Query psy12208
Match_columns 392
No_of_seqs 98 out of 118
Neff 4.3
Searched_HMMs 29240
Date Fri Aug 16 21:35:36 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12208.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/12208hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1lyp_A CAP18; lipopolysacchari 16.6 1.1E+02 0.0036 20.3 2.6 26 181-206 4-30 (32)
2 4fla_A Regulation of nuclear P 13.8 5.3E+02 0.018 22.4 7.3 47 9-60 103-149 (152)
3 3vp9_A General transcriptional 11.2 3.7E+02 0.013 21.9 5.1 45 109-163 39-83 (92)
4 1vcs_A Vesicle transport throu 8.3 7.6E+02 0.026 19.6 6.0 49 302-358 35-83 (102)
5 3fs3_A Nucleosome assembly pro 7.5 1.2E+03 0.04 23.2 8.0 78 178-276 13-98 (359)
6 2qyw_A Vesicle transport throu 7.3 8.7E+02 0.03 19.3 6.7 49 302-358 46-94 (102)
7 1a93_B MAX protein, coiled coi 6.3 3.7E+02 0.013 18.3 2.6 21 308-328 10-30 (34)
8 3onj_A T-snare VTI1; helix, HA 5.9 1E+03 0.035 18.7 6.3 49 302-358 31-81 (97)
9 2ke4_A CDC42-interacting prote 5.7 5.4E+02 0.019 20.8 3.8 24 202-225 9-32 (98)
10 2c5k_P Vacuolar protein sortin 5.1 1.1E+02 0.0037 19.8 -0.6 20 356-379 1-20 (26)
No 1
>1lyp_A CAP18; lipopolysaccharide-binding protein; NMR {Oryctolagus cuniculus} SCOP: j.17.1.1
Probab=16.58 E-value=1.1e+02 Score=20.27 Aligned_cols=26 Identities=31% Similarity=0.740 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHH-hhCCh
Q psy12208 181 RELKEFRESQKQEMRLLKQEV-DLMPK 206 (392)
Q Consensus 181 kEL~~F~e~LK~e~Ke~kqEv-~~lPK 206 (392)
+.|.+|++-.|+.+|..-+.+ ..+|+
T Consensus 4 krlrkfrnkikeklkkigqkiqgllpk 30 (32)
T 1lyp_A 4 KRLRKFRNKIKEKLKKIGQKIQGLLPK 30 (32)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 458899999999998877666 34454
No 2
>4fla_A Regulation of nuclear PRE-mRNA domain-containing 1B; structural genomics consortium, SGC, transcription; 2.20A {Homo sapiens}
Probab=13.82 E-value=5.3e+02 Score=22.40 Aligned_cols=47 Identities=21% Similarity=0.230 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHhhhCCH
Q psy12208 9 LLVSKAEIQQEAELRLASKKIRSEQERELKEFRESQKQEMRLLKQEVDLMPK 60 (392)
Q Consensus 9 ~~iEk~E~~q~~~lr~~akrik~eQeKel~~F~e~LK~~~Ke~K~ev~~~pk 60 (392)
..++..-..+...+.+.-+++ .+|+.|.+.+++-+++|+.-|+.||-
T Consensus 103 ~~L~~~~~~~~~~l~e~e~~l-----eeyK~Kl~rv~~vkkeL~~hi~sLPD 149 (152)
T 4fla_A 103 RMLVEYTQNQKDVLSEKEKKL-----EEYKQKLARVTQVRKELKSHIQSLPD 149 (152)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHTCC-
T ss_pred HHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHhhcCCc
Confidence 344444445555554444443 27888888888888888888888873
No 3
>3vp9_A General transcriptional corepressor TUP1; four helix bundle; 1.80A {Saccharomyces cerevisiae} PDB: 3vp8_A
Probab=11.17 E-value=3.7e+02 Score=21.92 Aligned_cols=45 Identities=16% Similarity=0.250 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhHHHHHHHHHHHHHH
Q psy12208 109 ALMERQFLQQKQHLMRAREAALWEMEERQIHERQQHAKKQLKDGFFLQRHQAEIQ 163 (392)
Q Consensus 109 a~~Er~~l~~k~~l~R~rE~~~welEer~l~EkhQL~KqQlKdq~~lQrekLE~~ 163 (392)
.+.|.++-++.+.+---|.+ +.+||..| ..+|+.|--.|-.|-..
