Query 025479
Match_columns 252
No_of_seqs 129 out of 574
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 06:15:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025479.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025479hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG1866 PckA Phosphoenolpyruva 100.0 5.1E-69 1.1E-73 514.9 16.7 201 21-228 7-238 (529)
2 PLN02597 phosphoenolpyruvate c 100.0 9.5E-67 2.1E-71 508.4 18.4 200 22-228 23-257 (555)
3 TIGR00224 pckA phosphoenolpyru 100.0 1.6E-65 3.5E-70 498.9 19.5 204 18-228 4-244 (532)
4 PTZ00311 phosphoenolpyruvate c 100.0 4.1E-65 8.8E-70 498.8 19.3 205 17-228 27-267 (561)
5 cd00484 PEPCK_ATP Phosphoenolp 100.0 6.4E-64 1.4E-68 487.2 18.1 188 34-228 2-220 (508)
6 PF01293 PEPCK_ATP: Phosphoeno 100.0 8.8E-62 1.9E-66 470.2 13.6 189 33-228 2-221 (466)
7 PRK09344 phosphoenolpyruvate c 100.0 5.8E-60 1.3E-64 461.9 17.7 199 23-228 7-236 (526)
8 cd01919 PEPCK Phosphoenolpyruv 100.0 6E-51 1.3E-55 398.4 18.2 189 34-228 2-228 (515)
9 cd00819 PEPCK_GTP Phosphoenolp 63.6 39 0.00085 35.0 8.7 139 70-217 80-231 (579)
10 PF12162 STAT1_TAZ2bind: STAT1 46.5 19 0.00042 22.0 2.0 15 71-85 8-22 (23)
11 PF08563 P53_TAD: P53 transact 33.5 11 0.00024 23.4 -0.4 15 70-84 7-21 (25)
12 PF09550 DUF2376: Conserved hy 31.8 62 0.0013 22.4 3.0 40 27-84 1-40 (43)
13 cd00032 CASc Caspase, interleu 28.6 1.1E+02 0.0023 27.3 4.9 92 16-109 33-135 (243)
14 PF02499 DNA_pack_C: Probable 26.6 48 0.001 32.4 2.4 94 80-186 74-171 (354)
15 PF05958 tRNA_U5-meth_tr: tRNA 26.6 71 0.0015 30.4 3.5 33 72-105 176-208 (352)
16 smart00115 CASc Caspase, inter 25.8 1.4E+02 0.0031 26.7 5.1 96 12-112 24-137 (241)
17 PF03440 APT: Aerolysin/Pertus 24.7 30 0.00066 27.2 0.5 16 181-198 55-70 (83)
18 PF15603 Imm45: Immunity prote 23.2 2.8E+02 0.006 21.6 5.6 40 54-93 33-76 (82)
19 PF11323 DUF3125: Protein of u 21.2 33 0.00071 24.6 0.1 27 123-149 2-30 (50)
No 1
>COG1866 PckA Phosphoenolpyruvate carboxykinase (ATP) [Energy production and conversion]
Probab=100.00 E-value=5.1e-69 Score=514.90 Aligned_cols=201 Identities=22% Similarity=0.320 Sum_probs=189.6
Q ss_pred hhhhhhCCCCcCcceeecCChHHHHHHHh----hccccCCceEEEe-------------------eccccCC--CCCCCH
Q 025479 21 NWALAGRGVVVNDKAFQNLTTSELQQKGA----TIAESLSGLPVYV-------------------RGNLLGG--SSDISK 75 (252)
Q Consensus 21 n~~L~~~gi~~~~~v~~Nl~~~~L~E~a~----~~~~~~Gal~v~T-------------------~~~v~~~--N~pis~ 75 (252)
...++.+|+.....+++|+++++|+|+++ +.++++|||+|+| ++.|||+ ||||++
T Consensus 7 ~~~~~~~~~~~~~~v~~n~s~~~L~e~~i~~~eg~lt~~Gal~~~TG~~TGRSPkDkfiV~~~~t~~~i~W~~~Nkpi~~ 86 (529)
T COG1866 7 AQELEALGIRDVEDVVYNLSAAQLYEEAIRRGEGVLTATGALRVDTGIYTGRSPKDKFIVRDDSTRDTIWWGTRNKPISP 86 (529)
T ss_pred hhhHHHhcccchHHHHhcCCHHHHHHHHhhcCCCccCCCCceEEecccccCCCCCCceEEecCcccccccccccCccCCH
Confidence 45688899988789999999999999985 4678999999999 3459986 899999
Q ss_pred HHHHHHHHHHHHHHcCCCceEEEeeeecCCcCCcceEEEEcchhhHHHhhhhcCCCCCccccCCCCCCeEEEEcCCCCCC
Q 025479 76 AQYAKLLKQVTAHLSSIANVFVQDGAVGSSSECDAKVRVISDSPSAVLKLSSILWKTPSRAVSHDSCPLTVYVTTSISPG 155 (252)
Q Consensus 76 e~F~~L~~~v~~yL~~~~~LfV~D~~aGAd~~~rl~VRvITe~AwhaLF~~nmfirP~~~el~~f~p~fTIi~aP~f~ad 155 (252)
|+|++|+.+|.+||++ ++|||+|++||||+++|++||||||.|||+||+|||||||+.||+..|+|||||+++|+|+||
T Consensus 87 e~f~~L~~~~~~yl~~-k~lfv~d~~~Ga~~~~~l~vrvvte~Awh~lF~~nlfIrP~~e~l~~~~~dftvin~p~f~~~ 165 (529)
T COG1866 87 ETFDRLKGDVTDYLSG-KDLFVVDGFAGADPDYRLPVRVVTEVAWHALFIRNLFIRPTGEELSTFKPDFTVINAPSFKAD 165 (529)
T ss_pred HHHHHHHHHHHHHhcc-CcEEEEEeeecCCccceeeeEeehhhHHHHHHHHhcccccchhhhccCCCCeEEEeCCcCCCC
Confidence 9999999999999999 579999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccCCcCCCCCCeEEEEeccCCeEEEeccCCCcccchhhhHHHhhcccccCCCceec--ccCC----Cceeeeecccc
Q 025479 156 VVNAVGLRAQGDNGFIAADIERSSLILCGKGFSDANGVKEALAALSGPVIIARGGLLL--CARC----RCNCFFSWCGT 228 (252)
Q Consensus 156 p~~~~Gt~Se~setfiiinf~~k~ilIgGT~Y~YaGEiKKsIFsvmNylLP~~gVLpM--sAni----~~alFFGLSGT 228 (252)
| ..||+|| |+||++||++|++|||||+ |+|||||+|||||||+||.+||||| |||+ |+|||||||||
T Consensus 166 ~-~~~g~~S---e~~i~~n~~~~~~lIggT~--YaGEMKK~~fs~mnylLP~~~i~~MHcsANvG~~gdvalFFGLSGT 238 (529)
T COG1866 166 P-KRDGLRS---ETFVAFNFTERIVLIGGTW--YAGEMKKGIFSVMNYLLPLKGILSMHCSANVGEKGDVALFFGLSGT 238 (529)
T ss_pred h-hhccccc---ccEEEEecccceeeeeccc--hhhhhhhhHHHHhhccccccccccceeccccCcCCCeEEEEeccCC
