF03965 Penicillinase_R: Peni 20.8 3.1E+02 0.0068 22.1 5.8 88 75-179 18-107 (115)
18 PF15043 CNRIP1: CB1 cannabino 20.3 67 0.0015 29.1 1.8 32 47-78 14-51 (161)
No 1
>KOG3811|consensus
Probab=100.00 E-value=2.1e-87 Score=649.61 Aligned_cols=215 Identities=73% Similarity=1.092 Sum_probs=210.9
Q ss_pred CCCCCceeeccCcccccCCCcceeEecchhhhhcCCCcccchhhhhhhhhhcccccchHHHHHHHHHcCCcCCccccccc
Q psy8083 51 SAPSDVFCSVPGRLSLLSSTSKYKVTVGEVQRRLSPPECLNASLLGGVLRRAKSKNGGRLLREKLEKIGLNLPAGRRKAA 130 (303)
Q Consensus 51 ~~~~~vFc~V~GRLsllss~skYkVTV~EIrRRls~PE~LNaS~Lg~~LRRaKsKnGG~~LRe~Lek~Gl~LpagRRKaa 130 (303)
++|++|||+||||||++|+++||+|||+|||||+++|||||+|+|||+|||||+||||+.||++|++|||+||+||||+|
T Consensus 200 v~~~eVfc~VpGRLSllsstSKYkVTVaEvqRRlspPEcLNaSlLggvLRRaKsKnGGr~lRe~L~k~GlnlpagrRkaA 279 (434)
T KOG3811|consen 200 VNPNEVFCVVPGRLSLLSSTSKYKVTVAEVQRRLSPPECLNASLLGGVLRRAKSKNGGRLLREKLTKIGLNLPAGRRKAA 279 (434)
T ss_pred CCCCeeEEeecCcccccccccceeeEHHHHHhhcCChhhhhhHhhhhhhhhhhhcchHHHHHHHHHHcCCCCcccchhhc
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccchhhcHHHHHHHHHHHHHHHhhcCChHHHHHHHHHhhcCChhhhHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCC
Q psy8083 131 NVTLLTSLVEGEAIHLARDFGYVCETEFPARQVAEYLSRQHTSDPTESYRRKELIHATKQVTKELMDLLNQDRSPLCNTR 210 (303)
Q Consensus 131 ~vT~~TsLvEgEAvhLArDf~~lce~eFP~k~lAe~l~r~~~~~p~e~~~r~~~l~aakqi~~e~~dlL~q~rsPl~~~r 210 (303)
+||+||+||||||+||||||+++||++||+++||+||+|+|+.+.+++..|++||++|+|+|+||+++|+|||+|++++|
T Consensus 280 nVT~ltsLVE~EAvHLArDf~~vcE~efP~~~Iae~l~r~~l~~~~~~~~rk~ml~~t~q~~ke~~~lLsqdRtP~~~~r 359 (434)
T KOG3811|consen 280 NVTLLTSLVEEEAVHLARDFGYVCETEFPARAIAEELLRKHLAPENDLDDRKNMLLATTQICKELTDLLSQDRTPLTTSR 359 (434)
T ss_pred cchhhhHHHHHHHHHHHHhhhhhhhhhccHHHHHHHHHHHhhcCchhHHHHHHHHHHHHHHHHHHHHHHhcccCCCCCCC
Confidence 99999999999999999999999999999999999999999777799999999999999999999999999999999999
Q ss_pred CCCCCChhhhhhhhhhhhcccCCChHHHHHHHHHHHHHHHHHHHHHhhhCCCCCC
Q psy8083 211 PQHILDPSIQRHLTHFSLISHGFGSPAIVAALTAIQNFLTESLKHLDKMYPSGNS 265 (303)
Q Consensus 211 P~~ile~~iq~~L~~FSliTHGFG~pai~aalt~~q~~L~e~lk~l~k~~~~~~~ 265 (303)
|++++|++||++|+||||||||||+||+|||+++||+||+|++++|||||.+++.
T Consensus 360 p~pll~~~lq~~lthFSLiTHGFG~pa~~a~l~s~q~il~eal~~leK~~~~~~~ 414 (434)
T KOG3811|consen 360 PEPLLEPSLQNHLTHFSLITHGFGSPAICAALRSLQNILNEALKYLEKLTEGNTL 414 (434)
T ss_pred cccccCchhhhhhhhhhhhhccCCcHHHHHHHHHHHHHHHHHHHHHHHHccCCCC
Confidence 9999999999999999999999999999999999999999999999999997654
No 2
>PF03299 TF_AP-2: Transcription factor AP-2; InterPro: IPR013854 Activator protein-2 (AP-2) transcription factors constitute a family of closely related and evolutionarily conserved proteins that bind to the DNA consensus sequence GCCNNNGGC and stimulate target gene transcription [, ]. Four different isoforms of AP-2 have been identified in mammals, termed AP-2 alpha, beta, gamma and delta. Each family member shares a common structure, possessing a proline/glutamine-rich domain in the N-terminal region, which is responsible for transcriptional activation [], and a helix-span-helix domain in the C-terminal region, which mediates dimerisation and site-specific DNA binding []. The AP-2 family have been shown to be critical regulators of gene expression during embryogenesis. They regulate the development of facial prominence and limb buds, and are essential for cranial closure and development of the lens []; they have also been implicated in tumourigenesis. AP-2 protein expression levels have been found to affect cell transformation, tumour growth and metastasis, and may predict survival in some types of cancer [, ] This entry represents the C-terminal region of these proteins, including the helix-span-helix domain.
