Query psy5433
Match_columns 100
No_of_seqs 102 out of 199
Neff 4.3
Searched_HMMs 29240
Date Fri Aug 16 17:24:57 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5433.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/5433hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1g1e_B SIN3A; four-helix bundl 75.7 1.8 6E-05 28.2 2.4 21 23-43 11-31 (89)
2 1e91_A Paired amphipathic heli 71.9 2.3 8E-05 27.3 2.3 20 23-42 8-27 (85)
3 2f05_A Paired amphipathic heli 68.8 3.1 0.00011 28.0 2.4 20 23-42 8-27 (105)
4 2czy_A Paired amphipathic heli 66.2 3.9 0.00013 25.7 2.4 19 24-42 6-24 (77)
5 2cr7_A Paired amphipathic heli 63.2 3 0.0001 26.5 1.4 19 24-42 12-30 (80)
6 3k2z_A LEXA repressor; winged 42.8 72 0.0025 21.9 6.1 38 17-54 2-39 (196)
7 3or1_C Sulfite reductase GAMA; 42.3 11 0.00037 25.3 1.6 50 3-52 25-76 (105)
8 3c8g_A Putative transcriptiona 29.5 39 0.0013 24.6 2.9 28 14-41 79-106 (172)
9 1je8_A Nitrate/nitrite respons 21.3 43 0.0015 20.1 1.6 43 4-53 8-50 (82)
10 3a4c_A DNA replication factor 14.3 93 0.0032 21.1 2.0 22 30-51 6-27 (106)
No 1
>1g1e_B SIN3A; four-helix bundle, protein-peptide complex, transcription; NMR {Mus musculus} SCOP: a.59.1.1 PDB: 1s5q_B 1s5r_B 2l9s_B
Probab=75.72 E-value=1.8 Score=28.19 Aligned_cols=21 Identities=24% Similarity=0.659 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHhhhHHHH
Q psy5433 23 RQALDYSESLKQKYAHHPQIR 43 (100)
Q Consensus 23 r~al~Y~~~LkeKykh~PEIk 43 (100)
..|++|-+++|.+|++-|+|=
T Consensus 11 ~~A~~YvnkVK~rF~~~p~~Y 31 (89)
T 1g1e_B 11 NHAINYVNKIKNRFQGQPDIY 31 (89)
T ss_dssp HHHHHHHHHHHHHTTTCHHHH
T ss_pred HHHHHHHHHHHHHHccChHHH
Confidence 468999999999999999863
No 2
>1e91_A Paired amphipathic helix protein SIN3B; eukaryotic transcriptional regulation, SIN3, PAH domains, protein-protein interactions; NMR {Mus musculus} SCOP: a.59.1.1 PDB: 1pd7_A
Probab=71.87 E-value=2.3 Score=27.31 Aligned_cols=20 Identities=30% Similarity=0.780 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHhhhHHH
Q psy5433 23 RQALDYSESLKQKYAHHPQI 42 (100)
Q Consensus 23 r~al~Y~~~LkeKykh~PEI 42 (100)
..|++|-+++|.+|++-|+|
T Consensus 8 ~~A~~yv~kVK~rF~~~p~~ 27 (85)
T 1e91_A 8 NNAISYVNKIKTRFLDHPEI 27 (85)
T ss_dssp HHHHHHHHHHHHHTSSCHHH
T ss_pred HHHHHHHHHHHHHHhcChHH
Confidence 36899999999999999987
No 3
>2f05_A Paired amphipathic helix protein SIN3B; helix bundle, transcription repressor; NMR {Mus musculus} SCOP: a.59.1.1
Probab=68.77 E-value=3.1 Score=27.99 Aligned_cols=20 Identities=30% Similarity=0.780 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHhhhHHH
Q psy5433 23 RQALDYSESLKQKYAHHPQI 42 (100)
Q Consensus 23 r~al~Y~~~LkeKykh~PEI 42 (100)
..|++|-+++|.+|++-|+|
T Consensus 8 ~dA~~YvnkVK~rF~d~p~v 27 (105)