Confidence 8 5559999 8999999999999999999 8999999999999999999999999 8999 59999999998
No 2
>PLN02597 phosphoenolpyruvate carboxykinase [ATP]
Probab=100.00 E-value=9.5e-67 Score=508.42 Aligned_cols=200 Identities=19% Similarity=0.252 Sum_probs=184.7
Q ss_pred hhhhhCCCCcCcceeecCChHHHHHHHh----hccc-cCCceEEEe-------------------eccccCC----CCCC
Q 025479 22 WALAGRGVVVNDKAFQNLTTSELQQKGA----TIAE-SLSGLPVYV-------------------RGNLLGG----SSDI 73 (252)
Q Consensus 22 ~~L~~~gi~~~~~v~~Nl~~~~L~E~a~----~~~~-~~Gal~v~T-------------------~~~v~~~----N~pi 73 (252)
..|+..|++. .++||||++++|||+|+ |.+. ++|||+|+| ++.|||+ |+||
T Consensus 23 ~~~~~~~~~~-~~v~~nl~~~~Lye~Al~~~eG~l~~~~GaL~v~TGk~TGRSP~DKfIV~d~~t~~~iwWg~g~vN~p~ 101 (555)
T PLN02597 23 IDVSDSGLKF-THVLYNLSPAELYEQAIKYEKGSFITSTGALATLSGAKTGRSPKDKRVVRDETTEDELWWGKGSPNIEM 101 (555)
T ss_pred cccccccCCc-ceEEeCCCHHHHHHHHHHhCCCeEEecCCCEEecCCCcCCCCcccceecCCCCcccceeccCCccCccC
Confidence 4567888887 58999999999999995 4433 599999999 3359873 8999
Q ss_pred CHHHHHHHHHHHHHHHcCCCceEEEeeeecCCcCCcceEEEEcchhhHHHhhhhcCCCCCccccCCC-CCCeEEEEcCCC
Q 025479 74 SKAQYAKLLKQVTAHLSSIANVFVQDGAVGSSSECDAKVRVISDSPSAVLKLSSILWKTPSRAVSHD-SCPLTVYVTTSI 152 (252)
Q Consensus 74 s~e~F~~L~~~v~~yL~~~~~LfV~D~~aGAd~~~rl~VRvITe~AwhaLF~~nmfirP~~~el~~f-~p~fTIi~aP~f 152 (252)
++++|++|++||++||+++++|||+|+||||||+||++||||||.||||||+|||||||+.+|+++| +|||||||+|+|
T Consensus 102 ~~~~f~~l~~~~~~~l~~~~~lfv~D~~~Gad~~~r~~vRvite~aw~alF~~nmfirP~~~el~~f~~PdftIi~ap~f 181 (555)
T PLN02597 102 DEETFLVNRERAVDYLNSLDKVFVNDQFLNWDPENRIKVRIVSARAYHSLFMHNMCIRPTPEELEDFGTPDFTIYNAGQF 181 (555)
T ss_pred CHHHHHHHHHHHHHHHccCCCEEEEeeeeccCccceeeEEEEeCHHHHHHHHHhcCCCCChHHhccCCCCCEEEEeCCCC
Confidence 9999999999999999986779999999999999999999999999999999999999999999999 999999999999
Q ss_pred CCCCCccCCcCCCCCCeEEEEeccCCeEEEeccCCCcccchhhhHHHhhcccccCCCceec--ccCC----Cceeeeecc
Q 025479 153 SPGVVNAVGLRAQGDNGFIAADIERSSLILCGKGFSDANGVKEALAALSGPVIIARGGLLL--CARC----RCNCFFSWC 226 (252)
Q Consensus 153 ~adp~~~~Gt~Se~setfiiinf~~k~ilIgGT~Y~YaGEiKKsIFsvmNylLP~~gVLpM--sAni----~~alFFGLS 226 (252)
++|| ..|||+| |+||++||++|++|||||+ |+|||||||||+|||+||+||+||| |||+ ++++|||||
T Consensus 182 ~a~~-~~~g~~S---e~~i~in~~~~~~lI~GT~--YaGE~KK~iFs~~~~ll~~rg~l~mHasaNv~~~g~~~lffGlS 255 (555)
T PLN02597 182 PCNR-YTHYMTS---STSIDLNLKRKEMVILGTQ--YAGEMKKGLFSLMHYLMPMRGILSLHSGCNMGKDGDVALFFGLS 255 (555)
T ss_pred CCCc-cccCCCC---CcEEEEEccCCeEEEEccc--hhhhhHHHHHHHHHHHHHHCCcEeecCeeccCCCCcEEEEEecC
Confidence 9999 5559999 8999999999999999999 8999999999999999999999999 7777 389999999
Q ss_pred cc
Q 025479 227 GT 228 (252)
Q Consensus 227 GT 228 (252)
||
T Consensus 256 Gt 257 (555)
T PLN02597 256 GT 257 (555)
T ss_pred CC
Confidence 97
No 3
>TIGR00224 pckA phosphoenolpyruvate carboxykinase (ATP). Involved in the gluconeogenesis pathway. It converts oxaloacetic acid to phosphoenolpyruvate using ATP. Enzyme is a monomer. The reaction is also catalysed by phosphoenolpyruvate carboxykinase (GTP) (EC 4.1.1.32) using GTP instead of ATP, described in PROSITE:PDOC00421
Probab=100.00 E-value=1.6e-65 Score=498.88 Aligned_cols=204 Identities=18% Similarity=0.244 Sum_probs=189.0
Q ss_pred chhhhhhhhCCCCcCcceeecCChHHHHHHHhhc---------cccCCceEEEe-------------------eccccCC
Q 025479 18 YGLNWALAGRGVVVNDKAFQNLTTSELQQKGATI---------AESLSGLPVYV-------------------RGNLLGG 69 (252)
Q Consensus 18 y~~n~~L~~~gi~~~~~v~~Nl~~~~L~E~a~~~---------~~~~Gal~v~T-------------------~~~v~~~ 69 (252)
.++-..|+.+|+.+..++||||++++|+|+|+.+ ++++|||+|.| ++.||||
T Consensus 4 ~~~~~~l~~~g~~~~~~v~~Nl~~~~L~e~a~~~~~~~~~eg~~t~~Gal~v~TG~~TGRSpkDK~IV~~~~t~~~i~Wg 83 (532)
T TIGR00224 4 VLTPQELEALGISDVHDIVYNPSYAQLYEEELKPSLTGYEKGVLTSTGAVAVDTGIFTGRSPKDKYIVEDETTKDTIWWG 83 (532)
T ss_pred hhhhhhHHhcCCCCCceEEeCCCHHHHHHHHHhhccccCCCceeccCCceEEecCCeeCCCcCceEEeCCCCcccccccC
Confidence 3455677888898877899999999999999744 67999999999 2359987
Q ss_pred --CCCCCHHHHHHHHHHHHHHHcCCCceEEEeeeecCCcCCcceEEEEcchhhHHHhhhhcCCCCCccccCCCCCCeEEE
Q 025479 70 --SSDISKAQYAKLLKQVTAHLSSIANVFVQDGAVGSSSECDAKVRVISDSPSAVLKLSSILWKTPSRAVSHDSCPLTVY 147 (252)
Q Consensus 70 --N~pis~e~F~~L~~~v~~yL~~~~~LfV~D~~aGAd~~~rl~VRvITe~AwhaLF~~nmfirP~~~el~~f~p~fTIi 147 (252)
