Query psy778
Match_columns 75
No_of_seqs 65 out of 67
Neff 3.1
Searched_HMMs 29240
Date Fri Aug 16 18:41:18 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy778.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/778hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1x7v_A PA3566 protein, APC5058 18.3 23 0.00079 20.0 -0.2 31 40-73 50-80 (99)
2 1u36_A DNA-binding, nuclear fa 17.5 1E+02 0.0035 19.8 2.8 26 29-56 67-92 (106)
3 1zk9_A Transcription factor RE 15.4 1.1E+02 0.0036 20.0 2.5 27 29-57 71-97 (110)
4 1y0h_A Hypothetical protein RV 14.0 30 0.001 19.6 -0.4 30 40-72 48-77 (102)
5 1ikn_C P50D, protein (NF-kappa 12.4 1.6E+02 0.0054 19.3 2.7 25 29-55 67-91 (119)
6 1my7_A NF-kappab P65 (RELA) su 12.1 1.7E+02 0.0057 19.1 2.7 26 29-56 62-87 (114)
7 2fb0_A Conserved hypothetical 12.1 37 0.0013 19.0 -0.5 30 40-72 48-77 (94)
8 2a1j_A DNA repair endonuclease 11.3 23 0.00079 20.1 -1.5 19 2-20 23-41 (63)
9 3u9j_A F-BOX/LRR-repeat protei 11.3 25 0.00086 24.8 -1.6 13 53-65 128-140 (160)
10 1bl1_A Parathyroid hormone rec 10.7 29 0.00099 18.5 -1.1 13 52-64 10-22 (31)
No 1
>1x7v_A PA3566 protein, APC5058; structural genomics, protein structure initiative, midwest center for structural genomics, alpha-beta plait, PSI; 1.78A {Pseudomonas aeruginosa} SCOP: d.58.4.11
Probab=18.26 E-value=23 Score=20.03 Aligned_cols=31 Identities=6% Similarity=-0.007 Sum_probs=24.1
Q ss_pred CCCccceeEEEecccccccccceeccCCCccccc
Q psy778 40 MPPLNERVMLYVRQESDEIYTPLHVSPPTTQGLL 73 (75)
Q Consensus 40 ~~p~~~RVLLYVRketeeVFdaLmL~~Ptl~GL~ 73 (75)
++| .++++|-+=++++.|++ |+.+|-.+.+.
T Consensus 50 ~~p--~~~~~~e~w~~~~a~~~-h~~s~~~~~~~ 80 (99)
T 1x7v_A 50 HDS--HLFYMIEQWRDDAALER-HQNTEHFLRFS 80 (99)
T ss_dssp SCT--TEEEEEEEESSHHHHHH-HHTSHHHHHHH
T ss_pred CCC--CEEEEEEEECCHHHHHH-HhcCHHHHHHH
Confidence 355 79999999999999987 77777655443
No 2
>1u36_A DNA-binding, nuclear factor NF-kappa-B P105 subunit; transcription factor, NF-KB, dimerization domain, intertwined folding; 1.89A {Mus musculus} SCOP: b.1.18.1 PDB: 1u3z_A 1u3y_A 3jv4_B 1bfs_A 1u3j_A 1u42_A 1u41_A 1nfi_B
Probab=17.48 E-value=1e+02 Score=19.79 Aligned_cols=26 Identities=27% Similarity=0.485 Sum_probs=20.7
Q ss_pred ccCCCCCCCCCCCCccceeEEEeccccc
Q psy778 29 FSSLPLKRPKLMPPLNERVMLYVRQESD 56 (75)
Q Consensus 29 ~~~pp~K~~k~~~p~~~RVLLYVRkete 56 (75)
|..||=+...+..| -.|.+|+++.++
T Consensus 67 f~tPpY~~~~I~~p--V~V~~~l~r~sd 92 (106)
T 1u36_A 67 FKTPKYKDVNITKP--ASVFVQLRRKSD 92 (106)
T ss_dssp EECCCCSCTTCSSC--EEEEEEEECTTT
T ss_pred EECCCCCCCccCCC--EEEEEEEEcCCC
Confidence 34577788888888 899999998653
No 3
>1zk9_A Transcription factor RELB; NF-KB, transcription factors, intertwined dimer; 2.18A {Mus musculus} PDB: 1zka_A 3jv6_A 3jv4_A 3jss_A 3juz_A 3jv0_A
Probab=15.40 E-value=1.1e+02 Score=19.98 Aligned_cols=27 Identities=19% Similarity=0.441 Sum_probs=21.4
Q ss_pred ccCCCCCCCCCCCCccceeEEEecccccc
Q psy778 29 FSSLPLKRPKLMPPLNERVMLYVRQESDE 57 (75)
Q Consensus 29 ~~~pp~K~~k~~~p~~~RVLLYVRketee 57 (75)
|..||=+...+..| -.|.+++++.++.
