Query 004062
Match_columns 776
No_of_seqs 171 out of 326
Neff 3.5
Searched_HMMs 29240
Date Mon Mar 25 13:02:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004062.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/004062hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1ul4_A SPL4, squamosa promoter 100.0 2.5E-40 8.4E-45 294.6 -1.5 91 164-254 2-92 (94)
2 1ul5_A SPL7, squamosa promoter 100.0 1.9E-38 6.4E-43 279.7 -3.5 83 169-251 2-84 (88)
3 1wj0_A Squamosa promoter-bindi 99.9 1.1E-29 3.7E-34 210.4 0.6 59 169-227 2-60 (60)
4 2cxk_A Camta1, calmodulin bind 40.8 45 0.0015 29.4 5.7 69 679-761 6-74 (95)
5 1uad_C RSEC5, exocyst complex 36.4 32 0.0011 30.3 4.1 41 677-719 5-46 (99)
6 1pby_A Quinohemoprotein amine 20.5 1.7E+02 0.0057 33.2 7.0 37 677-713 273-314 (489)
7 1jmx_A Amine dehydrogenase; ox 20.0 1.7E+02 0.0058 33.2 6.9 29 679-707 283-311 (494)
8 3fau_A NEDD4-binding protein 2 18.6 49 0.0017 27.8 1.8 31 584-615 51-81 (82)
9 2ptm_A Hyperpolarization-activ 17.8 1.2E+02 0.0041 27.8 4.5 27 646-672 98-127 (198)
10 1vk6_A NADH pyrophosphatase; 1 17.0 30 0.001 35.3 0.2 37 185-222 100-136 (269)
No 1
>1ul4_A SPL4, squamosa promoter binding protein-like 4; transcription factor, SBP, flower development, DNA binding protein, structural genomics; NMR {Arabidopsis thaliana} SCOP: g.72.1.1
Probab=100.00 E-value=2.5e-40 Score=294.59 Aligned_cols=91 Identities=60% Similarity=1.044 Sum_probs=80.4
Q ss_pred CCCCCCCCCcccCCChhhhhcchhhhccccccccccCCcEEeECCccchHhhhcccCCCCCCccCccchHHHHHhhHHhh
Q 004062 164 SPGTAPYPMCQVDNCKEDLSNAKDYHRRHKVCELHSKSTKALVGKQMQRFCQQCSRFHPLSEFDEGKRSCRRRLAGHNRR 243 (776)
Q Consensus 164 ~~g~~~~~~CQVdGC~~dLs~~k~Y~rRhrVCe~H~kA~~V~v~G~~qRFCQQCsrFH~L~eFDg~kRSCR~rLa~hn~R 243 (776)
++|+++.++||||||.+||+.+|.||+||||||+|+||++|+++|+++||||||+|||+|+|||++|||||+||++||+|
T Consensus 2 ~~~~~~~~~CqV~GC~~dL~~~k~Y~rR~rvCe~H~ka~~V~~~G~~~RFCQQCsrFH~L~eFD~~kRSCR~rL~~hn~R 81 (94)
T 1ul4_A 2 SSGSSGLRLCQVDRCTADMKEAKLYHRRHKVCEVHAKASSVFLSGLNQRFCQQCSRFHDLQEFDEAKRSCRRRLAGHNER 81 (94)
T ss_dssp ------CCCCSSTTCCCCCTTCCHHHHHTTCCHHHHTCSCEEETTEEEEECTTTSSEEETTTCCSSCCSCSTTTTCCCCC
T ss_pred CCCCCCCCceecCCCCcchhhHHHHHHhhhhhHHHhcCCEEEECChhHHHHHHHhccCCHHHhccccchHHHHHHHHHHH
Confidence 34457889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccCCCccccc
Q 004062 244 RRKTQPEDITS 254 (776)
Q Consensus 244 RRk~qp~~~~~ 254 (776)
|||++++..++
T Consensus 82 RRk~~~~~~~~ 92 (94)
T 1ul4_A 82 RRKSSGESGPS 92 (94)
T ss_dssp CCSCCCC----
T ss_pred hccCCCCcCCC
Confidence 99999998653
No 2
>1ul5_A SPL7, squamosa promoter binding protein-like 7; transcription factor, SBP, flower development, DNA binding protein, structural genomics; NMR {Arabidopsis thaliana} SCOP: g.72.1.1
Probab=100.00 E-value=1.9e-38 Score=279.72 Aligned_cols=83 Identities=43% Similarity=0.919 Sum_probs=78.4
Q ss_pred CCCCcccCCChhhhhcchhhhccccccccccCCcEEeECCccchHhhhcccCCCCCCccCccchHHHHHhhHHhhhccCC
Q 004062 169 PYPMCQVDNCKEDLSNAKDYHRRHKVCELHSKSTKALVGKQMQRFCQQCSRFHPLSEFDEGKRSCRRRLAGHNRRRRKTQ 248 (776)
Q Consensus 169 ~~~~CQVdGC~~dLs~~k~Y~rRhrVCe~H~kA~~V~v~G~~qRFCQQCsrFH~L~eFDg~kRSCR~rLa~hn~RRRk~q 248 (776)
..++||||||++||+.+|.||+||||||.|+||++|+++|+++||||||+|||+|+|||++|||||++|++||+||||+.