|+||++++|+.|+++|.+||+. +++||+|+|||+||+||++||||||+||||||+|||||||+.+|++.|+||||||
T Consensus 84 ~vN~p~~~~~f~~L~~~v~~~l~~-~~lyv~D~~~GaDp~~rl~vRvite~AwhalF~~nmfirP~~eel~~fePdftI~ 162 (532)
T TIGR00224 84 PVNKPLSEETWQHLKGLVTRQLSR-KRLFVVDAFCGADPKYRLSVRVVTEVAWQAHFVKNMFIRPTEEELAGFEPDFTVM 162 (532)
T ss_pred cCCcCCCHHHHHHHHHHHHHHhcC-CCEEEEeeeeccCcccceeEEEEEcHHHHHHHHHhhCCCCChHHhccCCCCEEEE
Confidence 9999999999999999999996 7899999999999999999999999999999999999999999999999999999
Q ss_pred EcCCCC-CCCCccCCcCCCCCCeEEEEeccCCeEEEeccCCCcccchhhhHHHhhcccccCCCceec--ccCC----Cce
Q 025479 148 VTTSIS-PGVVNAVGLRAQGDNGFIAADIERSSLILCGKGFSDANGVKEALAALSGPVIIARGGLLL--CARC----RCN 220 (252)
Q Consensus 148 ~aP~f~-adp~~~~Gt~Se~setfiiinf~~k~ilIgGT~Y~YaGEiKKsIFsvmNylLP~~gVLpM--sAni----~~a 220 (252)
++|+|+ +|| .+||++| ++||++||++|++|||||+ |+|||||||||+|||+||+||+||| |||+ +++
T Consensus 163 ~~p~f~~ad~-~~~g~~S---~~~i~in~~~~~~lI~GT~--YaGEiKKgiFs~~~~ll~~rg~l~lH~sanv~~~g~~~ 236 (532)
T TIGR00224 163 NGAKFTNPNW-KEQGLNS---ENFVAFNLTERMQLIGGTW--YGGEMKKGMFSMMNYLLPLKGILSMHCSANVGEKGDVA 236 (532)
T ss_pred eCCCCCCCCc-ccCCCCc---CcEEEEecccCeEEEECcc--hhhhhHHHHHHHHHHHHHhCCeEeecCeeeeCCCCCEE
Confidence 999999 998 6669998 8999999999999999999 8999999999999999999999999 6776 489
Q ss_pred eeeecccc
Q 025479 221 CFFSWCGT 228 (252)
Q Consensus 221 lFFGLSGT 228 (252)
+|||||||
T Consensus 237 ~ffGlSGt 244 (532)
T TIGR00224 237 LFFGLSGT 244 (532)
T ss_pred EEEecCCC
Confidence 99999997
No 4
>PTZ00311 phosphoenolpyruvate carboxykinase; Provisional
Probab=100.00 E-value=4.1e-65 Score=498.84 Aligned_cols=205 Identities=22% Similarity=0.285 Sum_probs=189.1
Q ss_pred cchhhhhhhhCCCCcCcceeecCChHHHHHHHh-----hccccCCceEEEe-------------------eccccCC--C
Q 025479 17 SYGLNWALAGRGVVVNDKAFQNLTTSELQQKGA-----TIAESLSGLPVYV-------------------RGNLLGG--S 70 (252)
Q Consensus 17 ~y~~n~~L~~~gi~~~~~v~~Nl~~~~L~E~a~-----~~~~~~Gal~v~T-------------------~~~v~~~--N 70 (252)
.-.+...|+.+||++ .++||||++++|+|+|+ +.++++|+|+|.| ++.|||| |
T Consensus 27 ~~~~~~~l~~~g~~~-~~i~~Nl~~~~L~E~al~~~~~g~~t~~GaL~v~TG~~TGRSpkDKfIV~~~~~~d~i~Wg~vN 105 (561)
T PTZ00311 27 ETQLEEELHKLGLHN-TTIHRNLTVPELYEHALKYEKNTSITSTGALCVYSGAKTGRSPKDKRIVKEDSSEDDIWWGKVN 105 (561)
T ss_pred cchhhccHhhcCCCC-CeEEeCCCHHHHHHHHHhhcCCcEEecCCceEEecCCccCCCCCceEEeCCCCcccccccCccC
Confidence 345567888889987 48999999999999997 3577999999999 2359987 9
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCCceEEEeeeecCCcCCcceEEEEcchhhHHHhhhhcCCCCCcccc----CCCCCCeEE
Q 025479 71 SDISKAQYAKLLKQVTAHLSSIANVFVQDGAVGSSSECDAKVRVISDSPSAVLKLSSILWKTPSRAV----SHDSCPLTV 146 (252)
Q Consensus 71 ~pis~e~F~~L~~~v~~yL~~~~~LfV~D~~aGAd~~~rl~VRvITe~AwhaLF~~nmfirP~~~el----~~f~p~fTI 146 (252)
+||++++|+.|+++|.+||+++++|||+|+|||+||+||++||||||.||||||++||||||+.+|+ +.|+|||||
T Consensus 106 ~p~~~~~f~~L~~~~~~yl~~~~~lyv~D~~vGaDp~~~l~vRvit~~a~~alF~~nmfirP~~~el~~~~~~f~PdftI 185 (561)
T PTZ00311 106 IPLSEESFEINKKRAIDYLNTRERLFVVDGYAGWDPKYRLKVRVITTRAYHALFMRNMLIRPTNEELKKFGEDFVPDFTI 185 (561)
T ss_pred ccCCHHHHHHHHHHHHHHHhcCCCEEEEeeeeecCcccceeEEEEecHHHHHHHHHHCCCCCChHHhhccccCCCCCEEE
Confidence 9999999999999999999766789999999999999999999999999999999999999999999 899999999
Q ss_pred EEcCCCCCCCCccCCcCCCCCCeEEEEeccCCeEEEeccCCCcccchhhhHHHhhcccccCCCceec--ccCC----Cce
Q 025479 147 YVTTSISPGVVNAVGLRAQGDNGFIAADIERSSLILCGKGFSDANGVKEALAALSGPVIIARGGLLL--CARC----RCN 220 (252)
Q Consensus 147 i~aP~f~adp~~~~Gt~Se~setfiiinf~~k~ilIgGT~Y~YaGEiKKsIFsvmNylLP~~gVLpM--sAni----~~a 220 (252)
|++|+|++|| ..|||+| |+||++||++|++|||||+ |+|||||||||+|||+||+||+||| |||+ +++
T Consensus 186 i~~P~f~a~~-~~~G~~s---e~~i~in~~~~~~lI~GT~--YaGEiKKgiFt~~~~ll~~rg~l~lHasa~v~~~g~~~ 259 (561)
T PTZ00311 186 YNAGEFKANR-LIEGVTS---ETSVALNFKRREMVILGTQ--YAGEMKKGILTVMMYLMPKQGVLPLHSSANVGKKGDVT 259 (561)
T ss_pred EECCCCCCCc-ccCCCCc---ccEEEEEccCCeEEEEccc--chhhhHHHHHHHHHHHHHHCCceeeeeeEeeCCCCCEE
Confidence 9999999999 5559998 8999999999999999999 8999999999999999999999999 5665 489
Q ss_pred eeeecccc
Q 025479 221 CFFSWCGT 228 (252)
Q Consensus 221 lFFGLSGT 228 (252)
+|||||||
T Consensus 260 ~ffGlSGt 267 (561)
T PTZ00311 260 LFFGLSGT 267 (561)
T ss_pred EEEccCCC
Confidence 99999997
No 5
>cd00484 PEPCK_ATP Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity, this model describes the ATP-dependent groups.