T Consensus 71 f~tPpY~~~~I~~p--V~V~i~L~r~sd~ 97 (110)
T 1zk9_A 71 FKTPPYEDLEISEP--VTVNVFLQRLTDG 97 (110)
T ss_dssp CCCCCCSCTTCSSC--EEEEECCBCTTTC
T ss_pred EECCCCCCcccCCC--eEEEEEEEeCCCC
Confidence 45577788888888 8999999976653
No 4
>1y0h_A Hypothetical protein RV0793; ferredoxin-like fold, alpha+beta sandwich with antiparallel sheet, structural genomics, PSI; 1.60A {Mycobacterium tuberculosis} SCOP: d.58.4.11
Probab=14.05 E-value=30 Score=19.61 Aligned_cols=30 Identities=17% Similarity=0.196 Sum_probs=22.6
Q ss_pred CCCccceeEEEecccccccccceeccCCCcccc
Q psy778 40 MPPLNERVMLYVRQESDEIYTPLHVSPPTTQGL 72 (75)
Q Consensus 40 ~~p~~~RVLLYVRketeeVFdaLmL~~Ptl~GL 72 (75)
++| .++++|-+=++++.|++ |+.+|-.+.+
T Consensus 48 ~~~--~~~~~~e~w~~~~a~~~-h~~s~~~~~~ 77 (102)
T 1y0h_A 48 ADG--GELVLFERYRSRIALDE-HRGSPHYLNY 77 (102)
T ss_dssp TTS--SCEEEEEEESSHHHHHH-HHTSHHHHHH
T ss_pred CCC--CEEEEEEEECCHHHHHH-HhcChHHHHH
Confidence 355 78999999999999887 6666654433
No 5
>1ikn_C P50D, protein (NF-kappa-B P50D subunit); transcription factor, IKB/NFKB complex; 2.30A {Mus musculus} SCOP: b.1.18.1
Probab=12.45 E-value=1.6e+02 Score=19.29 Aligned_cols=25 Identities=24% Similarity=0.442 Sum_probs=20.1
Q ss_pred ccCCCCCCCCCCCCccceeEEEecccc
Q psy778 29 FSSLPLKRPKLMPPLNERVMLYVRQES 55 (75)
Q Consensus 29 ~~~pp~K~~k~~~p~~~RVLLYVRket 55 (75)
|..||=+...+..| -.|.+|+++.+
T Consensus 67 f~tPpY~~~~I~~p--V~V~i~L~r~s 91 (119)
T 1ikn_C 67 FKTPKYKDVNITKP--ASVFVQLRRKS 91 (119)
T ss_dssp EECCCCSCTTCSSC--EEEEEEEEETT
T ss_pred EECCCCCCCCcCCC--EEEEEEEEcCC
Confidence 34577788888888 89999998754
No 6
>1my7_A NF-kappab P65 (RELA) subunit; immunoglobulin, IG, beta-sandwich, beta-sheet, homodimerdna- binding, transcription regulation, activator; 1.49A {Mus musculus} SCOP: b.1.18.1 PDB: 1my5_A 1bft_A
Probab=12.13 E-value=1.7e+02 Score=19.13 Aligned_cols=26 Identities=38% Similarity=0.664 Sum_probs=20.9
Q ss_pred ccCCCCCCCCCCCCccceeEEEeccccc
Q psy778 29 FSSLPLKRPKLMPPLNERVMLYVRQESD 56 (75)
Q Consensus 29 ~~~pp~K~~k~~~p~~~RVLLYVRkete 56 (75)
|-.||=+...+..| -.|.+++++.++
T Consensus 62 fktPpY~~~~I~~p--V~V~i~L~r~sd 87 (114)
T 1my7_A 62 FRTPPYADPSLQAP--VRVSMQLRRPSD 87 (114)
T ss_dssp EECCCCSCTTCCSC--EEEEEEEEETTT
T ss_pred EECCCCCCCccCCC--EEEEEEEEeCCC
Confidence 45677788888888 899999988554
No 7
