Query 005854
Match_columns 673
No_of_seqs 67 out of 69
Neff 4.2
Searched_HMMs 29240
Date Mon Mar 25 09:14:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005854.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/005854hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3rkc_A Capsid protein; viral p 38.8 22 0.00075 33.3 3.5 37 198-242 93-136 (148)
2 4b19_A PEPA1; toxin, toxin apo 35.5 15 0.00052 26.4 1.5 19 644-664 11-29 (30)
3 2ks1_B Epidermal growth factor 29.7 22 0.00075 27.4 1.6 7 656-662 32-38 (44)
4 2l93_A DNA-binding protein H-N 17.5 48 0.0016 26.7 1.4 8 223-230 17-24 (55)
5 1hnr_A H-NS; histone-like prot 17.2 73 0.0025 24.8 2.4 8 223-230 17-24 (47)
6 3pp5_A BRK1, protein brick1; t 16.9 3.8E+02 0.013 22.7 6.8 40 518-561 2-41 (73)
7 2knc_A Integrin alpha-IIB; tra 15.7 93 0.0032 25.0 2.7 34 637-671 7-44 (54)
8 3hag_A Capsid protein; jelly-r 15.3 80 0.0027 35.0 2.9 42 200-253 443-491 (504)
9 2l8s_A Integrin alpha-1; trans 14.0 1.1E+02 0.0037 24.7 2.6 33 639-672 6-42 (54)
10 3iyo_A Capsid protein; amino a 12.4 1.3E+02 0.0046 34.1 3.7 35 200-242 553-594 (660)
No 1
>3rkc_A Capsid protein; viral protein; 1.79A {Hepatitis e virus} PDB: 3rkd_A 3ggq_A
Probab=38.77 E-value=22 Score=33.31 Aligned_cols=37 Identities=35% Similarity=0.657 Sum_probs=26.7
Q ss_pred CCCCCcceeeCCCCCCCCCccccccceeec--CccEEEE-----EcCCCCcc
Q 005854 198 GSKAKNYAYSYSPGESSPGFTKCLGSIWTG--KERYVWI-----DLGAGPVD 242 (673)
Q Consensus 198 ~~q~~~Y~Y~y~~~~~~~~~~~Cl~~~WiG--~~RyawI-----DLsAGP~s 242 (673)
+++..+|.|+||.-++- ++|+- .|-++.| -|+|||++
T Consensus 93 GttkAGY~YnYNtT~sd--------~i~~~~~~g~~v~istYTt~LGagpv~ 136 (148)
T 3rkc_A 93 GTTKAGYPYNYNTTASD--------QILIENAPGHRVCISTYTTNLGSGPVS 136 (148)
T ss_dssp TSCCBCCCSSTTSSCCC--------EEEEESSTTCCEEEECSSSTTCSSSEE
T ss_pred CCccCCceecccCcccc--------eEEEecCCCCEEEEEEeecccCCCcee
Confidence 34567999999988876 78873 3455555 38899975
No 2
>4b19_A PEPA1; toxin, toxin apoptotic peptide, apoptosis; NMR {Staphylococcus aureus}
Probab=35.54 E-value=15 Score=26.37 Aligned_cols=19 Identities=32% Similarity=0.593 Sum_probs=13.7
Q ss_pred hhhhHHHHHHHHHHhhhchhh
Q 005854 644 SISMSAVVFLALSYVYTKRDQ 664 (673)
Q Consensus 644 ~v~~~~v~~~~~~~~~~~~~~ 664 (673)
++++|+|++|. |+++.|++
T Consensus 11 visGcivalF~--hWL~~r~~ 29 (30)
T 4b19_A 11 VISGCAIAFFS--YWLSRRNT 29 (30)
T ss_dssp THHHHHHHHHH--HHHHHHSC
T ss_pred HHHHHHHHHHH--HHHHhccC
Confidence 45677777666 88988874
No 3
>2ks1_B Epidermal growth factor receptor; ERBB1, ERBB2, transmembrane, heterodimer, complex, tyrosine receptor, bicelles, transferase; NMR {Homo sapiens}