Probab=100.00 E-value=6.4e-64 Score=487.18 Aligned_cols=188 Identities=20% Similarity=0.352 Sum_probs=177.7
Q ss_pred ceeecCChHHHHHHH----hhccccCCceEEEe-------------------eccccCC--CCCCCHHHHHHHHHHHHHH
Q 025479 34 KAFQNLTTSELQQKG----ATIAESLSGLPVYV-------------------RGNLLGG--SSDISKAQYAKLLKQVTAH 88 (252)
Q Consensus 34 ~v~~Nl~~~~L~E~a----~~~~~~~Gal~v~T-------------------~~~v~~~--N~pis~e~F~~L~~~v~~y 88 (252)
++||||++++|+|+| ++.++++|+|+|.| ++.|||| |+||++++|++|+++|.+|
T Consensus 2 ~v~~Nls~~eL~E~A~~~~eg~~t~~GaL~v~TG~~TGRSPkDkfIV~~~~t~~~i~wg~vn~~~~~~~f~~L~~~~~~y 81 (508)
T cd00484 2 HIHHNLSPAELYEEALKRGEGVLTSTGALAVDTGKKTGRSPKDKFIVDEPSSEDDIWWGKVNQPISEETFEILRERAVDY 81 (508)
T ss_pred ccccCCCHHHHHHHHHhCCCCEEecCCCeEeccCCccCCCCCceeEeCCCCccccccccccCcCCCHHHHHHHHHHHHHH
Confidence 579999999999999 45788999999999 2359987 9999999999999999999
Q ss_pred HcCCCceEEEeeeecCCcCCcceEEEEcchhhHHHhhhhcCCCCCccccCCCCCCeEEEEcCCCCCCCCccCCcCCCCCC
Q 025479 89 LSSIANVFVQDGAVGSSSECDAKVRVISDSPSAVLKLSSILWKTPSRAVSHDSCPLTVYVTTSISPGVVNAVGLRAQGDN 168 (252)
Q Consensus 89 L~~~~~LfV~D~~aGAd~~~rl~VRvITe~AwhaLF~~nmfirP~~~el~~f~p~fTIi~aP~f~adp~~~~Gt~Se~se 168 (252)
|++ ++|||+|+|||+||+||++||||||.||||||+|||||||+.+|+++|.||||||++|+|++|| ..|||+| |
T Consensus 82 l~~-~~lyv~D~~vGadp~~r~~vRvi~~~a~~alF~~nmfi~P~~eel~~f~pdftI~~~P~f~~~~-~~~G~~s---~ 156 (508)
T cd00484 82 LNT-KKLFVFDGFAGADPEYRLKVRVITERAWHALFMRNMFIRPTEEELENFGPDFTIYNAPKFKANP-ETDGMNS---E 156 (508)
T ss_pred hcC-CCEEEEeeeeecCcccceeeEEEECHHHHHHHHHhCCCCCChHHhccCCcCEEEEECCCCcCCc-cccCCCc---c
Confidence 999 6799999999999999999999999999999999999999999999999999999999999999 6669999 7
Q ss_pred eEEEEeccCCeEEEeccCCCcccchhhhHHHhhcccccCCCceec--ccCC----Cceeeeecccc
Q 025479 169 GFIAADIERSSLILCGKGFSDANGVKEALAALSGPVIIARGGLLL--CARC----RCNCFFSWCGT 228 (252)
Q Consensus 169 tfiiinf~~k~ilIgGT~Y~YaGEiKKsIFsvmNylLP~~gVLpM--sAni----~~alFFGLSGT 228 (252)
+||++||++|++|||||+ |+|||||||||+|||+||+||+||| |||+ ++++|||||||
T Consensus 157 ~~iiin~~~~~~lI~GT~--YaGEiKKgif~~~~~ll~~~g~l~lH~sanv~~~~~~~~ffGlSGt 220 (508)
T cd00484 157 TFVIINFAEREMVIGGTE--YAGEMKKGIFSVMNYLLPKKGVLSMHCSANVGKKGDVALFFGLSGT 220 (508)
T ss_pred cEEEEEccCCeEEEECcc--chhhhHHHHHHHHHHHHHhCCcEeeccccccCCCCCEEEEEecCCC
Confidence 999999999999999999 8999999999999999999999999 6776 48999999997
No 6
>PF01293 PEPCK_ATP: Phosphoenolpyruvate carboxykinase The Prosite pattern is specific to the ATP binding region; InterPro: IPR001272 Phosphoenolpyruvate carboxykinase (PEPCK) catalyses the first committed (rate-limiting) step in hepatic gluconeogenesis, namely the reversible decarboxylation of oxaloacetate to phosphoenolpyruvate (PEP) and carbon dioxide, using either ATP or GTP as a source of phosphate. The ATP-utilising (4.1.1.49 from EC) and GTP-utilising (4.1.1.32 from EC) enzymes form two divergent subfamilies, which have little sequence similarity but which retain conserved active site residues. ATP-utilising PEPCKs are monomers or oligomers of identical subunits found in certain bacteria, yeast, trypanosomatids, and plants, while GTP-utilising PEPCKs are mainly monomers found in animals and some bacteria []. Both require divalent cations for activity, such as magnesium or manganese. One cation interacts with the enzyme at metal binding site 1 to elicit activation, while the second cation interacts at metal binding site 2 to serve as a metal-nucleotide substrate. In bacteria, fungi and plants, PEPCK is involved in the glyoxylate bypass, an alternative to the tricarboxylic acid cycle. PEPCK helps to regulate blood glucose levels. The rate of gluconeogenesis can be controlled through transcriptional regulation of the PEPCK gene by cAMP (the mediator of glucagon and catecholamines), glucocorticoids and insulin. In general, PEPCK expression is induced by glucagon, catecholamines and glucocorticoids during periods of fasting and in response to stress, but is inhibited by (glucose-induced) insulin upon feeding []. With type II diabetes, this regulation system can fail, resulting in increased gluconeogenesis that in turn raises glucose levels []. PEPCK consists of an N-terminal and a catalytic C-terminal domain, with the active site and metal ions located in a cleft between them. Both domains have an alpha/beta topology that is partly similar to one another [, ]. Substrate binding causes PEPCK to undergo a conformational change, which accelerates catalysis by forcing bulk solvent molecules out of the active site []. PCK uses an alpha/beta/alpha motif for nucleotide binding, this motif differing from other kinase domains. GTP-utilising PEPCK has a PEP-binding domain and two kinase motifs to bind GTP and magnesium. This entry represents ATP-utilising phosphoenolpyruvate carboxykinase enzymes.; GO: 0004612 phosphoenolpyruvate carboxykinase (ATP) activity, 0005524 ATP binding, 0006094 gluconeogenesis; PDB: 2PY7_X 2OLR_A 1AYL_A 1K3D_A 1OEN_A 1AQ2_A 1OS1_A 2OLQ_A 1K3C_A 2PXZ_X ....
Probab=100.00 E-value=8.8e-62 Score=470.17 Aligned_cols=189 Identities=24% Similarity=0.379 Sum_probs=160.2
