Query psy1277
Match_columns 1312
No_of_seqs 177 out of 295
Neff 6.1
Searched_HMMs 29240
Date Fri Aug 16 19:13:44 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1277.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/1277hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4gmj_A CCR4-NOT transcription 100.0 1.4E-64 4.8E-69 544.0 11.4 179 1-188 48-228 (229)
2 4b89_A General negative regula 100.0 1.6E-61 5.3E-66 522.8 12.7 172 1-185 75-248 (249)
3 1elk_A Target of MYB1; superhe 16.3 4.4E+02 0.015 26.5 8.7 52 709-761 33-84 (157)
4 3g2s_A C-terminal fragment of 13.9 4.1E+02 0.014 26.6 7.7 38 857-901 111-148 (149)
5 1dvp_A HRS, hepatocyte growth 12.8 5.5E+02 0.019 27.1 8.7 52 708-761 21-72 (220)
6 3zyq_A Hepatocyte growth facto 12.7 4.9E+02 0.017 27.8 8.3 52 708-761 24-75 (226)
7 1x5b_A Signal transducing adap 12.5 5.6E+02 0.019 26.0 8.3 52 708-761 31-82 (163)
8 1juq_A ADP-ribosylation factor 11.1 6.5E+02 0.022 25.7 8.3 37 857-900 113-149 (171)
9 3vu7_H DNA repair protein REV1 8.3 2.3E+02 0.0079 27.8 3.4 53 861-915 39-91 (124)
10 1mhq_A ADP-ribosylation factor 7.9 7.4E+02 0.025 24.6 7.0 37 857-900 101-137 (148)
No 1
>4gmj_A CCR4-NOT transcription complex subunit 1; mRNA decay, deadenylase, RNA bindin; HET: GOL; 2.70A {Homo sapiens} PDB: 4gml_A
Probab=100.00 E-value=1.4e-64 Score=544.04 Aligned_cols=179 Identities=58% Similarity=0.824 Sum_probs=174.2
Q ss_pred CccccccccchHHHHHHHHhcCCchHHHHHHHHHHHHHHHHhcccccccccchhhHHHhhhhhhhhhhhccCccccccCC
Q psy1277 1 MKRASIEFNFHVLYSNFLDEIKLPDVTDMVIKETYRNIKVLLRSDKGIANFSDRTLLKNLGHWLGMLTLGRNRPILMVDL 80 (1312)
Q Consensus 1 ~~Ras~EpN~H~lY~~~l~~l~~~~l~~~vl~~T~~~i~~lL~s~k~~~~~~eRs~LKNLG~WLG~iTLarnkPI~~~~l 80 (1312)
++|||+|||||+||++|+++++++.|+++|+++||++|++||+++++.++++||++|||||+|||+|||||||||+|++|
T Consensus 48 ~~Ras~EpN~h~lY~~fl~~l~~~~l~~~vl~~T~~~i~~LL~s~~~~~~~~eR~~LKNLG~WLG~lTLarnkPI~~~~l 127 (229)
T 4gmj_A 48 MKRVSIEPNFHSLYSNFLDTLKNPEFNKMVLNETYRNIKVLLTSDKAAANFSDRSLLKNLGHWLGMITLAKNKPILHTDL 127 (229)
T ss_dssp HHTTTTCGGGHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHTSCCCTTCHHHHHHHHHHHHHHHHHTGGGTCCCCTTTC
T ss_pred HhhhhcccccHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHhhcccccchHHHHHHHHHHHHHHHHHHccCCCchhccc
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ChHHHHHHHHHhCCceeeEeehhhHHHhhhccccccCCCCchhHHHHHHHHh--hccCCCCcchhHHHHHhhcccccccc
Q psy1277 81 DLKSLVAEAYKKGQQELLYVVPFVAKVMESCSRSKLISEVEIFLASLVTLVG--VQNTLLPSSLHALIEALVALRRTRDA 158 (1312)
Q Consensus 81 ~~K~LL~eay~~g~~~L~~viPFV~KvLe~~~~SkvF~pPNPW~~~il~lL~--~~~~~lKlnLkFEIEvL~~~~~~~~~ 158 (1312)
|+|+||+|||++|+++|++||||||||||+|++|+|||||||||||||++|+ |++||||+||||||||||
T Consensus 128 ~~K~LL~eay~~g~~rL~~viPFVcKvLe~~~~S~iFkPPNPW~~~IL~lL~Ely~~~~lKlnlkFEIEvLf-------- 199 (229)
T 4gmj_A 128 DVKSLLLEAYVKGQQELLYVVPFVAKVLESSIRSVVFRPPNPWTMAIMNVLAELHQEHDLKLNLKFEIEVLC-------- 199 (229)