Probab=29.69 E-value=22 Score=27.40 Aligned_cols=7 Identities=14% Similarity=0.358 Sum_probs=2.9
Q ss_pred HHhhhch
Q 005854 656 SYVYTKR 662 (673)
Q Consensus 656 ~~~~~~~ 662 (673)
|+++++|
T Consensus 32 ~~~~RRr 38 (44)
T 2ks1_B 32 GLFMRRR 38 (44)
T ss_dssp HHHHHTT
T ss_pred HHHhhhh
Confidence 3444444
No 4
>2l93_A DNA-binding protein H-NS; at HOOK; NMR {Salmonella typhimurium}
Probab=17.53 E-value=48 Score=26.71 Aligned_cols=8 Identities=50% Similarity=1.174 Sum_probs=7.2
Q ss_pred ceeecCcc
Q 005854 223 SIWTGKER 230 (673)
Q Consensus 223 ~~WiG~~R 230 (673)
++|.|+||
T Consensus 17 ~TWtGrGR 24 (55)
T 2l93_A 17 KTWTGQGR 24 (55)
T ss_dssp EEECSCSS
T ss_pred CcccCCCC
Confidence 79999998
No 5
>1hnr_A H-NS; histone-like protein H1, DNA-binding protein; NMR {Escherichia coli} SCOP: a.155.1.1 PDB: 1hns_A
Probab=17.24 E-value=73 Score=24.76 Aligned_cols=8 Identities=50% Similarity=1.174 Sum_probs=7.1
Q ss_pred ceeecCcc
Q 005854 223 SIWTGKER 230 (673)
Q Consensus 223 ~~WiG~~R 230 (673)
++|.|+||
T Consensus 17 ~TWtGrGr 24 (47)
T 1hnr_A 17 KTWTGQGR 24 (47)
T ss_dssp EECCTTSS
T ss_pred ccccCCCC
Confidence 79999988
No 6
>3pp5_A BRK1, protein brick1; triple coiled-coil, precursor of the SCAR-WAVE complex, ABI, structural protein; 1.50A {Dictyostelium discoideum}
Probab=16.85 E-value=3.8e+02 Score=22.67 Aligned_cols=40 Identities=25% Similarity=0.463 Sum_probs=26.6
Q ss_pred CCCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 005854 518 PFGPFSEISSLSFVQKDAARRNVLLTSLNYSISSAVDVLESIAA 561 (673)
Q Consensus 518 PfgpfS~~~~lS~~q~Daa~RN~i~t~Ld~SI~sai~~L~s~~~ 561 (673)
|.|..|. =.++|.|..-|-+| ..+...|...++-|++-..
T Consensus 2 ~~~s~~~---~~~iq~DW~nRe~i-e~is~~I~~~v~FLN~F~~ 41 (73)
T 3pp5_A 2 PLGSMST---KTNIQKDWEQREFI-EDMSINIQKIVEFLNKFEL 41 (73)
T ss_dssp ------C---CCHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
T ss_pred CcchHHH---HHHHHHhHHHHHHH-HHHHHHHHHHHHHHHHHHH
Confidence 4444444 48999999999987 6677777777777776554
No 7
>2knc_A Integrin alpha-IIB; transmembrane signaling, protein structure, cell A cleavage on PAIR of basic residues, disease mutation, disul bond, glycoprotein; NMR {Homo sapiens}
Probab=15.73 E-value=93 Score=24.96 Aligned_cols=34 Identities=15% Similarity=0.268 Sum_probs=20.2
Q ss_pred ccCCCcchhhhHHH----HHHHHHHhhhchhhHhhhhhc
Q 005854 637 DPPVPWASISMSAV----VFLALSYVYTKRDQLFRNKRK 671 (673)
Q Consensus 637 d~~~~w~~v~~~~v----~~~~~~~~~~~~~~~~~~~~~ 671 (673)
+.++||..+.++++ .+.++.|+++|. -+|+.||+
T Consensus 7 ~~~vp~wiIi~svl~GLllL~li~~~LwK~-GFFkR~~~ 44 (54)
T 2knc_A 7 ERAIPIWWVLVGVLGGLLLLTILVLAMWKV-GFFKRNRP 44 (54)