Probab=100.00 E-value=2.2e-82 Score=572.93 Aligned_cols=209 Identities=74% Similarity=1.110 Sum_probs=204.5
Q ss_pred CCCceeeccCcccccCCCcceeEecchhhhhcCCCcccchhhhhhhhhhcccccchHHHHHHHHHcCCcCCccccccccc
Q psy8083 53 PSDVFCSVPGRLSLLSSTSKYKVTVGEVQRRLSPPECLNASLLGGVLRRAKSKNGGRLLREKLEKIGLNLPAGRRKAANV 132 (303)
Q Consensus 53 ~~~vFc~V~GRLsllss~skYkVTV~EIrRRls~PE~LNaS~Lg~~LRRaKsKnGG~~LRe~Lek~Gl~LpagRRKaa~v 132 (303)
|+||||+||||||++++++||+|||+|||||+++|||||+|+||++|||||+||||++||++|+++||+||+||||++++
T Consensus 1 ~~~vF~~V~GRLsl~~s~~kY~VTv~Ei~RR~~~PE~ln~S~lg~~LRraK~k~~g~~lr~~L~~~gi~l~~~rrk~~~~ 80 (209)
T PF03299_consen 1 PNEVFCSVPGRLSLLSSTSKYKVTVGEIRRRLSPPECLNASLLGGVLRRAKSKNGGRSLREKLEKHGINLPAGRRKAANV 80 (209)
T ss_pred CCceeEecCCcccccCCCceeeeeHHHHHHHhcCCccccHHHHHHHHHHhcccchHHHHHHHHHHcCCCCcccccccccc
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccchhhcHHHHHHHHHHHHHHHhhcCChHHHHHHHHHhhcCChhhhHHHHHHHHHHHHHHHHHHHHhhccCCCCCCCCCC
Q psy8083 133 TLLTSLVEGEAIHLARDFGYVCETEFPARQVAEYLSRQHTSDPTESYRRKELIHATKQVTKELMDLLNQDRSPLCNTRPQ 212 (303)
Q Consensus 133 T~~TsLvEgEAvhLArDf~~lce~eFP~k~lAe~l~r~~~~~p~e~~~r~~~l~aakqi~~e~~dlL~q~rsPl~~~rP~ 212 (303)
|+||+||||||+|||+||+++|+++||+++||+++++++..+.++++.|+.|+.+|+++|++|+|+|++|++|+++.+|+
T Consensus 81 t~~tsL~EgEAvhLA~D~~~~~~~~fP~~~lA~~l~~~~~~~~~~~~~~~~~~~~a~~~~~~l~~~l~~~~~pl~~~~p~ 160 (209)
T PF03299_consen 81 TLFTSLVEGEAVHLARDFGYLCETEFPAKALAEYLVRQHLDPGNEVVIRKNMLLAAFQICKELSDLLSQDRPPLGGRRPK 160 (209)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHHHHHHHcCcCCCcCCCCCC
Confidence 99999999999999999999999999999999999999954438999999999999999999999999999999999999
Q ss_pred CCCChhhhhhhhhhhhcccCCChHHHHHHHHHHHHHHHHHHHHHhhhCC
Q psy8083 213 HILDPSIQRHLTHFSLISHGFGSPAIVAALTAIQNFLTESLKHLDKMYP 261 (303)
Q Consensus 213 ~ile~~iq~~L~~FSliTHGFG~pai~aalt~~q~~L~e~lk~l~k~~~ 261 (303)
+++|+++|++|+|||++|||||+|++++|+++||+|++++++++||||.
T Consensus 161 ~~~e~~l~~~l~~FSl~THGFG~~a~~a~l~~~~~il~e~~~~~~k~~~ 209 (209)
T PF03299_consen 161 PSLEPSLQSCLEHFSLITHGFGHPAICAWLTAFQNILEEALKILDKMYM 209 (209)
T ss_pred CCcchhHHHHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 9999999999999999999999999999999999999999999999984
No 3
>COG2405 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]
Probab=37.54 E-value=14 Score=33.23 Aligned_cols=32 Identities=34% Similarity=0.320 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHH--HHhhcCChHHHHHHHHHhh
Q psy8083 140 EGEAIHLARDFGY--VCETEFPARQVAEYLSRQH 171 (303)
Q Consensus 140 EgEAvhLArDf~~--lce~eFP~k~lAe~l~r~~ 171 (303)
|+||+.||.+... +...++-++.+|..+.-+.
