Query 000947
Match_columns 1212
No_of_seqs 271 out of 439
Neff 3.0
Searched_HMMs 29240
Date Mon Mar 25 02:51:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000947.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/000947hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1w1w_E SCC1, sister chromatid 99.9 1E-22 3.5E-27 196.0 3.6 85 1121-1210 27-119 (121)
2 1ew4_A CYAY protein; friedreic 10.7 24 0.00083 33.5 -2.4 21 4-24 47-67 (106)
3 3t3l_A Frataxin, mitochondrial 9.9 28 0.00096 34.3 -2.4 20 4-23 60-79 (129)
4 3oeq_A Frataxin homolog, mitoc 8.2 37 0.0013 33.4 -2.3 19 4-22 66-84 (123)
5 1s5r_A High mobility group box 6.6 1.2E+02 0.0042 22.7 0.3 13 668-680 13-25 (26)
6 1afo_A Glycophorin A; integral 6.0 1.4E+02 0.0049 24.7 0.5 7 710-716 34-40 (40)
7 4h62_V Mediator of RNA polymer 5.6 2.1E+02 0.007 22.2 1.1 23 61-83 4-26 (31)
8 3k2z_A LEXA repressor; winged 5.3 3.2E+02 0.011 27.1 2.6 59 1131-1196 2-62 (196)
9 3cz6_A DNA-binding protein RAP 4.2 77 0.0026 32.8 -2.8 35 690-735 121-155 (168)
10 3mn2_A Probable ARAC family tr 4.1 6.4E+02 0.022 22.2 3.4 42 1134-1182 2-45 (108)
No 1
>1w1w_E SCC1, sister chromatid cohesion protein 1; cohesin, chromosome segregation, cell adhesion, kleisin, MIT cell cycle; HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP: a.4.5.57
Probab=99.85 E-value=1e-22 Score=196.00 Aligned_cols=85 Identities=28% Similarity=0.356 Sum_probs=64.3
Q ss_pred CccccccccccccHHHHHHHHHHHHHhccCCCCCCceeeHHHHhc--------cCCHHHHHHHHHHhhccCCCCceeccC
Q 000947 1121 PEDARVLENSGWSSRTRAVSKYLQTLFVREPVQGRKVLALDHLLV--------GKTRKEASRMFFETLVLKTKDYIHVEQ 1192 (1212)
Q Consensus 1121 aee~q~~Ee~gWSKRT~qML~~LRt~F~~~d~~g~dsLSfsqLL~--------G~TRKeAAr~FFElLVLKTrd~IdVeQ 1192 (1212)
.++-+..++.+||+||++|+++||.+|... ++++|++||. |+|||+||++|||+|||||+|||+|+|
T Consensus 27 ~e~v~~~~~~~~Sk~T~~v~~~Lr~~f~~~-----~~vsfs~LL~~~~~~~~~~~tRkeAAr~FFElLVLaT~d~I~VeQ 101 (121)
T 1w1w_E 27 TEKVRPTPGEVASKAIVQMAKILRKELSEE-----KEVIFTDVLKSQANTEPENITKREASRGFFDILSLATEGCIGLSQ 101 (121)
T ss_dssp -------------CHHHHHHHHHHHHTTSC-----SCEEHHHHHHTTC--------CHHHHHHHHHHHHHHHHTSEEEEE
T ss_pred ccceeeccCCcccHHHHHHHHHHHHHhCCC-----CCccHHHHHhhccccccCCCCHHHHHHHHHHHHHHccCCeeEEec
Confidence 366677899999999999999999999864 6899999974 889999999999999999999999999
Q ss_pred CCCCcceeecCCCccccc
Q 000947 1193 ARPLDNINIKPGAKLMKA 1210 (1212)
Q Consensus 1193 eEPYGDI~IsagPkL~ks 1210 (1212)
++|||+|.|++||+||..
T Consensus 102 ~epyGdI~I~~~p~L~~~ 119 (121)
T 1w1w_E 102 TEAFGNIKIDAKPALFER 119 (121)
T ss_dssp CSTTCCEEEEECGGGC--
T ss_pred CCCCCceEEeeCchhhhh
Confidence 999999999999999863
No 2
>1ew4_A CYAY protein; friedreich ataxia, frataxin family, iron homeostasis, unknown function; 1.40A {Escherichia coli} SCOP: d.82.2.1 PDB: 2eff_A 2p1x_A 1soy_A
Probab=10.67 E-value=24 Score=33.49 Aligned_cols=21 Identities=29% Similarity=0.732 Sum_probs=18.3
Q ss_pred chhhhhccCChhHHHHHhhcc
Q 000947 4 SQFILAKKGPLGTIWIAAHLE 24 (1212)
Q Consensus 4 S~~LLsKKGPLatIWLAAtl~ 24 (1212)
++.|+.|..|+.+|||||-.+
T Consensus 47 ~~~VINkQ~P~~QIWlaSp~s 67 (106)
T 1ew4_A 47 SKIIINRQEPLHQVWLATKQG 67 (106)
T ss_dssp CEEEEEEETTTTEEEEECSSC
T ss_pred CEEEEeCCchhhhheEecCCC
Confidence 457889999999999999875
No 3
>3t3l_A Frataxin, mitochondrial; Fe-S cluster biosynthesis, human mitochondria, oxidoreductas; 1.15A {Homo sapiens} SCOP: d.82.2.1 PDB: 3s4m_A 3t3k_A 3t3j_A 3s5f_A 3t3x_A 3t3t_A 3s5e_A 3s5d_A 1ekg_A 1ly7_A
Probab=9.87 E-value=28 Score=34.27 Aligned_cols=20 Identities=20% Similarity=0.647 Sum_probs=17.7
Q ss_pred chhhhhccCChhHHHHHhhc
Q 000947 4 SQFILAKKGPLGTIWIAAHL 23 (1212)
Q Consensus 4 S~~LLsKKGPLatIWLAAtl 23 (1212)
++.|+.|..|+.+|||||-.