Q ss_pred cceeecCChHHHHHHH----hhccccCCceEEEe-------------------eccccCC--CCCCCHHHHHHHHHHHHH
Q 025479 33 DKAFQNLTTSELQQKG----ATIAESLSGLPVYV-------------------RGNLLGG--SSDISKAQYAKLLKQVTA 87 (252)
Q Consensus 33 ~~v~~Nl~~~~L~E~a----~~~~~~~Gal~v~T-------------------~~~v~~~--N~pis~e~F~~L~~~v~~ 87 (252)
.++||||++++|+|+| ++.++++|||+|.| ++.|||+ |+||++++|++|+++|.+
T Consensus 2 ~~v~~Nls~~~L~e~a~~~~eg~lt~~Gal~v~tG~~TGRSp~dkfIV~~~~~~~~v~Wg~~n~~i~~e~f~~L~~~v~~ 81 (466)
T PF01293_consen 2 ANVYRNLSPPELYEEAIKRGEGVLTKTGALVVNTGKFTGRSPKDKFIVDEPGTEDKVWWGSVNQPISEEQFEKLLERVVD 81 (466)
T ss_dssp SEEEES--HHHHHHHHCHTTTEEE-TTSSEEE--TT-SSB-GGGEEEE-STTTTTTS-BTTSBEEE-HHHHHHHHHHHHH
T ss_pred CeeEeCCCHHHHHHHHHhcCCCEEccCCCEEEeCCCccCCCCCceEEecCCccccccccccCCcccCHHHHHHHHHHHHH
Confidence 4789999999999999 67899999999999 2359986 899999999999999999
Q ss_pred HHcCCCceEEEeeeecCCcCCcceEEEEcchhhHHHhhhhcCCCCCccccCCCCCCeEEEEcCCCCCCCCccCCcCCCCC
Q 025479 88 HLSSIANVFVQDGAVGSSSECDAKVRVISDSPSAVLKLSSILWKTPSRAVSHDSCPLTVYVTTSISPGVVNAVGLRAQGD 167 (252)
Q Consensus 88 yL~~~~~LfV~D~~aGAd~~~rl~VRvITe~AwhaLF~~nmfirP~~~el~~f~p~fTIi~aP~f~adp~~~~Gt~Se~s 167 (252)
||+++ +|||+|++||+||+||++||||||.||||||++|||+||+.+|+++|+|||||+++|+|++||+.+ |++|
T Consensus 82 yL~~k-~lyv~D~~vG~d~~~~~~vRvit~~a~~aLF~~nL~~~p~~~e~~~f~pd~tI~~~p~f~~~p~~~-g~~s--- 156 (466)
T PF01293_consen 82 YLSTK-ELYVQDGYVGADPDYRIKVRVITERAWHALFARNLFIRPPPEELQNFEPDFTIINAPDFKADPEID-GTNS--- 156 (466)
T ss_dssp HHTTS-EEEEEEEEESSSTTT-EEEEEEESSHHHHHHHHHHSB-GSHHHHHT-S-SEEEEEETTS--TTCHC-T-SS---
T ss_pred Hhccc-ceEEEEEEEecCHHHceeEEEEeCcHHHHHHHHHhhcCCChhHhcccCCCEEEEeCCccccCCCcC-CCCC---
Confidence 99995 999999999999999999999999999999999999999999999999999999999999999666 9998
Q ss_pred CeEEEEeccCCeEEEeccCCCcccchhhhHHHhhcccccCCCceec--ccCC----Cceeeeecccc
Q 025479 168 NGFIAADIERSSLILCGKGFSDANGVKEALAALSGPVIIARGGLLL--CARC----RCNCFFSWCGT 228 (252)
Q Consensus 168 etfiiinf~~k~ilIgGT~Y~YaGEiKKsIFsvmNylLP~~gVLpM--sAni----~~alFFGLSGT 228 (252)
++||++|+++|++||+||+ |+|||||++||+|||+||++|+||| |||+ |+++|||||||
T Consensus 157 ~~~i~~d~~~~~~vI~Gt~--Y~GEiKK~ift~~n~ll~~~g~l~mH~san~~~~gd~alfFGLSGT 221 (466)
T PF01293_consen 157 DTFIIFDFERNVAVILGTR--YAGEIKKGIFTVMNYLLPRNGVLPMHCSANVGKDGDTALFFGLSGT 221 (466)
T ss_dssp S-EEEEETTTTEEEEES-----THHHHHHHHHHHHHHHHHTT-EEEEEEEEEETTSSEEEEEESTTS
T ss_pred CcEEEEccccCeEEEECCc--ccccchHHHHHHHHHhhHhcCeEEEEeeeeeCCCCCeEEEEecCCC
Confidence 7999999999999999999 7999999999999999999999999 5666 58999999994
No 7
>PRK09344 phosphoenolpyruvate carboxykinase; Provisional
Probab=100.00 E-value=5.8e-60 Score=461.87 Aligned_cols=199 Identities=21% Similarity=0.308 Sum_probs=186.4
Q ss_pred hhhhCCCCcCcceeecCChHHHHHHHh----hccccCCceEEEe-------------------eccccCC--CCCCCHHH
Q 025479 23 ALAGRGVVVNDKAFQNLTTSELQQKGA----TIAESLSGLPVYV-------------------RGNLLGG--SSDISKAQ 77 (252)
Q Consensus 23 ~L~~~gi~~~~~v~~Nl~~~~L~E~a~----~~~~~~Gal~v~T-------------------~~~v~~~--N~pis~e~ 77 (252)
.|+.+||++..++||||++++|+|+|+ +.++++|+|+|.| ++.|||+ |+||++++
T Consensus 7 ~l~~~g~~~~~~i~~n~~~~~L~e~a~~~~~g~~t~~Gal~~~tG~~tGRSp~dk~iV~~~~~~~~i~wg~~n~~~~~~~ 86 (526)
T PRK09344 7 DLEAYGITNLSNVHYNLSYAELYEEALRRGEGVLTDTGALAVDTGKFTGRSPKDKFIVRDPSTEDTIWWGDDNKPISPEK 86 (526)
T ss_pred chhhcCCCCcceeEeCCCHHHHHHHHHHcCCCeeccCCceEEecCCccCCCcCceeeecCccccccccccccCCCCCHHH
Confidence 388999998889999999999999994 5788999999999 2358986 99999999
Q ss_pred HHHHHHHHHHHHcCCCceEEEeeeecCCcCCcceEEEEcchhhHHHhhhhcCCCCCccccCCCCCCeEEEEcCCCCCCCC
Q 025479 78 YAKLLKQVTAHLSSIANVFVQDGAVGSSSECDAKVRVISDSPSAVLKLSSILWKTPSRAVSHDSCPLTVYVTTSISPGVV 157 (252)
Q Consensus 78 F~~L~~~v~~yL~~~~~LfV~D~~aGAd~~~rl~VRvITe~AwhaLF~~nmfirP~~~el~~f~p~fTIi~aP~f~adp~ 157 (252)
|+.|++++.+||+++ ++||+|++||+||+||++||||||+|||+||++|||+||+.+|++.|+||||||++|+|+++|
T Consensus 87 f~~l~~~~~~~l~~~-~lyv~d~~vG~d~~~~~~vrvi~~~a~~~lf~~nlf~~p~~~e~~~~~Pd~~ii~~p~~~~~~- 164 (526)
T PRK09344 87 FDALKQKVLAYLSGK-DLFVVDGFAGADPEYRLPVRVITELAWHALFVRNLFIRPSEEELASFEPDFTIINAPKFKADP- 164 (526)
T ss_pred HHHHHHHHHHHhcCC-cEEEEeeeecCChhHeeeEEEEecHHHHHHHHhhcCCCCChhHhccCCCCEEEEEcCCCCCCc-
Confidence 999999999999995 899999999999999999999999999999999999999999999999999999999999997
Q ss_pred ccCCcCCCCCCeEEEEeccCCeEEEeccCCCcccchhhhHHHhhcccccCCCceec--ccCCC----ceeeeecccc
Q 025479 158 NAVGLRAQGDNGFIAADIERSSLILCGKGFSDANGVKEALAALSGPVIIARGGLLL--CARCR----CNCFFSWCGT 228 (252)
Q Consensus 158 ~~~Gt~Se~setfiiinf~~k~ilIgGT~Y~YaGEiKKsIFsvmNylLP~~gVLpM--sAni~----~alFFGLSGT 228 (252)
.+||++| +++|++|+++|.++||||+ |+|||||++||+|||+||+||+||| |||++ +++|||||||
T Consensus 165 ~~~g~~s---~~~i~~~~~~~~~~I~Gt~--Y~GE~KK~~lt~~~~~l~~rg~l~lH~sa~i~~~g~~~~ffGlSGt 236 (526)
T PRK09344 165 ERDGTNS---ETFIAINFTERIVLIGGTD--YAGEMKKSIFSVMNYLLPLKGVLPMHCSANVGEEGDVALFFGLSGT 236 (526)
T ss_pred cccCCCC---CceEEEecccCeEEEEcch--hHHHHHHHHHHHHHHHHHHCCcEeeeCeeecCCCCcEEEEEeecCC
Confidence 6669998 7999999999999999999 7999999999999999999999999 45663 6899999996
No 8
>cd01919 PEPCK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).