T Consensus 76 Ea~aIALA~e~~ad~Ll~Ddr~aR~~A~~lgL~V 109 (157)
T COG2405 76 EAEAIALALELKADLLLMDDRDARNVAKSLGLKV 109 (157)
T ss_pred hHHHHHHHHHcCCCeeeeccHHHHHHHHHcCCee
Confidence 8899999998875 7788999999998886554
No 4
>PF12949 HeH: HeH/LEM domain; PDB: 2OUT_A.
Probab=36.34 E-value=15 Score=25.24 Aligned_cols=23 Identities=26% Similarity=0.498 Sum_probs=15.4
Q ss_pred hHHHHHHHHHcCCcCCccccccc
Q psy8083 108 GRLLREKLEKIGLNLPAGRRKAA 130 (303)
Q Consensus 108 G~~LRe~Lek~Gl~LpagRRKaa 130 (303)
-..||..|.++||..|.+-+|+.
T Consensus 6 V~~Lk~iL~~~~I~~ps~AkKae 28 (35)
T PF12949_consen 6 VAQLKRILDEHGIEFPSNAKKAE 28 (35)
T ss_dssp SHHHHHHHHHHT---SSS--SHH
T ss_pred HHHHHHHHHHcCCCCCCCCCHHH
Confidence 46799999999999999988864
No 5
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=34.00 E-value=1.9e+02 Score=30.01 Aligned_cols=154 Identities=18% Similarity=0.180 Sum_probs=94.7
Q ss_pred cchhhcHHHHHHHHHHHHHHHhhcCChHHHHHHHHHhhcCChhhhHHHHHHHHH-HHHHHHHHHHHhhccCCCCCCCCCC
Q psy8083 134 LLTSLVEGEAIHLARDFGYVCETEFPARQVAEYLSRQHTSDPTESYRRKELIHA-TKQVTKELMDLLNQDRSPLCNTRPQ 212 (303)
Q Consensus 134 ~~TsLvEgEAvhLArDf~~lce~eFP~k~lAe~l~r~~~~~p~e~~~r~~~l~a-akqi~~e~~dlL~q~rsPl~~~rP~ 212 (303)
.+.+--|.=-..+||.+-+-...+.-+-.+-..+++.. .|+....+-.++++. +..|-++.+.+|++.|+|.-.-
T Consensus 294 qListEEsiRk~vARELHDeIGQnITAIr~Qa~ivkR~-~~~~q~kqaas~Ie~LslrI~~svrqLL~rLRP~~LDd--- 369 (497)
T COG3851 294 QLISTEESIRKDVARELHDEIGQNITAIRTQAGIVKRA-ADNAQVKQAASLIEQLSLRIYDSVRQLLGRLRPRQLDD--- 369 (497)
T ss_pred HHHhhHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-cCCHhHHhHHHHHHHHHHHHHHHHHHHHHhcCCccccc---
Confidence 34443444445688888777777777766655555544 566666666788877 7788889999999988775431
Q ss_pred CCCChhhhhhhhhhhhcccCCCh------H-------HHHHHHHHHHHHHHHHHHHHhhhCCCCCCCCCCCcCCccCCCC
Q psy8083 213 HILDPSIQRHLTHFSLISHGFGS------P-------AIVAALTAIQNFLTESLKHLDKMYPSGNSLSVSSSQGLQDTKP 279 (303)
Q Consensus 213 ~ile~~iq~~L~~FSliTHGFG~------p-------ai~aalt~~q~~L~e~lk~l~k~~~~~~~~~~~~~~~~~~~~~ 279 (303)
--++..|++-+.+|.+.--|.-. . .=++-+...|+.|+...|.-|...-.-... .+..- --
T Consensus 370 L~l~qai~~l~~Em~~~ergihcq~~~~~n~~~ldet~rvTLyRl~QE~LNNI~KHA~AS~V~i~l~--~~~e~----l~ 443 (497)
T COG3851 370 LTLEQAIRSLLREMELEERGIHCQLDWRINETALDETQRVTLYRLCQELLNNICKHADASAVTIQLW--QQDER----LM 443 (497)
T ss_pred ccHHHHHHHHHHHhhhhhcCeEEEeccccCcccCCcceeEeHHHHHHHHHHHHHhccccceEEEEEe--eCCcE----EE
Confidence 22567888999999887776432 1 124556777888888888765422110000 01110 11
Q ss_pred CccCCCCCCccccCCCCC
Q psy8083 280 KDLGNDLKNIWPCQGHAG 297 (303)
Q Consensus 280 ~~~~~~~~~~~~~~~~~~ 297 (303)
...+.||+|+-+-+|-+|
T Consensus 444 Lei~DdG~Gl~~~~~v~G 461 (497)
T COG3851 444 LEIEDDGSGLPPGSGVQG 461 (497)
T ss_pred EEEecCCcCCCCCCCccC
Confidence 234567888766655554
No 6
>PF02509 Rota_NS35: Rotavirus non-structural protein 35; InterPro: IPR003668 Rotavirus non-structural protein 2 (NSP2) is a basic protein which possesses RNA-binding activity and is essential for genome replication []. It may also be important for viral RNA packaging.; GO: 0003723 RNA binding, 0019079 viral genome replication; PDB: 2GU0_B 2R8F_A 2R7P_A 2R7C_A 1L9V_A 2R7J_A.