T ss_dssp CHHHHHHHHHHHCHHHHHHHHHHHHHHHHTTTTCTTTSTTCHHHHHHHHHHHHHHHCTTSCHHHHHHHHHHH--------
T ss_pred CHHHHHHHHHHCCCceEEEeehhHHHHHHhcccCCcCCCCChhHHHHHHHHHHHHhCccchhhHHHHHHHHH--------
Confidence 9999999999999889999999999999999999999999999999999999 999999999999999999
Q ss_pred cccccccccccccccccCCCcchhhhHHHh
Q psy1277 159 HSAVALIQKDLVPSYYLKDPDNLKFSELQL 188 (1312)
Q Consensus 159 ~k~l~l~~~~i~p~~~l~~~~~~~~i~~~~ 188 (1312)
|+|+++++||+|+++++++++.+++++++
T Consensus 200 -k~l~~~~~~i~ps~~l~~~~~~~~~~~~l 228 (229)
T 4gmj_A 200 -KNLALDINELKPGNLLKDKDRLKNLDEQL 228 (229)
T ss_dssp -HHTTCCGGGSCCCSGGGCSTTGGGCCCCC
T ss_pred -HHcCCChhhcCchhhhhccchhcccCCCC
Confidence 99999999999999999999877776554
No 2
>4b89_A General negative regulator of transcription subun; 1.50A {Saccharomyces cerevisiae S288C} PDB: 4b8a_A 4b8c_B
Probab=100.00 E-value=1.6e-61 Score=522.80 Aligned_cols=172 Identities=30% Similarity=0.480 Sum_probs=157.9
Q ss_pred CccccccccchHHHHHHHHhcCCchHHHHHHHHHHHHHHHHhcccccccccchhhHHHhhhhhhhhhhhccCccccccCC
Q psy1277 1 MKRASIEFNFHVLYSNFLDEIKLPDVTDMVIKETYRNIKVLLRSDKGIANFSDRTLLKNLGHWLGMLTLGRNRPILMVDL 80 (1312)
Q Consensus 1 ~~Ras~EpN~H~lY~~~l~~l~~~~l~~~vl~~T~~~i~~lL~s~k~~~~~~eRs~LKNLG~WLG~iTLarnkPI~~~~l 80 (1312)
++||++|||||+||++|+++++++.|+++|+++||++|++||++++. + ++||++|||||+|||+|||||||||+||+|
T Consensus 75 ~~Ra~~EpN~H~lY~~~l~~l~~~~L~~~vl~~T~~~i~~LL~~~~i-~-~~eRs~LKNLG~WLG~iTLarNkPI~~~~l 152 (249)
T 4b89_A 75 TQRAKTEPNYHDLYSKVIVAMGSGLLHQFMVNVTLRQLFVLLSTKDE-Q-AIDKKHLKNLASWLGCITLALNKPIKHKNI 152 (249)
T ss_dssp HHTTTTCGGGHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHTBSCG-G-GSCHHHHHHHHHHHHHHTGGGTCCCCTTTB
T ss_pred hhhhhcCCccHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhccc-C-hHHHHHHHHHHHHHhHHHHhcCCCchhccc
Confidence 47999999999999999999999999999999999999999988764 3 689999999999999999999999999999
Q ss_pred ChHHHHHHHHHhCCceeeEeehhhHHHhhhccccccCCCCchhHHHHHHHHh--hccCCCCcchhHHHHHhhcccccccc
Q psy1277 81 DLKSLVAEAYKKGQQELLYVVPFVAKVMESCSRSKLISEVEIFLASLVTLVG--VQNTLLPSSLHALIEALVALRRTRDA 158 (1312)
Q Consensus 81 ~~K~LL~eay~~g~~~L~~viPFV~KvLe~~~~SkvF~pPNPW~~~il~lL~--~~~~~lKlnLkFEIEvL~~~~~~~~~ 158 (1312)
|+|+||+|||++|+ |.+|||||||||++|++|+||+||||||||||++|+ |+.||||+||||||||||
T Consensus 153 d~K~LL~eay~~g~--L~~vIPFVcKvLe~~k~SkiFkPPNPWt~~IL~lL~Ely~~~~LKlnlkFEIEvL~-------- 222 (249)
T 4b89_A 153 AFREMLIEAYKENR--LEIVVPFVTKILQRASESKIFKPPNPWTVGILKLLIELNEKANWKLSLTFEVEVLL-------- 222 (249)
T ss_dssp CHHHHHHHHHHHTC--HHHHHHHHHHHHGGGTTCSSSSTTCHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHH--------
T ss_pred CHHHHHHHHHHcCC--eEEEeeHHHHHHHhcccCCccCCCCchHHHHHHHHHHHHhCcchhHhHHHHHHHHH--------
Confidence 99999999999998 889999999999999999999999999999999999 999999999999999999
Q ss_pred cccccccccccccccccCCCcchhhhH
Q psy1277 159 HSAVALIQKDLVPSYYLKDPDNLKFSE 185 (1312)
Q Consensus 159 ~k~l~l~~~~i~p~~~l~~~~~~~~i~ 185 (1312)
|+|++|++||+|+++|+++++++++.