T 2f05_A 8 NNAISYVNKIKTRFLDHPEI 27 (105)
T ss_dssp HHHHHHHHHHHHHTTTCHHH
T ss_pred HHHHHHHHHHHHHHccChHH
Confidence 47899999999999999987
No 4
>2czy_A Paired amphipathic helix protein SIN3B; SIN3, PAH1, transcriptional repressor, gene regulation; NMR {Mus musculus}
Probab=66.22 E-value=3.9 Score=25.69 Aligned_cols=19 Identities=26% Similarity=0.602 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHhhhHHH
Q psy5433 24 QALDYSESLKQKYAHHPQI 42 (100)
Q Consensus 24 ~al~Y~~~LkeKykh~PEI 42 (100)
.|++|-+++|++|++-|++
T Consensus 6 dA~~yl~~VK~~F~~~p~~ 24 (77)
T 2czy_A 6 DALTYLDQVKIRFGSDPAT 24 (77)
T ss_dssp HHHHHHHHHHHHTTTCHHH
T ss_pred HHHHHHHHHHHHHccChHH
Confidence 6899999999999998887
No 5
>2cr7_A Paired amphipathic helix protein SIN3B; paired amphipathic helix repeat, transcriptional repressor, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rmr_A 2rms_A
Probab=63.24 E-value=3 Score=26.51 Aligned_cols=19 Identities=26% Similarity=0.602 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHhhhHHH
Q psy5433 24 QALDYSESLKQKYAHHPQI 42 (100)
Q Consensus 24 ~al~Y~~~LkeKykh~PEI 42 (100)
.|++|-+++|++|++-|+|
T Consensus 12 dA~~yl~~VK~rF~~~p~~ 30 (80)
T 2cr7_A 12 DALTYLDQVKIRFGSDPAT 30 (80)
T ss_dssp CSHHHHHHHHHHTSSCHHH
T ss_pred HHHHHHHHHHHHHccChHH
Confidence 6899999999999998887
No 6
>3k2z_A LEXA repressor; winged helix-turn-helix, SOS system, autoca cleavage, DNA damage, DNA repair, DNA replication, DNA-BIND hydrolase; 1.37A {Thermotoga maritima}
Probab=42.84 E-value=72 Score=21.94 Aligned_cols=38 Identities=26% Similarity=0.428 Sum_probs=34.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhcCCHH
Q psy5433 17 YVNNKQRQALDYSESLKQKYAHHPQIRRIARHRQVPRH 54 (100)
Q Consensus 17 ~ls~REr~al~Y~~~LkeKykh~PEIkRIarHRhvPK~ 54 (100)
.||+||++-++|-..+.+....-|-++.||++=+|+..
T Consensus 2 ~lt~~q~~il~~I~~~~~~~g~~~s~~eia~~lgl~~~ 39 (196)
T 3k2z_A 2 DLTERQRKVLLFIEEFIEKNGYPPSVREIARRFRITPR 39 (196)
T ss_dssp CCCHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHTSCHH
T ss_pred CcCHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCcH
Confidence 38999999999998888888888999999999999976
No 7
>3or1_C Sulfite reductase GAMA; dissimilatory sulfite reductase, sulfate reduction, oxidored sulfite reduction; HET: SRM; 1.76A {Desulfovibrio gigas} SCOP: d.203.1.1 PDB: 3or2_C* 2v4j_C* 2xsj_C*
Probab=42.33 E-value=11 Score=25.34 Aligned_cols=50 Identities=12% Similarity=0.300 Sum_probs=38.3
Q ss_pred ccCCCCCcchhhcC--CCCHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhcCC
Q psy5433 3 WSPVGPELSFRVKG--YVNNKQRQALDYSESLKQKYAHHPQIRRIARHRQVP 52 (100)
Q Consensus 3 ~~~~~~~~ase~lG--~ls~REr~al~Y~~~LkeKykh~PEIkRIarHRhvP 52 (100)