T Consensus 2 ~~~~CqV~GC~~dLs~~k~Y~rR~rvCe~H~ka~~v~~~G~~~RFCQQC~rFH~L~eFD~~kRSCR~rL~~hn~RRR~~~ 81 (88)
T 1ul5_A 2 SVARCQVPDCEADISELKGYHKRHRVCLRCATASFVVLDGENKRYCQQCGKFHLLPDFDEGKRSCRRKLERHNNRRKRKP 81 (88)
T ss_dssp -CCSCEETTEECCCSSCCSSSGGGTCCHHHHHHSEEEETTEEEEECTTTSSEEEGGGBCSSTTSBSSSCCCSSSCCCCCS
T ss_pred CCCeeecCCCCCChhHhhHHHhhccccHHHcCCCEEEECCEeeHHHHHhccccChhhhccccchHHHHHHHHHHHhccCC
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999988865
Q ss_pred Ccc
Q 004062 249 PED 251 (776)
Q Consensus 249 p~~ 251 (776)
.+.
T Consensus 82 ~~~ 84 (88)
T 1ul5_A 82 VDK 84 (88)
T ss_dssp CSS
T ss_pred ccC
Confidence 553
No 3
>1wj0_A Squamosa promoter-binding protein-like 12; DNA-binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: g.72.1.1
Probab=99.95 E-value=1.1e-29 Score=210.40 Aligned_cols=59 Identities=75% Similarity=1.229 Sum_probs=57.1
Q ss_pred CCCCcccCCChhhhhcchhhhccccccccccCCcEEeECCccchHhhhcccCCCCCCcc
Q 004062 169 PYPMCQVDNCKEDLSNAKDYHRRHKVCELHSKSTKALVGKQMQRFCQQCSRFHPLSEFD 227 (776)
Q Consensus 169 ~~~~CQVdGC~~dLs~~k~Y~rRhrVCe~H~kA~~V~v~G~~qRFCQQCsrFH~L~eFD 227 (776)
+.++||||||++||+.+|+|||||||||.|+||++|+++|.++||||||+|||+|+|||
T Consensus 2 ~~~~CqV~gC~~dl~~~k~Y~rR~rvCe~H~ka~~v~~~G~~~RFCQQCsrFH~L~eFD 60 (60)
T 1wj0_A 2 SAICCQVDNCGADLSKVKDYHRRHKVCEIHSKATTALVGGIMQRFCQQCSRFHVLEEFD 60 (60)
T ss_dssp -CEECSSTTCCCEETSCCSSTTTTTCCHHHHTCSCEEETTEEECCCSSSCSCCBTTSCC
T ss_pred CCceeecCCCCcChhHhHHHhhccccChhHcCCCEEEECCEEEehhhhccCccCcccCC
Confidence 46899999999999999999999999999999999999999999999999999999998
No 4
>2cxk_A Camta1, calmodulin binding transcription activator 1; structural genomics, TIG/IPT domain, NPPSFA; 1.85A {Homo sapiens} SCOP: b.1.18.1
Probab=40.80 E-value=45 Score=29.45 Aligned_cols=69 Identities=12% Similarity=0.048 Sum_probs=49.1
Q ss_pred CCeeeEecceEEecCCeeEEEEEeeccCCCCceEEEeecCccceeeeccccCCCCcccceeEeeeeecCCCCCCCcceEE
Q 004062 679 SPELISVSPLAVVGGQELSFKLRGRNLTNLGTKIHCTFMGGYASQEVTSSTCQGSIYDEIILAGLKIQDTSPSVLGRFFI 758 (776)
Q Consensus 679 ~P~I~sV~PiAv~ag~~~~f~v~G~NL~~p~tRlLcs~~GkYL~~E~~~~~~~g~~~d~~~~~~~~~~~s~P~~~Gr~FI 758 (776)
.=.|..++|-+...+..+.+.|.|.+|.. +.++-|.|.+.-..+|.... ..|.|. +.|...|+.=|
T Consensus 6 ~~~Itd~sP~~gp~sGGTkv~I~G~~L~~-gs~~~~~fG~~~vpa~~~s~-------~vl~C~------tPp~~~G~v~~ 71 (95)
T 2cxk_A 6 SGMVTDYSPEWSYPEGGVKVLITGPWQEA-SNNYSCLFDQISVPASLIQP-------GVLRCY------CPAHDTGLVTL 71 (95)
T ss_dssp CSCCCEEECSEECTTCCCEEEEESSCCCC-SSCEEEEETTEEEECEEEET-------TEEEEE------CCCCCSEEEEE
T ss_pred cEEEEEECCCcccCCCCEEEEEEeECCCC-CccEEEEECCEEEeEEEeEC-------CEEEEE------ecCCCCceEeE
Confidence 34899999999999999999999999965 45899999886555665431 123333 34456666655
Q ss_pred EEe
Q 004062 759 EVQ 761 (776)
Q Consensus 759 EVE 761 (776)
.|.