Probab=100.00 E-value=6e-51 Score=398.41 Aligned_cols=189 Identities=17% Similarity=0.168 Sum_probs=173.2
Q ss_pred ceeecCChHHHHHHHhh-----ccccCCceEEEe-------------------ecccc----CC--CCCCCHHHHHHHHH
Q 025479 34 KAFQNLTTSELQQKGAT-----IAESLSGLPVYV-------------------RGNLL----GG--SSDISKAQYAKLLK 83 (252)
Q Consensus 34 ~v~~Nl~~~~L~E~a~~-----~~~~~Gal~v~T-------------------~~~v~----~~--N~pis~e~F~~L~~ 83 (252)
++|||+++++|+|+++. .+.++|+|+|+| ++.+| |+ |+++++++|++|++
T Consensus 2 ~v~~n~~~~~L~e~~~~~~g~~~~~~~g~l~~~tg~~tgRsp~dkfIv~~~~~~~~~~w~~~w~~~N~~~~~~~~~~~~~ 81 (515)
T cd01919 2 HIHINDENGRLLQQMLEEYGILRLTKNGALAVTDPRDTGRSPSDKVIVTQDQRRTVPIPKTGLSQLNRWLSEEDFEKAFN 81 (515)
T ss_pred ceEECCCHHHHHHHHHHhcCCEEECCCceEEECCCCccccCCCceEEeCCCccccCccccccccccCCCCCHHHHHHHHH
Confidence 58999999999999864 456999999999 22476 33 99999999999999
Q ss_pred HHHHHH-cCCCceEEEeeeecCCcCCcceEEEEcchhhHHHhhhhcCCCCCccccCCC-CCCeEEEEcCCCCCCCCccCC
Q 025479 84 QVTAHL-SSIANVFVQDGAVGSSSECDAKVRVISDSPSAVLKLSSILWKTPSRAVSHD-SCPLTVYVTTSISPGVVNAVG 161 (252)
Q Consensus 84 ~v~~yL-~~~~~LfV~D~~aGAd~~~rl~VRvITe~AwhaLF~~nmfirP~~~el~~f-~p~fTIi~aP~f~adp~~~~G 161 (252)
++.+|+ ++ +++||+|+++|+||++|+++|+|||+|||+||+||||+||+.+|++.| +|+|||||+|+|++||...+|
T Consensus 82 ~~~~~~m~g-r~myV~d~~~G~~~~~~~~~r~it~~ay~~lf~~~m~~~p~~~~l~~~~~p~~~ii~~~g~~~~~~~w~g 160 (515)
T cd01919 82 ARFPGLMKG-RTLFVVDFFMGPGSPLRLIVRELTDSPYVAAFMRIMTIMPTDEELAAFGDPDVKCLNSVGCPLPLQKWPG 160 (515)
T ss_pred HHHHHHhcC-CCEEEEeceECCCCcccccEEEEEChHHHHHHHHHhccCCChHHHhhCCCCCEEEEeCCCCcCCccCCCC
Confidence 999999 76 679999999999999999999999999999999999999998999999 699999999999999966469
Q ss_pred cCCCCCCeEEEEeccCCeEEEeccCCCcccchhhhHHHhhcccccCCCceecccCC------Cceeeeecccc
Q 025479 162 LRAQGDNGFIAADIERSSLILCGKGFSDANGVKEALAALSGPVIIARGGLLLCARC------RCNCFFSWCGT 228 (252)
Q Consensus 162 t~Se~setfiiinf~~k~ilIgGT~Y~YaGEiKKsIFsvmNylLP~~gVLpMsAni------~~alFFGLSGT 228 (252)
++| ++||++|+++|+|+|+||+ |+|||||++|++|||++|++|+|||||++ ++.+|||||||
T Consensus 161 ~~s---~~~I~~~~~~~~i~i~Gt~--Y~Ge~KK~~l~~~~~l~~~~g~L~~H~s~~~~~~g~~~~~~GlSGt 228 (515)
T cd01919 161 LPS---LTLVAHNPDRREQIIFGTG--YGGEMKKGFLRMMSRLAPEEGWLAMHMSANVGTNGDVLVFFGLSGT 228 (515)
T ss_pred CCC---CcEEEEEcccCEEEEecCc--cccchHHHHHHHHHHHHHhcCceeeeceeeccCCCCEEEEEecccC
Confidence 998 7999999999999999999 79999999999999999999999995544 37899999996
No 9
>cd00819 PEPCK_GTP Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity, this model describes the GTP-dependent group.
Probab=63.65 E-value=39 Score=34.97 Aligned_cols=139 Identities=13% Similarity=0.102 Sum_probs=90.7
Q ss_pred CCCCCHHHH-HHHHHHHHHHHcCCCceEEEeeeecC--CcCCcceEEEEcchhhHHHhhhhcCCCCC--ccccC--CCCC
Q 025479 70 SSDISKAQY-AKLLKQVTAHLSSIANVFVQDGAVGS--SSECDAKVRVISDSPSAVLKLSSILWKTP--SRAVS--HDSC 142 (252)
Q Consensus 70 N~pis~e~F-~~L~~~v~~yL~~~~~LfV~D~~aGA--d~~~rl~VRvITe~AwhaLF~~nmfirP~--~~el~--~f~p 142 (252)
|+-++++.. ..|.+.+..=+++ +.+||.==.-|- +|-..+-|. ||++||-.+=+|-|..-=. -+.+. .|.+
T Consensus 80 nnw~~p~e~~~~l~~lf~G~M~G-RTMYVipfsmGP~gSp~s~~gVq-iTDS~YVv~sm~imtR~g~~vl~~lg~~~Fv~ 157 (579)
T cd00819 80 NNWMDPEEMKAELKELFKGCMRG-RTMYVIPFSMGPLGSPISKIGVE-LTDSPYVVHSMRIMTRMGKAVLDALGEGEFVP 157 (579)
T ss_pred cccCCHHHHHHHHHhhCCcccCC-CeEEEEeeecCCCCCCcccceEE-EeCCHHHHHhHHHHHhcCHHHHHhcCcCCeee
Confidence 778999887 4566666777788 689998766553 355555665 7999999888887764321 12222 3433
Q ss_pred CeEEEEcCCCCCCCCccC--CcCCCCCCeEEEEeccCCeEEEeccCCCcccch---hhhH-HHhhcccccCCCceecccC
Q 025479 143 PLTVYVTTSISPGVVNAV--GLRAQGDNGFIAADIERSSLILCGKGFSDANGV---KEAL-AALSGPVIIARGGLLLCAR 216 (252)
Q Consensus 143 ~fTIi~aP~f~adp~~~~--Gt~Se~setfiiinf~~k~ilIgGT~Y~YaGEi---KKsI-FsvmNylLP~~gVLpMsAn 216 (252)
-+|+-+..-.+-+.+ =++-+ ...|+.+-+.+.|..-||+ |+|+- ||.. .-+-.++-=++|-|..|.=
T Consensus 158 ---~vHSvG~pl~~~~~~~wpcn~~--~~~I~h~pe~~~I~S~gSg--YGGNaLlgKKcfaLRiAs~~ar~eGWLAEHMl 230 (579)
T cd00819 158 ---CLHSVGAPLSAGQKDVWPCNPE--KKYIVHFPEEREIWSFGSG--YGGNALLGKKCFALRIASVMARDEGWLAEHML 230 (579)
T ss_pred ---eeccCCCcCCCCCCCCCCCCCC--ccEEEEEcCCCeEEEecCC--cCCCcccchhHHHHHHHHHHhHhcCcHHHhhH
Confidence 344444222211111 01111 3799999999999999999 78999 9987 6665566667788877654
Q ss_pred C
Q 025479 217 C 217 (252)
Q Consensus 217 i 217 (252)
|
T Consensus 231 I 231 (579)
T cd00819 231 I 231 (579)
T ss_pred H
Confidence 3
No 10
>PF12162 STAT1_TAZ2bind: STAT1 TAZ2 binding domain; InterPro: IPR022752 This entry represents the C-terminal domain of STAT1, which selectively binds the TAZ2 domain of CRB (CREB-binding protein) []. This group of eukaryotic proteins is approximately 20 amino acids in length, and is found in association with PF02865 from PFAM, PF00017 from PFAM, PF01017 from PFAM, PF02864 from PFAM. By binding to CRB, it becomes a transcriptional activator and can initiate transcription of certain genes. ; GO: 0003700 sequence-specific DNA binding transcription factor activity; PDB: 2KA6_B.
Probab=46.52 E-value=19 Score=21.97 Aligned_cols=15 Identities=27% Similarity=0.392 Sum_probs=10.2
Q ss_pred CCCCHHHHHHHHHHH
Q 025479 71 SDISKAQYAKLLKQV 85 (252)
Q Consensus 71 ~pis~e~F~~L~~~v 85 (252)
-|+||+.|+.|.+-|
T Consensus 8 mPMSPddy~~l~~~V 22 (23)
T PF12162_consen 8 MPMSPDDYDELERMV 22 (23)
T ss_dssp --S-HHHHHHHHHHH
T ss_pred cCCCHHHHHHHHHhh
Confidence 599999999998654
No 11
>PF08563 P53_TAD: P53 transactivation motif; InterPro: IPR013872 The binding of this protein by regulatory proteins regulates p53 transcription activation. This entry is comprised of a single amphipathic alpha helix and contains a highly conserved motif [, ]. ; GO: 0005515 protein binding; PDB: 1YCQ_B 2Z5T_R 3DAB_B 3DAC_B 2Z5S_Q 2K8F_B 2L14_B 1YCR_B.