||+---....+..| .||...-.-++|-..-=+.|...|-||.+.+.-..+
T Consensus 25 W~ee~A~~lA~~egI~eLTe~HW~vI~flR~yY~e~~~~P~iR~l~K~~~~~ 76 (105)
T 3or1_C 25 WCPEWVKYAKGSEGIGAGSADHQKIIDFLQDYYKANGIAPMVRILSKNTGFA 76 (105)
T ss_dssp CCHHHHHHHGGGGTCSSCCHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHCCC
T ss_pred CCHHHHHHHHHHCCCccCCHHHHHHHHHHHHHHHHHCCCCcHHHHHHHHCcC
Confidence 44433333445555 599999999999888888999999999999986653
No 8
>3c8g_A Putative transcriptional regulator; APC27974, YGGD, mannitol operon repressor, shigella flexneri 2457T, methylation; HET: MLY; 2.50A {Shigella flexneri 2a str} SCOP: a.285.1.1 PDB: 3c8g_D* 3c8g_B*
Probab=29.50 E-value=39 Score=24.64 Aligned_cols=28 Identities=4% Similarity=-0.034 Sum_probs=25.7
Q ss_pred hcCCCCHHHHHHHHHHHHHHHHHhhhHH
Q psy5433 14 VKGYVNNKQRQALDYSESLKQKYAHHPQ 41 (100)
Q Consensus 14 ~lG~ls~REr~al~Y~~~LkeKykh~PE 41 (100)
-||++|.-+.+.++.--+|++.|.|-|+
T Consensus 79 ~LGlIs~~~y~Di~~~~klRn~~~h~~~ 106 (172)
T 3c8g_A 79 ALGXMDXWLYADITHFSQYWHYLNEQDE 106 (172)
T ss_dssp HTTCSCHHHHHHHHHHHHHHHHHHHTCC
T ss_pred HhCCCcHHHHHhHHHHHHHHHHHhcCCC
Confidence 4799999999999999999999999874
No 9
>1je8_A Nitrate/nitrite response regulator protein NARL; protein-DNA complex, two-component response regulator, helix-turn-helix, DNA bending; 2.12A {Escherichia coli} SCOP: a.4.6.2 PDB: 1zg1_A 1zg5_A
Probab=21.32 E-value=43 Score=20.06 Aligned_cols=43 Identities=16% Similarity=0.145 Sum_probs=26.1
Q ss_pred cCCCCCcchhhcCCCCHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhcCCH
Q psy5433 4 SPVGPELSFRVKGYVNNKQRQALDYSESLKQKYAHHPQIRRIARHRQVPR 53 (100)
Q Consensus 4 ~~~~~~~ase~lG~ls~REr~al~Y~~~LkeKykh~PEIkRIarHRhvPK 53 (100)
+|.+++...+-+..|+++|+.-+.+. +..+ ..+.||..=+++.
T Consensus 8 ~~~~~~~~~~~~~~Lt~~e~~vl~l~------~~g~-s~~eIA~~l~is~ 50 (82)
T 1je8_A 8 HHHGSATTERDVNQLTPRERDILKLI------AQGL-PNKMIARRLDITE 50 (82)
T ss_dssp ---------CCGGGSCHHHHHHHHHH------TTTC-CHHHHHHHHTSCH
T ss_pred CCCCchHHHHHHccCCHHHHHHHHHH------HcCC-CHHHHHHHHCcCH
Confidence 35567777888899999999988762 2333 5678888888875
No 10
>3a4c_A DNA replication factor CDT1; alpha-beta structure, cell cycle, DNA- binding, nucleus, phosphoprotein, proto-oncogene, UBL conjugation; HET: DNA; 1.89A {Mus musculus} PDB: 2rqq_A*
Probab=14.29 E-value=93 Score=21.05 Aligned_cols=22 Identities=27% Similarity=0.366 Sum_probs=17.6
Q ss_pred HHHHHHHhhhHHHHHHHhhhcC
Q psy5433 30 ESLKQKYAHHPQIRRIARHRQV 51 (100)
Q Consensus 30 ~~LkeKykh~PEIkRIarHRhv 51 (100)
++--..|+.+||+-||.|.-.|
T Consensus 6 eke~~~~srLPelArilR~vFv 27 (106)
T 3a4c_A 6 ELRLQRLERLPELARVLRNVFV 27 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhhHHHHHHHHHHHH
Confidence 4455689999999999997665
Done!