Probab=30.52 E-value=17 Score=35.59 Aligned_cols=14 Identities=36% Similarity=0.795 Sum_probs=12.5
Q ss_pred hhhhhhhcccCCCh
Q psy8083 222 HLTHFSLISHGFGS 235 (303)
Q Consensus 222 ~L~~FSliTHGFG~ 235 (303)
.+-+|.-||||+|+
T Consensus 212 qyNkFAvItHGkgH 225 (316)
T PF02509_consen 212 QYNKFAVITHGKGH 225 (316)
T ss_dssp HTTTEEEEESSSSC
T ss_pred hhcceEEEeccCce
Confidence 36789999999999
No 7
>KOG1194|consensus
Probab=30.06 E-value=52 Score=34.47 Aligned_cols=84 Identities=21% Similarity=0.234 Sum_probs=65.8
Q ss_pred cCCCcccchhhhhhhhhhcccccchHHHHHH--HHHcCCcCCcccccccccc----cch----hhcHHHHHHHHHHHHHH
Q psy8083 84 LSPPECLNASLLGGVLRRAKSKNGGRLLREK--LEKIGLNLPAGRRKAANVT----LLT----SLVEGEAIHLARDFGYV 153 (303)
Q Consensus 84 ls~PE~LNaS~Lg~~LRRaKsKnGG~~LRe~--Lek~Gl~LpagRRKaa~vT----~~T----sLvEgEAvhLArDf~~l 153 (303)
+++|+-++---|--|++-||.|.|...=|.. |..|+.+++.--+..++-| .|| .|+|-==.+..+||..|
T Consensus 133 Wsp~~~i~D~kL~EYI~~A~~rY~i~ieqAL~iL~~h~~d~d~A~~~l~rr~~~~d~WT~Ed~vlFe~aF~~~GK~F~kI 212 (534)
T KOG1194|consen 133 WSPPLEIQDDKLEEYISEAKERYGIPIEQALFILFWHKHDFDLAHADLARRTEFPDEWTAEDIVLFEQAFQFFGKDFHKI 212 (534)
T ss_pred ecCcccCcHHHHHHHHHHHHHhcCCcHHHHHHHHHhhcccchHHHHHHhhcCCCcccchHHHHHHHHHHHHHhcccHHHH
Confidence 6889999988999999999999999887765 7789999887544444433 333 46666666899999998
Q ss_pred HhhcCChHHHHHHHH
Q psy8083 154 CETEFPARQVAEYLS 168 (303)
Q Consensus 154 ce~eFP~k~lAe~l~ 168 (303)
...+|.+.||..+.
T Consensus 213 -rq~LP~rsLaSlvq 226 (534)
T KOG1194|consen 213 -RQALPHRSLASLVQ 226 (534)
T ss_pred -HHHccCccHHHHHH
Confidence 57899999988763
No 8
>KOG4612|consensus
Probab=29.30 E-value=34 Score=28.65 Aligned_cols=23 Identities=43% Similarity=0.618 Sum_probs=18.9
Q ss_pred hhhhhhhcccccchHHHHHHHHH
Q psy8083 95 LGGVLRRAKSKNGGRLLREKLEK 117 (303)
Q Consensus 95 Lg~~LRRaKsKnGG~~LRe~Lek 117 (303)
=-++|+|+|||+|-+.|++.--|
T Consensus 76 khGfl~R~~s~~G~~vl~rR~lK 98 (105)
T KOG4612|consen 76 KHGFLARAKSKQGSKVLKRRKLK 98 (105)
T ss_pred hhhhhhhhcccchhHHHHHHHhc
Confidence 35799999999999999876543
No 9
>TIGR02698 CopY_TcrY copper transport repressor, CopY/TcrY family. This family includes metal-fist type transcriptional repressors of copper transport systems such as copYZAB of Enterococcus hirae and tcrYAZB (transferble copper resistance) of an Enterocuccus faecium plasmid. High levels of copper can displace zinc and prevent binding by the repressor, activating efflux by copper resistance transporters. The most closely related proteins excluded by this model are antibiotic resistance regulators including the methicillin resistance regulatory protein MecI.
Probab=29.25 E-value=3.2e+02 Score=23.02 Aligned_cols=87 Identities=16% Similarity=0.127 Sum_probs=47.2
Q ss_pred EecchhhhhcCCCcccchhhhhhhhhhcccccchHHHHHHHHHcCCcCCcccccccccccchhhcHHHHH--HHHHHHHH
Q psy8083 75 VTVGEVQRRLSPPECLNASLLGGVLRRAKSKNGGRLLREKLEKIGLNLPAGRRKAANVTLLTSLVEGEAI--HLARDFGY 152 (303)
Q Consensus 75 VTV~EIrRRls~PE~LNaS~Lg~~LRRaKsKnGG~~LRe~Lek~Gl~LpagRRKaa~vT~~TsLvEgEAv--hLArDf~~ 152 (303)
+|+.||...+..+ +.-+++...++-.+|.++|+- .|+|..+...+++++..|.. ..++||-.