T Consensus 223 -k~l~l~l~~i~ps~~l~~~~~~~~~~ 248 (249)
T 4b89_A 223 -KSFNLTTKSLKPSNFINTPEVIETLS 248 (249)
T ss_dssp -HHTTCCGGGSCCCCCC----------
T ss_pred -HHcCCChHhCCcccccCCHHHHHhhc
Confidence 99999999999999999999876654
No 3
>1elk_A Target of MYB1; superhelix of helices, endocytosis/exocytosis complex; 1.50A {Homo sapiens} SCOP: a.118.9.2
Probab=16.31 E-value=4.4e+02 Score=26.51 Aligned_cols=52 Identities=15% Similarity=0.234 Sum_probs=31.3
Q ss_pred cccccHHHHHHHHHhccCCchHHHHHHHHHHHcCCChhHHHHHHHHHHHHhhc
Q psy1277 709 EYRYNLEAVDTLIRAQLIHLPQYDLALAHSMENGLNYVAVAFCMQLLQHYLVE 761 (1312)
Q Consensus 709 erk~n~~vi~~Lir~~Li~~~elD~~Lak~i~~~~~~~av~Fa~~lv~~~l~~ 761 (1312)
++..++++.. +|+.+-.+..+-=.+|.|-+....|+...-+|..|++.|+-.
T Consensus 33 Dw~~~leicD-~I~~~~~~~k~a~ral~krl~~~~n~~v~l~AL~LLd~~vkN 84 (157)
T 1elk_A 33 DWALNMEICD-IINETEEGPKDALRAVKKRIVGNKNFHEVMLALTVLETCVKN 84 (157)
T ss_dssp CHHHHHHHHH-HHHHSSSHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHH-HHhCCCccHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHH
Confidence 3445555444 555554455555556666665434666667888888888764
No 4
>3g2s_A C-terminal fragment of sortilin-related receptor; ADP-ribosylation factor binding protein GGA1, VHS, acidic- cluster dileucine signal, sorla; 1.70A {Homo sapiens} SCOP: a.118.9.2 PDB: 3g2t_A* 3g2u_A 3g2v_A* 3g2w_A 1ujk_A* 1jwf_A 1ujj_A 1jwg_A* 1py1_A*
Probab=13.90 E-value=4.1e+02 Score=26.63 Aligned_cols=38 Identities=18% Similarity=0.183 Sum_probs=28.4
Q ss_pred CChHHHHHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHHHcCCcc
Q psy1277 857 PGLFEKTEYLLREWVTIYHSPAGVKDPNKAFTLFVHQMNCHGILK 901 (1312)
Q Consensus 857 ~~l~eq~~~lf~EWv~l~~~~~~~~~~e~~~~~FI~qL~~~GILk 901 (1312)
+..++++-.++.+|-.-+.+. ..+..--..|..+|+.+
T Consensus 111 ~~Vk~kil~li~~W~~~f~~~-------p~i~~~Y~~Lk~~Giv~ 148 (149)
T 3g2s_A 111 EKVKNKILELLYSWTVGLPEE-------VKIAEAYQMLKKQGIVK 148 (149)
T ss_dssp HHHHHHHHHHHHHHHHHCTTC-------HHHHHHHHHHHHTTCCC
T ss_pred HHHHHHHHHHHHHHHHHhCCC-------chHHHHHHHHHHCcCcC
Confidence 346899999999999887432 23566667888899975
No 5
>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate; VHS, FYVE, zinc finger, superhelix, transferase; HET: CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2 g.50.1.1