Probab=33.54 E-value=11 Score=23.40 Aligned_cols=15 Identities=13% Similarity=0.293 Sum_probs=9.8
Q ss_pred CCCCCHHHHHHHHHH
Q 025479 70 SSDISKAQYAKLLKQ 84 (252)
Q Consensus 70 N~pis~e~F~~L~~~ 84 (252)
+.|+|.|+|+.|++-
T Consensus 7 ~~PLSQeTF~~LW~~ 21 (25)
T PF08563_consen 7 ELPLSQETFSDLWNL 21 (25)
T ss_dssp ----STCCHHHHHHT
T ss_pred CCCccHHHHHHHHHh
Confidence 679999999999864
No 12
>PF09550 DUF2376: Conserved hypothetical phage protein (DUF2376); InterPro: IPR019056 Gene transfer agents belong to a group of unusual genetic exchange elements []. GTAs are unusual in the sense they have the structure of a small tailed phage, which do not possess typical phage traits such as host cell lysis and infectious transmission of the GTA genes. In the Rhodobacter capsulatus GTA the GTA particles contain random 4.5 kb DNA fragments of the R.capsulatus genome. These DNA fragments can be transmitted to other cells where allelic conversion may occur via homologous recombination. The genes coding for the GTA particles are of two distinct types: the first is a cluster of genes reminiscent of a cryptyic prophage, where a number of the genes have similarity to known phage structural genes; the second type consists of two genes coding for a cellular two-component signal transduction system, which regulates the transcription of the GTA structural gene cluster in a growth phase dependent manner []. This entry is represented by ORFg10.1 (RCAP_rcc01693) of the Gene Transfer Agent (GTA) of Rhodobacter capsulatus [see Fig.1, in ]. The function is not known.
Probab=31.78 E-value=62 Score=22.36 Aligned_cols=40 Identities=20% Similarity=0.343 Sum_probs=25.4
Q ss_pred CCCCcCcceeecCChHHHHHHHhhccccCCceEEEeeccccCCCCCCCHHHHHHHHHH
Q 025479 27 RGVVVNDKAFQNLTTSELQQKGATIAESLSGLPVYVRGNLLGGSSDISKAQYAKLLKQ 84 (252)
Q Consensus 27 ~gi~~~~~v~~Nl~~~~L~E~a~~~~~~~Gal~v~T~~~v~~~N~pis~e~F~~L~~~ 84 (252)
+|+.+ ..||.+++.|| ..-.+... | ..|++.+..++|.++
T Consensus 1 Lgl~P--~~FW~lTP~El-~a~~g~~~--~-------------~~pl~R~~L~~Lm~~ 40 (43)
T PF09550_consen 1 LGLSP--EEFWRLTPAEL-RAMLGADA--G-------------AAPLDRAELDALMRR 40 (43)
T ss_pred CCCCH--HHHHhcCHHHH-HHhcCccc--C-------------CCCCCHHHHHHHHHH
Confidence 35555 57999999999 33222211 1 356777777777654
No 13
>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.
Probab=28.64 E-value=1.1e+02 Score=27.33 Aligned_cols=92 Identities=14% Similarity=0.185 Sum_probs=55.1
Q ss_pred ccchhhhhhhhCCCCcCcceeecCChHHHHHHHhh----ccccCCceEEEe-----eccccCC-CCCCCHHHHHHHHH-H
Q 025479 16 FSYGLNWALAGRGVVVNDKAFQNLTTSELQQKGAT----IAESLSGLPVYV-----RGNLLGG-SSDISKAQYAKLLK-Q 84 (252)
Q Consensus 16 ~~y~~n~~L~~~gi~~~~~v~~Nl~~~~L~E~a~~----~~~~~Gal~v~T-----~~~v~~~-N~pis~e~F~~L~~-~ 84 (252)
|.-.+...|+++|.+. .++.|++..++.+.-.. ..+....++|.- ++.+.+. .++++-+..-.++. +
T Consensus 33 D~~~l~~~f~~lgF~V--~~~~nlt~~~~~~~l~~f~~~~~~~~d~~v~~~~sHG~~~~l~~~D~~~v~l~~i~~~f~~~ 110 (243)
T cd00032 33 DAENLTKLFESLGYEV--EVKNNLTAEEILEELKEFASPDHSDSDSFVCVILSHGEEGGIYGTDGDVVPIDEITSLFNGD 110 (243)
T ss_pred HHHHHHHHHHHCCCEE--EEeCCCCHHHHHHHHHHHHhccCCCCCeeEEEECCCCCCCEEEEecCcEEEHHHHHHhhccC
Confidence 3456788899999975 57999999998887422 122223333333 2234433 36666654322222 1
Q ss_pred HHHHHcCCCceEEEeeeecCCcCCc
Q 025479 85 VTAHLSSIANVFVQDGAVGSSSECD 109 (252)
Q Consensus 85 v~~yL~~~~~LfV~D~~aGAd~~~r 109 (252)
-..-|.++.+||+.|+.=|......
T Consensus 111 ~~~sl~~kPKl~~iqACRg~~~~~~ 135 (243)
T cd00032 111 NCPSLAGKPKLFFIQACRGDELDLG 135 (243)
T ss_pred CCccccCCCcEEEEECCCCCcCCCc
Confidence 1234556678999998887766544
No 14
>PF02499 DNA_pack_C: Probable DNA packing protein, C-terminus; InterPro: IPR003498 This family includes proteins that are probably involved in DNA packing in Herpesviridae. This domain is found at the C terminus of the protein.; GO: 0006323 DNA packaging; PDB: 3N4Q_C 3N4P_D 2KN8_A.
Probab=26.63 E-value=48 Score=32.37 Aligned_cols=94 Identities=18% Similarity=0.204 Sum_probs=32.3
Q ss_pred HHHHHHHHHHcCCCceEEEeeeecC-CcCCcceEEEEcchhhHHHhhhhcCCCCC---ccccCCCCCCeEEEEcCCCCCC
Q 025479 80 KLLKQVTAHLSSIANVFVQDGAVGS-SSECDAKVRVISDSPSAVLKLSSILWKTP---SRAVSHDSCPLTVYVTTSISPG 155 (252)
Q Consensus 80 ~L~~~v~~yL~~~~~LfV~D~~aGA-d~~~rl~VRvITe~AwhaLF~~nmfirP~---~~el~~f~p~fTIi~aP~f~ad 155 (252)
.+++-+--||.+ -|-+..-.|. +......-+++|+.|-..+.+ -||+ ....+...+...||.=|-|.++
T Consensus 74 ~vk~TanLFl~g---sF~~ElmGg~~~~~~~~~~~v~t~~a~~~F~l----~R~sT~~~~~~~~l~~~LyVYvDPAfT~N 146 (354)
T PF02499_consen 74 GVKKTANLFLEG---SFMTELMGGGDSNSRLSDNPVFTESALEQFDL----YRPSTVNQQFIQHLSSTLYVYVDPAFTNN 146 (354)
T ss_dssp --------------------------------------HHHHHHHHH----EEE-GGC-S-TTTB-SEEEEEEE----SS
T ss_pred HHHHHHHHhccC---chhhhhccCccccccCcCCCccchhhHhheee----ccCCCcchhhhhccCCeEEEEECCCCcCC
Confidence 344444445544 5777777773 455567889999999887743 5664 2334445788999999999998
Q ss_pred CCccCCcCCCCCCeEEEEeccCCeEEEeccC
Q 025479 156 VVNAVGLRAQGDNGFIAADIERSSLILCGKG 186 (252)
Q Consensus 156 p~~~~Gt~Se~setfiiinf~~k~ilIgGT~ 186 (252)
-... || ...++.....+.||.|=-+
T Consensus 147 t~AS-GT-----GIa~v~~~~~~~II~GlEH 171 (354)
T PF02499_consen 147 TRAS-GT-----GIAAVGRYRPKYIILGLEH 171 (354)
T ss_dssp S-----E-----EEEEEEEETTEEEEEEEEE
T ss_pred Cccc-ce-----eEEEEEEcCCCEEEEecce
Confidence 6334 76 3567777755555554333
No 15
>PF05958 tRNA_U5-meth_tr: tRNA (Uracil-5-)-methyltransferase; InterPro: IPR010280 This family consists of (uracil-5-)-methyltransferases 2.1.1.35 from EC from bacteria, archaea and eukaryotes. A 5-methyluridine (m(5)U) residue at position 54 is a conserved feature of bacterial and eukaryotic tRNAs. The methylation of U54 is catalysed by the tRNA(m5U54)methyltransferase, which in Saccharomyces cerevisiae is encoded by the nonessential TRM2 gene. It is thought that tRNA modification enzymes might have a role in tRNA maturation not necessarily linked to their known catalytic activity []. This protein family also contains the 23SrRNA methyltransferases, first proposed to be RNA methyltransferases by homology to the TrmA family. The member from Escherichia coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA [].; GO: 0008173 RNA methyltransferase activity, 0006396 RNA processing; PDB: 2VS1_A 2JJQ_A 2BH2_A 1UWV_A 3BT7_B.