T ss_dssp TTTCCHHHHHHHHHHHHHHHHHHHHHHHHH-HHTTTTCC
T ss_pred CCCcchHHHHHHHHHHHHHHHHHHHHHHHc-CcccCCCC
Confidence 44577776644433 333445777765 58877776
No 8
>3hag_A Capsid protein; jelly-roll beta sheets, beta barrel, icosahedral virus; 3.50A {Hepatitis e virus type 4} PDB: 2zzq_A 2ztn_A
Probab=15.31 E-value=80 Score=35.02 Aligned_cols=42 Identities=38% Similarity=0.657 Sum_probs=23.8
Q ss_pred CCCcceeeCCCCCCCCCccccccceee--cCccEEEE-----EcCCCCccccCCCCCCccC
Q 005854 200 KAKNYAYSYSPGESSPGFTKCLGSIWT--GKERYVWI-----DLGAGPVDYGPALSGDGVL 253 (673)
Q Consensus 200 q~~~Y~Y~y~~~~~~~~~~~Cl~~~Wi--G~~RyawI-----DLsAGP~sYGPa~gGeG~L 253 (673)
+..+|.|+||.-++- ++|+ -.|-++.| -|+|||++ .+|-|+|
T Consensus 443 ~~agy~y~yntt~~~--------~~~~~~~~~~~~~~~~yt~~lg~~~~~----~~~~~~~ 491 (504)
T 3hag_A 443 TKAGYPYNYNTTASD--------QILIENAPGHRVCISTYTTNLGSGPVS----ISAVGVL 491 (504)
T ss_dssp CCBCCCTTSSCCSCC--------EEEEBC---CCEEEECSSCCC-----C----EEEEEEB
T ss_pred ccCCccccccCcccc--------eEEEecCCCcEEEEEEeecccCCCcee----eeEEEee
Confidence 446999999988876 7887 23445555 48888875 4566664
No 9
>2l8s_A Integrin alpha-1; transmembrane region, detergent micelle, CE adhesion; NMR {Homo sapiens}
Probab=13.99 E-value=1.1e+02 Score=24.68 Aligned_cols=33 Identities=27% Similarity=0.326 Sum_probs=19.5
Q ss_pred CCCcchhhhHHH----HHHHHHHhhhchhhHhhhhhcc
Q 005854 639 PVPWASISMSAV----VFLALSYVYTKRDQLFRNKRKQ 672 (673)
Q Consensus 639 ~~~w~~v~~~~v----~~~~~~~~~~~~~~~~~~~~~~ 672 (673)
++||..+.++++ .+.++.|+++|- -+|+.|||+
T Consensus 6 ~vp~WiIi~svl~GLLLL~Lii~~LwK~-GFFKR~~~~ 42 (54)
T 2l8s_A 6 RVPLWVILLSAFAGLLLLMLLILALWKI-GFFKRPLKK 42 (54)
T ss_dssp CCCTHHHHHHHHHHHHHHHHHHHHHHHH-HHTTSCCSC
T ss_pred cCchHHHHHHHHHHHHHHHHHHHHHHHc-CcccCCCcc
Confidence 467776644433 333445777754 588777763
No 10
>3iyo_A Capsid protein; amino acid sequence, cryoelectron microscopy, dimerization, image processing, computer-assist molecular sequence DATA; 10.50A {Hepatitis e virus}
Probab=12.42 E-value=1.3e+02 Score=34.10 Aligned_cols=35 Identities=34% Similarity=0.598 Sum_probs=24.0
Q ss_pred CCCcceeeCCCCCCCCCccccccceee--cCccEEEE-----EcCCCCcc
Q 005854 200 KAKNYAYSYSPGESSPGFTKCLGSIWT--GKERYVWI-----DLGAGPVD 242 (673)
Q Consensus 200 q~~~Y~Y~y~~~~~~~~~~~Cl~~~Wi--G~~RyawI-----DLsAGP~s 242 (673)
+..+|-|+||.-++- ++|+ -.|-++.| -|+|||.+
T Consensus 553 ~~agy~y~yntt~~d--------~~~~~~~~g~~v~~~~yt~~lg~~~~~ 594 (660)
T 3iyo_A 553 TKAGYPYNYNTTASD--------QLLVENAAGHRVAISTYTTSLGAGPVS 594 (660)
T ss_pred ccCCccccccCcccc--------eEEEecCCCCEEEEEEecccccCCCce
Confidence 446899999988776 7776 23444444 37777775
Done!