T Consensus 72 ~v~ 74 (95)
T 2cxk_A 72 QVA 74 (95)
T ss_dssp EEE
T ss_pred EEE
Confidence 555
No 5
>1uad_C RSEC5, exocyst complex component SEC5; small GTP-binding protein, immunogloblin-like fold, beta- sandwich, endocytosis/exocytosis complex; HET: GNP; 2.10A {Rattus norvegicus} SCOP: b.1.18.18 PDB: 1hk6_A
Probab=36.37 E-value=32 Score=30.26 Aligned_cols=41 Identities=24% Similarity=0.285 Sum_probs=33.2
Q ss_pred CCCCeeeEecceEEecCCeeEEEEEeeccCCCCceE-EEeecCc
Q 004062 677 WSSPELISVSPLAVVGGQELSFKLRGRNLTNLGTKI-HCTFMGG 719 (776)
Q Consensus 677 ~~~P~I~sV~PiAv~ag~~~~f~v~G~NL~~p~tRl-Lcs~~Gk 719 (776)
.-.|+|..++|..-.-| +.++++|.||......+ -+.+.|.
T Consensus 5 ~p~P~It~i~P~~Gp~G--T~vTI~G~nlg~~~sdv~~V~vgg~ 46 (99)
T 1uad_C 5 RQPPLVTGISPNEGIPW--TKVTIRGENLGTGPTDLIGLTICGH 46 (99)
T ss_dssp CCCCEEEEEESSEESTT--CEEEEEEECSCSSGGGEEEEEETTE
T ss_pred CCCCEEEEEECCCcCCC--CEEEEEEEeCCCCcccceEEEECCE
Confidence 34689999999998665 99999999998876665 4777774
No 6
>1pby_A Quinohemoprotein amine dehydrogenase 60 kDa subunit; oxidoreductase; HET: TRW HEM; 1.70A {Paracoccus denitrificans} SCOP: a.3.1.7 a.3.1.7 b.1.18.14 b.1.18.14 b.61.4.1 PDB: 1jju_A*
Probab=20.52 E-value=1.7e+02 Score=33.17 Aligned_cols=37 Identities=22% Similarity=0.397 Sum_probs=32.7
Q ss_pred CCCCeeeEecceEEecCCeeEEEEEeeccCC-----CCceEE
Q 004062 677 WSSPELISVSPLAVVGGQELSFKLRGRNLTN-----LGTKIH 713 (776)
Q Consensus 677 ~~~P~I~sV~PiAv~ag~~~~f~v~G~NL~~-----p~tRlL 713 (776)
...|+|+.|.|-++.+|.+++++|-|.+|.. ++-+++
T Consensus 273 ~~~~~~~av~P~~l~aG~~~~~~i~G~gL~g~~~l~~gv~v~ 314 (489)
T 1pby_A 273 DAAPQVLAVAPARLKIGEETQLRVAGTGLGSDLTLPEGVAGS 314 (489)
T ss_dssp TCSSEEEEEESCEEETTCCEEEEEEEESCCSCEECCTTEEEE
T ss_pred CCCceEEEeChhhhcCCCceEEEEEecccccccccCCceEEE
Confidence 6789999999999999999999999999996 345555
No 7
>1jmx_A Amine dehydrogenase; oxidoreductase; HET: TRQ HEC; 1.90A {Pseudomonas putida} SCOP: a.3.1.7 a.3.1.7 b.1.18.14 b.1.18.14 b.61.4.1 PDB: 1jmz_A*
Probab=20.01 E-value=1.7e+02 Score=33.18 Aligned_cols=29 Identities=28% Similarity=0.466 Sum_probs=28.3
Q ss_pred CCeeeEecceEEecCCeeEEEEEeeccCC
Q 004062 679 SPELISVSPLAVVGGQELSFKLRGRNLTN 707 (776)
Q Consensus 679 ~P~I~sV~PiAv~ag~~~~f~v~G~NL~~ 707 (776)
.|+|+.|.|-.+.+|.+++++|-|.+|..