>2fb0_A Conserved hypothetical protein; SAD, bacteroides thetaiotaom structural genomics, PSI, protein structure initiative; 2.10A {Bacteroides thetaiotaomicron}
Probab=12.06 E-value=37 Score=19.03 Aligned_cols=30 Identities=10% Similarity=0.124 Sum_probs=23.9
Q ss_pred CCCccceeEEEecccccccccceeccCCCcccc
Q psy778 40 MPPLNERVMLYVRQESDEIYTPLHVSPPTTQGL 72 (75)
Q Consensus 40 ~~p~~~RVLLYVRketeeVFdaLmL~~Ptl~GL 72 (75)
++| .++++|-+=++++.|++ |+.+|-.+.+
T Consensus 48 ~~p--~~~~~~e~w~~~~a~~~-h~~s~~~~~~ 77 (94)
T 2fb0_A 48 TRR--DVFMICETWQNAEVLAA-HEKTAHFAQY 77 (94)
T ss_dssp SCT--TEEEEEEEESSHHHHHH-HTTSHHHHHH
T ss_pred CCC--CEEEEEEEECCHHHHHH-HhCCHHHHHH
Confidence 355 79999999999999997 7887765543
No 8
>2a1j_A DNA repair endonuclease XPF; XPF, xeroderma pigmentosum, DNA repair, endonuclease, helix-hairpin-helix, DNA binding protein; HET: DNA; 2.70A {Homo sapiens} SCOP: a.60.2.5 PDB: 2kn7_A*
Probab=11.31 E-value=23 Score=20.10 Aligned_cols=19 Identities=16% Similarity=0.212 Sum_probs=14.3
Q ss_pred cceeeeeEEecchhhhhhc
Q psy778 2 HFGIYQSIWVSDKKELEQV 20 (75)
Q Consensus 2 ~~~~~q~~~~~~~k~~~~~ 20 (75)
|||.++.|+-.+.++|.+-
T Consensus 23 ~Fgs~~~i~~As~eeL~~v 41 (63)
T 2a1j_A 23 HVKNIAELAALSQDELTSI 41 (63)
T ss_dssp HCSSHHHHHTCCHHHHHHH
T ss_pred HcCCHHHHHHCCHHHHHHH
Confidence 7888888888777776554
No 9
>3u9j_A F-BOX/LRR-repeat protein 5; ubiquitin ligase E3, iron sensor, protein binding; 1.60A {Homo sapiens} PDB: 3u9m_A 3v5x_A 3v5y_A 3v5z_A
Probab=11.28 E-value=25 Score=24.84 Aligned_cols=13 Identities=23% Similarity=0.772 Sum_probs=9.6
Q ss_pred ccccccccceecc
Q psy778 53 QESDEIYTPLHVS 65 (75)
Q Consensus 53 keteeVFdaLmL~ 65 (75)
||+||||+|+-..
T Consensus 128 keEEEVFQPmLMe 140 (160)
T 3u9j_A 128 KEEEEVFQPMLME 140 (160)
T ss_dssp HHHHHTHHHHHHH
T ss_pred ccHHHHHHHHHHH
Confidence 6888888887543
No 10
>1bl1_A Parathyroid hormone receptor; micelle structures, calciotropic hormones, structures; NMR {Homo sapiens} SCOP: j.15.1.1
Probab=10.70 E-value=29 Score=18.53 Aligned_cols=13 Identities=15% Similarity=0.406 Sum_probs=9.7
Q ss_pred cccccccccceec
Q psy778 52 RQESDEIYTPLHV 64 (75)
Q Consensus 52 RketeeVFdaLmL 64 (75)
+++.+|+|+.|++
T Consensus 10 ~~~~~e~FeRL~~ 22 (31)
T 1bl1_A 10 ETREREVFDRLGM 22 (31)
T ss_dssp SCCHHHHHHSSHH
T ss_pred ccchHHHHhheee
Confidence 3567888988875
Done!