T Consensus 19 ~t~~eI~~~l~~~-------------~~~~~tTv~T~L~rL~~KG~v---~~~k~gr~~~Y~p~vs~ee~~~~~~~~~~~ 82 (130)
T TIGR02698 19 TTSRDIIRILAEK-------------KDWSDSTIKTLLGRLVDKGCL---TTEKEGRKFIYTALVSEDEAVENAAQELFS 82 (130)
T ss_pred CCHHHHHHHHhhc-------------cCCcHHHHHHHHHHHHHCCce---eeecCCCcEEEEecCCHHHHHHHHHHHHHH
Confidence 4667776665432 122345666667778888874 33333444567776654443 34566654
Q ss_pred HHhhcCChHHHHHHHHHhhcCChhhh
Q psy8083 153 VCETEFPARQVAEYLSRQHTSDPTES 178 (303)
Q Consensus 153 lce~eFP~k~lAe~l~r~~~~~p~e~ 178 (303)
-.-...+...|+..+-.+. .++.++
T Consensus 83 ~~f~gs~~~ll~~l~~~~~-ls~eel 107 (130)
T TIGR02698 83 RICSRKVGAVIADLIEESP-LSQTDI 107 (130)
T ss_pred HHHCCCHHHHHHHHHhcCC-CCHHHH
Confidence 3334455555666654333 444444
No 10
>KOG4257|consensus
Probab=27.99 E-value=1.6e+02 Score=32.73 Aligned_cols=84 Identities=21% Similarity=0.241 Sum_probs=56.1
Q ss_pred cccchHHHHHHHH---HcCCcCCcccccccccccchhhcHHHHHHHHHHHHHHHhhcCChHHHHHHHHHhhcCChhhhHH
Q psy8083 104 SKNGGRLLREKLE---KIGLNLPAGRRKAANVTLLTSLVEGEAIHLARDFGYVCETEFPARQVAEYLSRQHTSDPTESYR 180 (303)
Q Consensus 104 sKnGG~~LRe~Le---k~Gl~LpagRRKaa~vT~~TsLvEgEAvhLArDf~~lce~eFP~k~lAe~l~r~~~~~p~e~~~ 180 (303)
+||=|-.||+.|- +.-..+|+..++. +|+--.-|++|+.++.. .-.+|+.=..+. -..+.
T Consensus 874 VKeVgl~LR~ll~svd~~~~~lpast~te---------vemtqkllnkDm~elin----kMrlaQq~~~ts----l~~e~ 936 (974)
T KOG4257|consen 874 VKEVGLQLRELLISVDGMRPRLPASTQTE---------VEMTQKLLNKDMKELIN----KMRLAQQNGHTS----LYNEY 936 (974)
T ss_pred HHHHHHHHHHHHHHhhcccccCcchhhHH---------HHHHHHHHHHHHHHHHH----HHHHHHHhhhhH----HHHHH
Confidence 5788899999886 3444578876643 56666779999999986 234454432222 23456
Q ss_pred HHHHHHHHHHHHHHHHHHhhccCC
Q psy8083 181 RKELIHATKQVTKELMDLLNQDRS 204 (303)
Q Consensus 181 r~~~l~aakqi~~e~~dlL~q~rs 204 (303)
|+.||.|+..+.-....||..+.+
T Consensus 937 rrqmltaah~LAvdaknLldvvdq 960 (974)
T KOG4257|consen 937 RRQMLTAAHELAVDAKNLLDVVDQ 960 (974)
T ss_pred HHHHHHHHHHHhcchhHHHHHhhh
Confidence 889999998887666666655443
No 11
>PHA00666 putative protease
Probab=24.61 E-value=6.4e+02 Score=24.27 Aligned_cols=37 Identities=30% Similarity=0.550 Sum_probs=29.1
Q ss_pred hhhhhhh-------hhcccCCCh-HHHHHHHHHHHHHHHHHHHHHhhhCC
Q psy8083 220 QRHLTHF-------SLISHGFGS-PAIVAALTAIQNFLTESLKHLDKMYP 261 (303)
Q Consensus 220 q~~L~~F-------SliTHGFG~-pai~aalt~~q~~L~e~lk~l~k~~~ 261 (303)
+..|..| -|..+|+|. |+++.++..+.+.|.| |.+..
T Consensus 171 qkAld~fgtpeL~~~L~esGlGNHPevVr~f~~VGkal~E-----D~~V~ 215 (233)
T PHA00666 171 QRALDQFGTPELKEYLNKTGLGNHPELVKVFYKAGKAMSE-----DRLVT 215 (233)
T ss_pred HHHHHhcCCHHHHHHHHhccCCCCHHHHHHHHHHHHHhcc-----ccccc
Confidence 4556666 678899997 9999999999998876 55554
No 12
>PF09141 Talin_middle: Talin, middle domain; InterPro: IPR015224 This domain adopts a structure consisting of five alpha helices that fold into a bundle. It contains a Vinculin binding site (VBS) composed of a hydrophobic surface spanning five turns of helix four. Activation of the VBS causes subsequent recruitment of Vinculin, which enables maturation of small integrin/talin complexes into more stable adhesions. Formation of the complex between VBS and Vinculin requires prior unfolding of this middle domain: once released from the talin hydrophobic core, the VBS helix is then available to induce the 'bundle conversion' conformational change within the vinculin head domain thereby displacing the intramolecular interaction with the vinculin tail, allowing vinculin to bind actin []. ; GO: 0005200 structural constituent of cytoskeleton, 0007016 cytoskeletal anchoring at plasma membrane, 0001726 ruffle, 0005925 focal adhesion; PDB: 1SJ8_A 1T01_B 1SJ7_A 1SYQ_B.