T Consensus 283 ~~~~~av~p~~~~ag~~~~~~i~G~gl~g 311 (494)
T 1jmx_A 283 KARLLAVQPAFIKAGGESEITLVGSGLAG 311 (494)
T ss_dssp SCEEEEEESSEEETTCEEEEEEEEESCCS
T ss_pred CceEEEEChhhhcCCCceEEEEEeccccc
Confidence 99999999999999999999999999996
No 8
>3fau_A NEDD4-binding protein 2; SMR, small-MUTS related domain, nicking endonuclease, alternative splicing, ATP-binding, coiled coil, cytoplasm, hydrolase; 1.90A {Homo sapiens} SCOP: d.68.8.1
Probab=18.63 E-value=49 Score=27.80 Aligned_cols=31 Identities=19% Similarity=0.539 Sum_probs=23.6
Q ss_pred ChhhHHHHHHHhcCCCccccccccCCceEEee
Q 004062 584 PGTLRKEIYNWLSNSPSEMESYIRPGCVILSL 615 (776)
Q Consensus 584 P~~LR~QIl~WLs~sPtdmEgYIRPGCviLTI 615 (776)
...||..|.+||...|-..+. .-|||+.+.+
T Consensus 51 ~~~Lk~~V~~~L~~~~~~~~e-~n~G~l~V~l 81 (82)
T 3fau_A 51 VARIKPAVIKYLISHSFRFSE-IKPGCLKVML 81 (82)
T ss_dssp --CHHHHHHHHHHHTTCCEEE-EETTEEEEEC
T ss_pred cchHHHHHHHHHHhCCCceee-CCCEEEEEEe
Confidence 356999999999998866543 5899988764
No 9
>2ptm_A Hyperpolarization-activated (IH) channel; ION channel, cyclic nucleotide binding domain, C-linker, CAM SPHCN1, HCN; HET: CMP; 1.93A {Strongylocentrotus purpuratus}
Probab=17.84 E-value=1.2e+02 Score=27.77 Aligned_cols=27 Identities=11% Similarity=0.386 Sum_probs=17.9
Q ss_pred ccccceEEEEe---CceeEEeeCCeEEEee
Q 004062 646 FWRNARFLVHT---GKQLASHKDGNIRVCK 672 (776)
Q Consensus 646 fWr~G~~lVqv---~~qla~~~dG~vvl~~ 672 (776)
....|-++++- .+.+.++..|.|.+..
T Consensus 98 ~~~~ge~I~~~G~~~~~ly~I~~G~v~~~~ 127 (198)
T 2ptm_A 98 VFQPADYVIQEGTFGDRMFFIQQGIVDIIM 127 (198)
T ss_dssp EECTTCEEECTTSCCSEEEEEEECCEEEEC
T ss_pred eeCCCCEEEECCCcCcEEEEEEeCEEEEEe
Confidence 34456666554 3567888999887764
No 10
>1vk6_A NADH pyrophosphatase; 1790429, structural genomics, JCSG, PS protein structure initiative, joint center for structural G hydrolase; HET: MSE; 2.20A {Escherichia coli} SCOP: d.113.1.4 d.113.1.4 g.41.14.1 PDB: 2gb5_A
Probab=16.96 E-value=30 Score=35.31 Aligned_cols=37 Identities=16% Similarity=0.325 Sum_probs=28.3
Q ss_pred chhhhccccccccccCCcEEeECCccchHhhhcccCCC
Q 004062 185 AKDYHRRHKVCELHSKSTKALVGKQMQRFCQQCSRFHP 222 (776)
Q Consensus 185 ~k~Y~rRhrVCe~H~kA~~V~v~G~~qRFCQQCsrFH~ 222 (776)
+..+|++++-|..+-. +....++...+.|..|+..|-
T Consensus 100 l~~w~~~~~fC~~CG~-~~~~~~~~~~~~C~~C~~~~y 136 (269)
T 1vk6_A 100 LAEFYRSHKYCGYCGH-EMYPSKTEWAMLCSHCRERYY 136 (269)
T ss_dssp HHHHHHTTSBCTTTCC-BEEECSSSSCEEESSSSCEEC
T ss_pred HHhhhhcCCccccCCC-cCccCCCceeeeCCCCCCEec
Confidence 3468899999977654 555567778899999997663
Done!