Probab=26.62 E-value=71 Score=30.38 Aligned_cols=33 Identities=24% Similarity=0.171 Sum_probs=25.3
Q ss_pred CCCHHHHHHHHHHHHHHHcCCCceEEEeeeecCC
Q 025479 72 DISKAQYAKLLKQVTAHLSSIANVFVQDGAVGSS 105 (252)
Q Consensus 72 pis~e~F~~L~~~v~~yL~~~~~LfV~D~~aGAd 105 (252)
-..+++.++|++.++++|..+++ -|.|+|||.-
T Consensus 176 QvN~~~~~~l~~~~~~~l~~~~~-~vlDlycG~G 208 (352)
T PF05958_consen 176 QVNPEQNEKLYEQALEWLDLSKG-DVLDLYCGVG 208 (352)
T ss_dssp -SBHHHHHHHHHHHHHHCTT-TT-EEEEES-TTT
T ss_pred cCcHHHHHHHHHHHHHHhhcCCC-cEEEEeecCC
Confidence 45567889999999999987655 4789999976
No 16
>smart00115 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues. Cysteine aspartases that mediate programmed cell death (apoptosis). Caspases are synthesised as zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologues.
Probab=25.83 E-value=1.4e+02 Score=26.66 Aligned_cols=96 Identities=18% Similarity=0.203 Sum_probs=58.0
Q ss_pred CCCC---ccchhhhhhhhCCCCcCcceeecCChHHHHHHHhh--c-cc-cCC-ceEEEe-----eccccCC-CCCCCHHH
Q 025479 12 PGRA---FSYGLNWALAGRGVVVNDKAFQNLTTSELQQKGAT--I-AE-SLS-GLPVYV-----RGNLLGG-SSDISKAQ 77 (252)
Q Consensus 12 ~~~G---~~y~~n~~L~~~gi~~~~~v~~Nl~~~~L~E~a~~--~-~~-~~G-al~v~T-----~~~v~~~-N~pis~e~ 77 (252)
.|+| |--++...|+++|.+. .++.|++..++.+.... . .. .++ .++|.- ++.|.+. .++++-+.
T Consensus 24 ~r~g~~~D~~~l~~~f~~lgF~V--~~~~dlt~~em~~~l~~~~~~~~~~~~d~~v~~~~sHG~~~~l~~~D~~~v~l~~ 101 (241)
T smart00115 24 RRNGTDVDAENLTELFQSLGYEV--HVKNNLTAEEMLEELKEFAERPEHSDSDSFVCVLLSHGEEGGIYGTDHSPLPLDE 101 (241)
T ss_pred CCCCcHHHHHHHHHHHHHCCCEE--EEecCCCHHHHHHHHHHHHhccccCCCCEEEEEEcCCCCCCeEEEecCCEEEHHH
Confidence 4555 4556888899999975 67999999998887422 2 11 122 233333 2223332 34555544
Q ss_pred HHHHHHHHH----HHHcCCCceEEEeeeecCCcCCcceE
Q 025479 78 YAKLLKQVT----AHLSSIANVFVQDGAVGSSSECDAKV 112 (252)
Q Consensus 78 F~~L~~~v~----~yL~~~~~LfV~D~~aGAd~~~rl~V 112 (252)
|++.+. .-|.++.+||+.|+.=|........+
T Consensus 102 ---i~~~f~~~~c~~L~~kPKlffiqACRg~~~~~g~~~ 137 (241)
T smart00115 102 ---IFSLFNGDNCPSLAGKPKLFFIQACRGDELDGGVPV 137 (241)
T ss_pred ---HHHhccccCChhhcCCCcEEEEeCCCCCCCCCCeec
Confidence 444442 35778778999999888755544433
No 17
>PF03440 APT: Aerolysin/Pertussis toxin (APT) domain; InterPro: IPR005138 This is the N-terminal domain of aerolysin and pertussis toxin which contains a type-C lectin like fold. Aerolysin causes the pathogenicity of Aeromonas hydrophila, a bacterium associated with diarrhoeal diseases and deep wound infections. Like many other microbial toxins, the protein changes in a multistep process from a completely water-soluble form to produce a transmembrane channel that breaks the permeability barrier of cells []. Pertussis toxin is a major virulence factor of Bordetella pertussis, which causes whooping cough. The protein is a hexamer containing a catalytic subunit (S1) that is tightly associated with a pentameric cell-binding component (B-oligomer). ATP, detergents and phospholipids assist in activating the holotoxin by destabilising the interaction between S1 and the B-oligomer []. Pertussis toxin is an exotoxin and is an essential component of acellular vaccines [, ]. The catalytic A-subunit (S1) shares structural homology with other ADP-ribosylating bacterial toxins, although differences in the carboxy-terminal portion explain its unique activation mechanism []. The diverse biological activities of the toxin depend on its ability to recognise carbohydrate-containing receptors on a wide variety of eukaryotic cells.; GO: 0005488 binding, 0009405 pathogenesis, 0005576 extracellular region; PDB: 1PTO_I 1BCP_C 1PRT_C 3G4N_B 3C0N_B 3C0O_B 1PRE_A 1Z52_B 3C0M_A 3G4O_A ....
Probab=24.67 E-value=30 Score=27.21 Aligned_cols=16 Identities=19% Similarity=0.447 Sum_probs=10.2
Q ss_pred EEeccCCCcccchhhhHH
Q 025479 181 ILCGKGFSDANGVKEALA 198 (252)
Q Consensus 181 lIgGT~Y~YaGEiKKsIF 198 (252)
+|-|.+ |.||||.+--
T Consensus 55 vimG~g--Y~G~IK~~~~ 70 (83)
T PF03440_consen 55 VIMGSG--YNGEIKQGRP 70 (83)
T ss_dssp EEE-GG--GTSEEEE--T
T ss_pred EEECCc--cCcEeccCCC
Confidence 456888 7899998753
No 18
>PF15603 Imm45: Immunity protein 45
Probab=23.17 E-value=2.8e+02 Score=21.58 Aligned_cols=40 Identities=15% Similarity=0.174 Sum_probs=30.3
Q ss_pred cCCceEEEeec-ccc---CCCCCCCHHHHHHHHHHHHHHHcCCC
Q 025479 54 SLSGLPVYVRG-NLL---GGSSDISKAQYAKLLKQVTAHLSSIA 93 (252)
Q Consensus 54 ~~Gal~v~T~~-~v~---~~N~pis~e~F~~L~~~v~~yL~~~~ 93 (252)
..|+++|+-++ .-| ..|.||+++.=+++.+.+.++++++.
T Consensus 33 ~~~~Fvvy~~si~~We~P~e~~~it~~e~q~II~aI~~~~~~~~ 76 (82)
T PF15603_consen 33 NDGDFVVYKDSIKNWEPPHENEPITIAERQKIIEAIEKYFSERG 76 (82)
T ss_pred CCcCEEEEccccccccCCCCCcccCHHHHHHHHHHHHHHHhcCc
Confidence 44567776533 345 23789999999999999999999853
No 19
>PF11323 DUF3125: Protein of unknown function (DUF3125); InterPro: IPR021472 This family of proteins with unknown function appears to be restricted to Staphylococcus.
Probab=21.21 E-value=33 Score=24.63 Aligned_cols=27 Identities=0% Similarity=-0.034 Sum_probs=19.7
Q ss_pred HhhhhcCCCCCcc--ccCCCCCCeEEEEc
Q 025479 123 LKLSSILWKTPSR--AVSHDSCPLTVYVT 149 (252)
Q Consensus 123 LF~~nmfirP~~~--el~~f~p~fTIi~a 149 (252)
.|.+|||.+|++. -..+.+..|.++-+
T Consensus 2 ifsQnLfr~~~p~~~~~~~~e~~fS~Lga 30 (50)
T PF11323_consen 2 IFSQNLFRCPTPTCIVCRNWESNFSMLGA 30 (50)
T ss_pred ccccccccCCCCceeeeeeecccchhhcc
Confidence 4788999998876 56666667776653
Done!