T Consensus 39 ~eyE~ki~~Qi~Emq~Ir~t-vyeLE~~h---------~kmKq~YEeEI~rLr~e 83 (92)
T 3vp9_A 39 KDYDFKMNQQLAEMQQIRNT-VYERELTH---------RKMKDAYEEEIKHLKLG 83 (92)
T ss_dssp HHHHHHHHHHHHHHHHHHHH-HHHHHHHH---------HHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHHHH-HHHHHHHH---------HHHHHHHHHHHHHHHHH
Confidence 35666677777777777765 55999887 67777776666555443
No 4
>1vcs_A Vesicle transport through interaction with T- snares homolog 1A; HABC domain, VTI1, UP and DOWN three helix bundle, LEFT-handed twist; NMR {Mus musculus} SCOP: a.47.2.1
Probab=8.28 E-value=7.6e+02 Score=19.63 Aligned_cols=49 Identities=29% Similarity=0.493 Sum_probs=36.8
Q ss_pred hHHHHHHhhHHHHHHHHHhhhhhHHHHHHHHHHHHHhcchhhhhhHhHHHHHhHhhh
Q psy12208 302 QRHQMLIRHDKELEQLKRMNQRKIEELTKKQTIEKRALPKRIRSEMKIREQMFRQSM 358 (392)
Q Consensus 302 qRhQll~rHeKE~Eqm~r~n~r~~eel~~~q~~Ek~rlPK~qR~E~KtR~~mfk~Sl 358 (392)
+|.+.+..=+..++.. ++|...=..|-+.+|-..|+...+|+--||..|
T Consensus 35 erk~~i~~ie~~l~EA--------~ell~qMelE~r~~p~~~R~~~~~klr~Yk~dL 83 (102)
T 1vcs_A 35 EKKQMVANVEKQLEEA--------RELLEQMDLEVREIPPQSRGMYSNRMRSYKQEM 83 (102)
T ss_dssp THHHHHHHHHHHHHHH--------HHHHHHHHHHHTTSCTTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH--------HHHHHHHHHHHHhCCHHhHHHHHHHHHHHHHHH
Confidence 5566655555555555 455556677888999999999999999999875
No 5
>3fs3_A Nucleosome assembly protein 1, putative; protein localization, histone recognition, structural analysis, CHA; 2.30A {Plasmodium falciparum} PDB: 3hfd_A 3gyw_A 3gyv_A
Probab=7.45 E-value=1.2e+03 Score=23.15 Aligned_cols=78 Identities=19% Similarity=0.249 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH--------hhCChHHhhhHHHhhHHhHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy12208 178 EQERELKEFRESQKQEMRLLKQEV--------DLMPKDRRKSMFKDRKEKLETEHEEREKLFLESLNENHESSLRRLSDT 249 (392)
Q Consensus 178 EQEkEL~~F~e~LK~e~Ke~kqEv--------~~lPK~qRke~~r~rke~l~~~~~~rE~~Fl~~q~~~le~~L~~i~~~ 249 (392)
+-++..+.-.+++|+..+.+.++. ..||+..+. |.+.|. .+...+..|-..
T Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~m~sLp~~v~~-----rI~aLk----------------~lQ~E~~~le~e 71 (359)
T 3fs3_A 13 EEEKEISSLLESIKIGKTSLKYRCFYLYDDKMTDLTEEQKE-----TLKKLK----------------LYQKEYYDYESK 71 (359)
T ss_dssp --------------------------------CCSCHHHHH-----HHHHHH----------------HHHHHHHHHHHH
T ss_pred HhHHHHHHHHHHHHhcccchhhccccchhhhhhhCCHHHHH-----HHHHHH----------------HHHHHHHHHHHH
Confidence 445567777788888888888776 778988753 322222 222344455556
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy12208 250 HRENLALMERQFLQQKQHLMRAREAAL 276 (392)
Q Consensus 250 hk~kia~~Er~~L~qKq~LlRaREa~l 276 (392)
.-.+|..+|+.|....+-|-..|.+-|
T Consensus 72 f~eEv~~LE~KY~kl~qPLyeKR~eII 98 (359)
T 3fs3_A 72 FEYELFLLRQKYHDLYGPIYDKRREAL 98 (359)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 667888888888777777666665544
No 6
>2qyw_A Vesicle transport through interaction with T-SNAR homolog; HABC domain, protein transport, endocytosis; 2.00A {Mus musculus} PDB: 2v8s_V
Probab=7.33 E-value=8.7e+02 Score=19.31 Aligned_cols=49 Identities=16% Similarity=0.301 Sum_probs=35.7
Q ss_pred hHHHHHHhhHHHHHHHHHhhhhhHHHHHHHHHHHHHhcchhhhhhHhHHHHHhHhhh
Q psy12208 302 QRHQMLIRHDKELEQLKRMNQRKIEELTKKQTIEKRALPKRIRSEMKIREQMFRQSM 358 (392)
Q Consensus 302 qRhQll~rHeKE~Eqm~r~n~r~~eel~~~q~~Ek~rlPK~qR~E~KtR~~mfk~Sl 358 (392)
+|.+.+..=+..++.. ++|...=..|-+.+|-..|+...+|+--||..|
T Consensus 46 ~rk~~i~~ie~~ldEA--------~eLl~qMelE~r~~p~s~R~~~~~klr~Yk~dL 94 (102)
T 2qyw_A 46 EKKKLVRDFDEKQQEA--------NETLAEMEEELRYAPLTFRNPMMSKLRNYRKDL 94 (102)
T ss_dssp HHHHHHHHHHHHHHHH--------HHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH--------HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH
Confidence 4455555445555554 455566677888999999999999999999876
No 7
>1a93_B MAX protein, coiled coil, LZ; leucine zipper, 2D solution structure, H-bonds, buried salt bridge, proto-oncogene, nuclear protein; NMR {Mus musculus} SCOP: h.1.3.1 PDB: 2a93_B
Probab=6.33 E-value=3.7e+02 Score=18.28 Aligned_cols=21 Identities=24% Similarity=0.417 Sum_probs=17.2
Q ss_pred HhhHHHHHHHHHhhhhhHHHH
Q psy12208 308 IRHDKELEQLKRMNQRKIEEL 328 (392)
Q Consensus 308 ~rHeKE~Eqm~r~n~r~~eel 328 (392)
.-|+++++.+++-|..++++.