Probab=24.39 E-value=67 Score=29.01 Aligned_cols=27 Identities=22% Similarity=0.418 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccCCCCC
Q psy8083 180 RRKELIHATKQVTKELMDLLNQDRSPLC 207 (303)
Q Consensus 180 ~r~~~l~aakqi~~e~~dlL~q~rsPl~ 207 (303)
++.+.+.|++.+|..|.|+|+. ..|-.
T Consensus 113 ~~~~Ll~Aar~L~~A~sdll~s-a~p~~ 139 (161)
T PF09141_consen 113 DGDKLLDAARKLCGAFSDLLKS-AEPES 139 (161)
T ss_dssp --HHHHHHHHHHHHHHHHHHHH-TSTTT
T ss_pred cHHHHHHHHHHHHHHHHHHHHh-cCCCc
Confidence 4568899999999999999999 55544
No 13
>TIGR01630 psiM2_ORF9 phage uncharacterized protein (putative large terminase), C-terminal domain. This model represents the C-terminal region of a set of phage proteins typically about 400-500 amino acids in length, although some members are considerably shorter. An article on Methanobacterium phage Psi-M2 (PubMed:9791169) calls the member from that phage, ORF9, a putative large terminase subunit, and ORF8 a candidate terminase small subunit. Most proteins in this family have an apparent P-loop nucleotide-binding sequence toward the N-terminus.
Probab=22.91 E-value=38 Score=28.24 Aligned_cols=69 Identities=20% Similarity=0.278 Sum_probs=41.1
Q ss_pred chhhhhcCCCcccchhhhhhhhhhcc--c----cc-----chHHHHHHHHHcCCcCC-----cccccccccccchhhcHH
Q psy8083 78 GEVQRRLSPPECLNASLLGGVLRRAK--S----KN-----GGRLLREKLEKIGLNLP-----AGRRKAANVTLLTSLVEG 141 (303)
Q Consensus 78 ~EIrRRls~PE~LNaS~Lg~~LRRaK--s----Kn-----GG~~LRe~Lek~Gl~Lp-----agRRKaa~vT~~TsLvEg 141 (303)
+-++.|..+||..+.= ..+.++=+ . .| .|+.|.+.|.+.|+.+| ..+-|......+++++|.
T Consensus 20 d~~~~r~~~~~~~~~i--~~~~~~~~~~~~~~E~~~~~~~~~~~l~~~l~~~~~~~~i~~~~~~~~K~~Ri~~~~p~~e~ 97 (142)
T TIGR01630 20 DAIYDKEPPPETERLV--IRLLNAHRVNLAIIESNQEGKSFGRSLVKILKEKGIRTPARAVYPSGDKETRILSVAPWVEA 97 (142)
T ss_pred EEEeccCChHHHHHHH--HHHHHHcCCcceeeeccccchHHHHHHHHHHHhhCCCCCceeeCCCCChHHhhhccHHHHHc
Confidence 5567788888766642 22222211 1 12 23568888888786654 344566666677888887
Q ss_pred HHHHHHH
Q psy8083 142 EAIHLAR 148 (303)
Q Consensus 142 EAvhLAr 148 (303)
--+.+..
T Consensus 98 G~V~~~~ 104 (142)
T TIGR01630 98 GNVFPPN 104 (142)
T ss_pred CeEeCCC
Confidence 7666644
No 14
>PF02877 PARP_reg: Poly(ADP-ribose) polymerase, regulatory domain; InterPro: IPR004102 Poly(ADP-ribose) polymerase catalyses the covalent attachment of ADP-ribose units from NAD+ to itself and to a limited number of other DNA binding proteins, which decreases their affinity for DNA. Poly(ADP-ribose) polymerase is a regulatory component induced by DNA damage. The regulatory domain of the polymerase is almost always associated with the C-terminal catalytic domain (see IPR001290 from INTERPRO). This domain consists of a duplication of two helix-loop-helix structural repeats [].; GO: 0003950 NAD+ ADP-ribosyltransferase activity, 0006471 protein ADP-ribosylation; PDB: 1GS0_B 3FHB_A 3C49_A 3CE0_A 3C4H_A 3KCZ_B 3KJD_B 3L3M_A 3GJW_A 1UK1_A ....
Probab=22.84 E-value=1.5e+02 Score=25.22 Aligned_cols=43 Identities=28% Similarity=0.397 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCChhhhhhhhhhhhcccCCCh
Q psy8083 183 ELIHATKQVTKELMDLLNQDRSPLCNTRPQHILDPSIQRHLTHFSLISHGFGS 235 (303)
Q Consensus 183 ~~l~aakqi~~e~~dlL~q~rsPl~~~rP~~ile~~iq~~L~~FSliTHGFG~ 235 (303)
..+.++.++++++.+++.. ......-.+.+=+=|++|-|-||.