Probab=12.78 E-value=5.5e+02 Score=27.09 Aligned_cols=52 Identities=13% Similarity=0.134 Sum_probs=33.1
Q ss_pred ccccccHHHHHHHHHhccCCchHHHHHHHHHHHcCCChhHHHHHHHHHHHHhhc
Q psy1277 708 EEYRYNLEAVDTLIRAQLIHLPQYDLALAHSMENGLNYVAVAFCMQLLQHYLVE 761 (1312)
Q Consensus 708 derk~n~~vi~~Lir~~Li~~~elD~~Lak~i~~~~~~~av~Fa~~lv~~~l~~ 761 (1312)
+++..++++.. +|+.+-.+..+.=.+|.|-|..+ |+...-.|..|++.++.+
T Consensus 21 ~dw~~~leicd-~i~~~~~~~k~a~r~l~krl~~~-n~~~~l~aL~Lle~~vkN 72 (220)
T 1dvp_A 21 PDWPSILLICD-EINQKDVTPKNAFAAIKKKMNSP-NPHSSCYSLLVLESIVKN 72 (220)
T ss_dssp CCHHHHHHHHH-HHHTTSSCHHHHHHHHHHHHTCS-SHHHHHHHHHHHHHHHHH
T ss_pred cCHHHHHHHHH-hhcCCCcCHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHHHhc
Confidence 34445555444 45555556666666677767665 666777888888887764
No 6
>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate; signaling; 1.48A {Homo sapiens} PDB: 4avx_A*
Probab=12.70 E-value=4.9e+02 Score=27.77 Aligned_cols=52 Identities=12% Similarity=0.195 Sum_probs=32.8
Q ss_pred ccccccHHHHHHHHHhccCCchHHHHHHHHHHHcCCChhHHHHHHHHHHHHhhc
Q psy1277 708 EEYRYNLEAVDTLIRAQLIHLPQYDLALAHSMENGLNYVAVAFCMQLLQHYLVE 761 (1312)
Q Consensus 708 derk~n~~vi~~Lir~~Li~~~elD~~Lak~i~~~~~~~av~Fa~~lv~~~l~~ 761 (1312)
+++..++++.. +|+.+-.+..+-=.+|.|-|.++ |+...-.|..|++.|+-+
T Consensus 24 ~dw~~ileicD-~I~~~~~~~k~a~ral~krl~~~-n~~v~l~aL~LLe~~vkN 75 (226)
T 3zyq_A 24 TDWESILQICD-LIRQGDTQAKYAVNSIKKKVNDK-NPHVALYALEVMESVVKN 75 (226)
T ss_dssp CCHHHHHHHHH-HHHTTSSCHHHHHHHHHHHHTCS-SHHHHHHHHHHHHHHHHH
T ss_pred cCHHHHHHHHH-HHhCCCccHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHHHHh
Confidence 34455555444 45555555556566677777655 666777888888877753
No 7
>1x5b_A Signal transducing adaptor molecule 2; VHS domain, ubiquitin binding, STAM2, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2l0t_B
Probab=12.49 E-value=5.6e+02 Score=25.96 Aligned_cols=52 Identities=10% Similarity=0.081 Sum_probs=30.7
Q ss_pred ccccccHHHHHHHHHhccCCchHHHHHHHHHHHcCCChhHHHHHHHHHHHHhhc
Q psy1277 708 EEYRYNLEAVDTLIRAQLIHLPQYDLALAHSMENGLNYVAVAFCMQLLQHYLVE 761 (1312)
Q Consensus 708 derk~n~~vi~~Lir~~Li~~~elD~~Lak~i~~~~~~~av~Fa~~lv~~~l~~ 761 (1312)
+++-.++++.. +|+.+-.+..+-=.+|.|-|..+ ++...-.|..|++.|+-.