T Consensus 10 ~a~qqDIddlkrQN~~Le~Qi 30 (34)
T 1a93_B 10 DTHQQDIDDLKRQNALLEQQV 30 (34)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HhhHhhHHHHHHHHHHHHHHH
Confidence 358899999999999887654
No 8
>3onj_A T-snare VTI1; helix, HABC, protein transport; 1.92A {Saccharomyces cerevisiae} PDB: 3onl_C
Probab=5.90 E-value=1e+03 Score=18.68 Aligned_cols=49 Identities=16% Similarity=0.285 Sum_probs=35.3
Q ss_pred hHHHHHHhhHHHHHHHHHhhhhhHHHHHHHHHHHHHhc--chhhhhhHhHHHHHhHhhh
Q psy12208 302 QRHQMLIRHDKELEQLKRMNQRKIEELTKKQTIEKRAL--PKRIRSEMKIREQMFRQSM 358 (392)
Q Consensus 302 qRhQll~rHeKE~Eqm~r~n~r~~eel~~~q~~Ek~rl--PK~qR~E~KtR~~mfk~Sl 358 (392)
+|.+.+..=+..++.. ++|...=..|-+.+ |-..|+...+|+--||..|
T Consensus 31 ~Rk~~i~~ie~~ldEA--------~ell~qMelE~~~~~~p~~~R~~~~~klr~Yk~dl 81 (97)
T 3onj_A 31 QRNTTLKHVEQQQDEL--------FDLLDQMDVEVNNSIGDASERATYKAKLREWKKTI 81 (97)
T ss_dssp HHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH--------HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHH
Confidence 5666665555555555 44555556777888 9999999999999998765
No 9
>2ke4_A CDC42-interacting protein 4; CIP4, TC10, coiled-coil, alternative splicing, cell membrane, coiled coil, cytoplasm, cytoskeleton, endocytosis; NMR {Homo sapiens}
Probab=5.67 E-value=5.4e+02 Score=20.79 Aligned_cols=24 Identities=13% Similarity=0.349 Sum_probs=19.8
Q ss_pred hhCChHHhhhHHHhhHHhHHHhHH
Q psy12208 202 DLMPKDRRKSMFKDRKEKLETEHE 225 (392)
Q Consensus 202 ~~lPK~qRke~~r~rke~l~~~~~ 225 (392)
.-||+.+|+..+..+..+++.+-.
T Consensus 9 s~LPpeqRkkkL~~Ki~el~~ei~ 32 (98)
T 2ke4_A 9 SHLPPEQQRKRLQQQLEERSRELQ 32 (98)
T ss_dssp SSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHH
Confidence 458999999999999888876653
No 10
>2c5k_P Vacuolar protein sorting protein 51; protein transport/complex, snare, VFT complex, protein transport, phosphorylation; 2.05A {Saccharomyces cerevisiae}
Probab=5.14 E-value=1.1e+02 Score=19.80 Aligned_cols=20 Identities=30% Similarity=0.433 Sum_probs=12.2
Q ss_pred hhhcccCCCCCChhHHHHHhhhhh
Q psy12208 356 QSMRISSSSTPDPEVEREKLKKVS 379 (392)
Q Consensus 356 ~SlrI~~~~~~~~~~~rekiKqF~ 379 (392)
+||||+..+ .+ =|--+|.|=
T Consensus 1 kslrv~~~~---Kd-KR~lLkeyY 20 (26)
T 2c5k_P 1 KSLRVSSLN---KD-RRLLLREFY 20 (26)
T ss_dssp CCCCCTTHH---HH-HHHHHHHHH
T ss_pred CCccccccC---hH-HHHHHHHHH
Confidence 589997663 22 156666664
Done!