T Consensus 43 ~qI~~g~~iL~~i~~~l~~----------~~~~~~i~~lsn~fYtlIPh~fg~ 85 (133)
T PF02877_consen 43 EQIEKGYEILKEIEELLKE----------QERRSKIEDLSNRFYTLIPHNFGR 85 (133)
T ss_dssp HHHHHHHHHHHHHHHHHHT----------TSSSHHHHHHHHHHHHHSTB-STT
T ss_pred HHHHHHHHHHHHHHHHHHc----------cccHHHHHHHHHHHHHHCCCcccC
Confidence 6678889999999999991 111122223344668999999986
No 15
>TIGR03190 benz_CoA_bzdN benzoyl-CoA reductase, bzd-type, N subunit. Members of this family are the N subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=21.52 E-value=5.9e+02 Score=25.11 Aligned_cols=54 Identities=11% Similarity=0.148 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHHHhhcCChHHHHHHHHHhhcCChhhhHHHHHHHHHHHHHHHHHHHHhhccCCCCCC
Q psy8083 140 EGEAIHLARDFGYVCETEFPARQVAEYLSRQHTSDPTESYRRKELIHATKQVTKELMDLLNQDRSPLCN 208 (303)
Q Consensus 140 EgEAvhLArDf~~lce~eFP~k~lAe~l~r~~~~~p~e~~~r~~~l~aakqi~~e~~dlL~q~rsPl~~ 208 (303)
-.|-..|.+.+.++....+.-..|.+.+... ..+++.+++|.++.....+|+++
T Consensus 137 ~~el~~l~~~LE~~~G~~i~~e~L~~ai~~~---------------n~~r~~~~~~~~l~~~~p~pitg 190 (377)
T TIGR03190 137 YAEVQRFRVFLQTLTGKEITDDMLRDALAVC---------------DENRRLLRELFDYRKEADPKVTG 190 (377)
T ss_pred HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH---------------HHHHHHHHHHHHHHccCCCCcCH
Confidence 4566678888888888888888777766432 22456778888887776777753
No 16
>PF03623 Focal_AT: Focal adhesion targeting region; InterPro: IPR005189 Focal adhesion kinase (FAK) is a tyrosine kinase found in focal adhesions, intracellular signalling complexes that are formed following engagement of the extracellular matrix by integrins. The C-terminal "focal adhesion targeting" (FAT) region is necessary and sufficient for localizing FAK to focal adhesions. The crystal structure of FAT shows it forms a four-helix bundle that resembles those found in two other proteins involved in cell adhesion, alpha-catenin and vinculin []. The binding of FAT to the focal adhesion protein, paxillin, requires the integrity of the helical bundle, whereas binding to another focal adhesion protein, talin, does not.; GO: 0004713 protein tyrosine kinase activity, 0004871 signal transducer activity, 0006468 protein phosphorylation, 0007172 signal complex assembly, 0005925 focal adhesion; PDB: 1K05_C 1OW8_C 1OW7_C 3S9O_C 3B71_B 1K04_A 1OW6_C 3GM1_B 3GM3_A 3GM2_A ....
Probab=21.29 E-value=5e+02 Score=23.02 Aligned_cols=79 Identities=24% Similarity=0.374 Sum_probs=47.6
Q ss_pred cccchHHHHHHHHHcC---CcCCcccccccccccchhhcHHHHHHHHHHHHHHHhhcCChHHHHHHHHHhhcCChhhhHH
Q psy8083 104 SKNGGRLLREKLEKIG---LNLPAGRRKAANVTLLTSLVEGEAIHLARDFGYVCETEFPARQVAEYLSRQHTSDPTESYR 180 (303)
Q Consensus 104 sKnGG~~LRe~Lek~G---l~LpagRRKaa~vT~~TsLvEgEAvhLArDf~~lce~eFP~k~lAe~l~r~~~~~p~e~~~ 180 (303)
.|+=|-.||+.|...- -.||...|+. +|..=--|++||..+++.- .+|+ +.....-.-+.