T Consensus 31 ~Dw~~~leicD-~I~~~~~~~keA~ral~krl~~~-n~~vql~AL~LLd~~vkN 82 (163)
T 1x5b_A 31 EDWSLIMDICD-KVGSTPNGAKDCLKAIMKRVNHK-VPHVALQALTLLGACVAN 82 (163)
T ss_dssp CCHHHHHHHHH-HHHHSSSHHHHHHHHHHHHHTCS-SHHHHHHHHHHHHHHHHH
T ss_pred cCHHHHHHHHH-HHhCCCccHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHHHHH
Confidence 34444554443 55555444555455566666655 555666788888888764
No 8
>1juq_A ADP-ribosylation factor binding protein GGA3; protein-peptide compelx, VHS domain, DXXLL sorting signal, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.9.2 PDB: 1jpl_A 1lf8_A*
Probab=11.09 E-value=6.5e+02 Score=25.70 Aligned_cols=37 Identities=19% Similarity=0.236 Sum_probs=27.0
Q ss_pred CChHHHHHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHHHcCCc
Q psy1277 857 PGLFEKTEYLLREWVTIYHSPAGVKDPNKAFTLFVHQMNCHGIL 900 (1312)
Q Consensus 857 ~~l~eq~~~lf~EWv~l~~~~~~~~~~e~~~~~FI~qL~~~GIL 900 (1312)
+..++++-.++.+|-.-+... + .+..--..|..+|+-
T Consensus 113 ~~Vk~kil~li~~W~~~f~~~-----~--~i~~~y~~Lk~~G~~ 149 (171)
T 1juq_A 113 EKVKTKVIELLYSWTMALPEE-----A--KIKDAYHMLKRQGIV 149 (171)
T ss_dssp HHHHHHHHHHHHHHHHHCTTC-----H--HHHHHHHHHHHTTSC
T ss_pred HHHHHHHHHHHHHHHHHcCCC-----c--HHHHHHHHHHHCCCC
Confidence 346899999999999887432 2 355556678888985
No 9
>3vu7_H DNA repair protein REV1; DNA replication, translesion DNA synthesis, damage tolerance, DNA repair, replication; HET: DNA; 2.80A {Homo sapiens} PDB: 2lsj_A*
Probab=8.35 E-value=2.3e+02 Score=27.81 Aligned_cols=53 Identities=17% Similarity=0.333 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHHHcCCccCcchHHHHHHHHHH
Q psy1277 861 EKTEYLLREWVTIYHSPAGVKDPNKAFTLFVHQMNCHGILKSDELITRFFRFATS 915 (1312)
Q Consensus 861 eq~~~lf~EWv~l~~~~~~~~~~e~~~~~FI~qL~~~GILk~de~~~~FfR~~~E 915 (1312)
..+..++.+|+.-+..|.. .+-..+..|+.+|.+.+=|..=..+.+|++-+++
T Consensus 39 ~evK~lL~~Wv~s~~~P~~--~DV~~l~~yL~~lVeek~Lek~~~vlk~l~rlv~ 91 (124)
T 3vu7_H 39 NDVKTLLREWITTISDPME--EDILQVVKYCTDLIEEKDLEKLDLVIKYMKRLMQ 91 (124)
T ss_dssp HHHHHHHHHHHHHHCSCCH--HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHh
Confidence 6788899999998776641 1224466777777765444333344445555543
No 10
>1mhq_A ADP-ribosylation factor binding protein GGA2; super helix, protein transport; 2.20A {Homo sapiens} SCOP: a.118.9.2
Probab=7.86 E-value=7.4e+02 Score=24.63 Aligned_cols=37 Identities=11% Similarity=0.164 Sum_probs=27.1
Q ss_pred CChHHHHHHHHHHHHHHhcCCCCCCCCchHHHHHHHHHHHcCCc
Q psy1277 857 PGLFEKTEYLLREWVTIYHSPAGVKDPNKAFTLFVHQMNCHGIL 900 (1312)
Q Consensus 857 ~~l~eq~~~lf~EWv~l~~~~~~~~~~e~~~~~FI~qL~~~GIL 900 (1312)
+..++++-.++.+|-.-+.+. + .+...-..|..+|+-
T Consensus 101 ~~Vk~kil~li~~W~~~f~~~-----p--~i~~~y~~Lk~~G~~ 137 (148)
T 1mhq_A 101 GKVKGRVIEILFSWTVWFPED-----I--KIRDAYQMLKKQGII 137 (148)
T ss_dssp HHHHHHHHHHHHHHHHHCTTC-----H--HHHHHHHHHHHTTSS
T ss_pred HHHHHHHHHHHHHHHHHcCCC-----c--hHHHHHHHHHHcCCC
Confidence 346899999999999887432 2 255566678888984
Done!