T Consensus 41 VK~VG~~Lr~Ll~sVd~~~~~l~~s~~~E---------Vema~klL~~DM~eLi~~m----klaq----~~~~ttl~~ey 103 (139)
T PF03623_consen 41 VKNVGLALRDLLTSVDQILPSLPSSVRRE---------VEMAHKLLSKDMAELISAM----KLAQ----QNSNTTLDEEY 103 (139)
T ss_dssp HHHHHHHHHHHHHHHHHHGGGSHTTSHHH---------HHHHHHHHHHHHHHHHHHH----HHHH----HTTTSTTHHHH
T ss_pred HHHHHHHHHHHHHHHHHhhccCCHHHHHH---------HHHHHHHHHHHHHHHHHHH----HHHH----HhcCchHHHHH
Confidence 3567888999887543 3356554443 5666677999999998631 2233 22122233456
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q psy8083 181 RKELIHATKQVTKELMDLL 199 (303)
Q Consensus 181 r~~~l~aakqi~~e~~dlL 199 (303)
|+.|+.++..+.--...+|
T Consensus 104 rr~ml~aah~LA~daKnLl 122 (139)
T PF03623_consen 104 RRQMLSAAHVLAMDAKNLL 122 (139)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhHHHHH
Confidence 7888888776654444443
No 17
>PF03965 Penicillinase_R: Penicillinase repressor; InterPro: IPR005650 Proteins in this entry are transcriptional regulators found in a variety of bacteria and a small number of archaea. Many are BlaI/MecI proteins which regulate resistance to penicillins (beta-lactams), though at least one protein (Q47839 from SWISSPROT) appears to be involved in the regulation of copper homeostasis []. BlaI regulators repress the expression of penicillin-degrading enzymes (penicillinases) until the cell encounters the antiobiotic, at which point repression ceases and penicillinase expression occurs, allowing cell growth []. MecI regulators repress the expression of MecA, a cell-wall biosynthetic enzyme not inhibited by penicillins at clinically achievable concentrations, until the presence of the antibiotic is detected []. At this point repression ends and MecA expression occurs which, together with the switching off of the penicillin-sensitive enzymes, allows the cell to grow despite the presence of antibiotic.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2G9W_A 2K4B_A 1XSD_A 1SD4_A 1SD7_A 1SD6_A 2P7C_B 1P6R_A 1OKR_B 2D45_B ....
Probab=20.83 E-value=3.1e+02 Score=22.14 Aligned_cols=88 Identities=22% Similarity=0.254 Sum_probs=42.8
Q ss_pred EecchhhhhcCCCcccchhhhhhhhhhcccccchHHHHHHHHHcCCcCCcccccccccccchhhcHHHHHHHHHHHHHHH
Q psy8083 75 VTVGEVQRRLSPPECLNASLLGGVLRRAKSKNGGRLLREKLEKIGLNLPAGRRKAANVTLLTSLVEGEAIHLARDFGYVC 154 (303)
Q Consensus 75 VTV~EIrRRls~PE~LNaS~Lg~~LRRaKsKnGG~~LRe~Lek~Gl~LpagRRKaa~vT~~TsLvEgEAvhLArDf~~lc 154 (303)
+|+.||..++..+-....+.+. ++-..|.+.|+- .|++..+...+++++..|. .++.=+..+.
T Consensus 18 ~t~~eI~~~l~~~~~~~~sTv~-------------t~L~rL~~Kg~l---~~~~~gr~~~Y~p~is~~e-~~~~~~~~~l 80 (115)
T PF03965_consen 18 ATVREIHEALPEERSWAYSTVQ-------------TLLNRLVEKGFL---TREKIGRAYVYSPLISREE-YLAQELRQFL 80 (115)
T ss_dssp EEHHHHHHHHCTTSS--HHHHH-------------HHHHHHHHTTSE---EEEEETTCEEEEESSSHHH-HHHHHHHHHH
T ss_pred CCHHHHHHHHHhccccchhHHH-------------HHHHHHHhCCce---eEeecCCceEEEeCCcHHH-HHHHHHHHHH
Confidence 7999999999877444444444 444567777763 1222223345565554332 2333334444
Q ss_pred hhcCC--hHHHHHHHHHhhcCChhhhH
Q psy8083 155 ETEFP--ARQVAEYLSRQHTSDPTESY 179 (303)
Q Consensus 155 e~eFP--~k~lAe~l~r~~~~~p~e~~ 179 (303)
+..|. ...+...++.....++.++.
T Consensus 81 ~~~~~gs~~~l~~~l~~~~~ls~~el~ 107 (115)
T PF03965_consen 81 DRLFDGSIPQLVAALVESEELSPEELE 107 (115)
T ss_dssp HHHSTTHHHHHHHHHHHCT-S-HHHHH
T ss_pred HHHhCCCHHHHHHHHHhcCCCCHHHHH
Confidence 44442 33344444443324445543
No 18
>PF15043 CNRIP1: CB1 cannabinoid receptor-interacting protein 1
Probab=20.33 E-value=67 Score=29.11 Aligned_cols=32 Identities=44% Similarity=0.484 Sum_probs=23.5
Q ss_pred hhccCCCCCceeeccC------cccccCCCcceeEecc
Q psy8083 47 LKRVSAPSDVFCSVPG------RLSLLSSTSKYKVTVG 78 (303)
Q Consensus 47 i~~~~~~~~vFc~V~G------RLsllss~skYkVTV~ 78 (303)
|+...+...|||.|+| |.-=++..+||+|+|.
T Consensus 14 lk~~pn~~PVffKvDG~RF~q~RTiKl~tdskYkv~V~ 51 (161)
T PF15043_consen 14 LKIQPNDGPVFFKVDGQRFGQNRTIKLLTDSKYKVDVT 51 (161)
T ss_pred EEeCCCCCcEEEEecccccCCceEEEEecCCEEEEEEE
Confidence 4444577899999998 3333567899999885
Done!