T Consensus 60 g~~VINkQ~P~~QIWLASp~ 79 (129)
T 3t3l_A 60 GTYVINKQTPNKAIWLSSPS 79 (129)
T ss_dssp CEEEEEEETTTTEEEEECSS
T ss_pred CEEEEeCCchhhHhheeCCC
Confidence 56788999999999999984
No 4
>3oeq_A Frataxin homolog, mitochondrial; alpha/beta sandwich, metallochaperone, iron-storage, transpo protein; 2.96A {Saccharomyces cerevisiae} SCOP: d.82.2.1 PDB: 2fql_A 3oer_A 2ga5_A
Probab=8.17 E-value=37 Score=33.36 Aligned_cols=19 Identities=26% Similarity=0.721 Sum_probs=16.9
Q ss_pred chhhhhccCChhHHHHHhh
Q 000947 4 SQFILAKKGPLGTIWIAAH 22 (1212)
Q Consensus 4 S~~LLsKKGPLatIWLAAt 22 (1212)
++.|+.|..|+.+|||||-
T Consensus 66 ~~~VINkQ~P~~QIWlaSp 84 (123)
T 3oeq_A 66 GTYVINKQPPNKQIWLASP 84 (123)
T ss_dssp CCEEEECCCSSSCCEEEET
T ss_pred CEEEEeCCChhhHHheecC
Confidence 5678899999999999996
No 5
>1s5r_A High mobility group box transcription factor 1; protein-peptide complex, amphipathic helix motif, four- helix bundle, repressor-corepressor complex, transcription; NMR {Synthetic} SCOP: j.114.1.1
Probab=6.58 E-value=1.2e+02 Score=22.73 Aligned_cols=13 Identities=38% Similarity=0.335 Sum_probs=9.5
Q ss_pred hhhhhcccccccc
Q 000947 668 VASRKRARSASQT 680 (1212)
Q Consensus 668 ~~smKr~R~~sr~ 680 (1212)
.+||-|.|.+||.
T Consensus 13 lssmar~r~asr~ 25 (26)
T 1s5r_A 13 LSSMARQRRASXX 25 (26)
T ss_dssp HHHHHHTTTCC--
T ss_pred hHHHHHHhhhhcc
Confidence 4789999999884
No 6
>1afo_A Glycophorin A; integral membrane protein, transmembrane helix interactions, membrane protein folding; NMR {Homo sapiens} SCOP: j.35.1.1 PDB: 2kpf_A
Probab=6.05 E-value=1.4e+02 Score=24.67 Aligned_cols=7 Identities=71% Similarity=0.961 Sum_probs=3.6
Q ss_pred HHHhhhc
Q 000947 710 IRRIRKK 716 (1212)
Q Consensus 710 IRRiRkK 716 (1212)
|||+|||
T Consensus 34 I~rl~Kk 40 (40)
T 1afo_A 34 IRRLIKK 40 (40)
T ss_dssp HHHHSCC
T ss_pred HHHHhhC
Confidence 4555554
No 7
>4h62_V Mediator of RNA polymerase II transcription subun; mediator complex, nucleus; HET: MES; 3.00A {Saccharomyces cerevisiae}
Probab=5.64 E-value=2.1e+02 Score=22.18 Aligned_cols=23 Identities=30% Similarity=0.683 Sum_probs=15.2
Q ss_pred cceEEEEecchhhHHHhHHHHHH
Q 000947 61 LGVVRIYSRKVNYLFDDCSEALL 83 (1212)
Q Consensus 61 lGVVRIYSRKv~YLLsDcn~aL~ 83 (1212)
.||.|.-.+|++-|++.|-+.+.
T Consensus 4 sgvtrfdekqieelldncietfv 26 (31)
T 4h62_V 4 SGVTRFDEKQIEELLDNCIETFV 26 (31)
T ss_dssp ------CHHHHHHHHHHHHHHHH
T ss_pred CccccccHHHHHHHHHHHHHHHH
Confidence 48999999999999999988765
No 8
>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=5.34 E-value=3.2e+02 Score=27.11 Aligned_cols=59 Identities=15% Similarity=0.310 Sum_probs=41.3
Q ss_pred cccHHHHHHHHHHHHHhccCCCCCCceeeHHHHhc--cCCHHHHHHHHHHhhccCCCCceeccCCCCC
Q 000947 1131 GWSSRTRAVSKYLQTLFVREPVQGRKVLALDHLLV--GKTRKEASRMFFETLVLKTKDYIHVEQARPL 1196 (1212)
Q Consensus 1131 gWSKRT~qML~~LRt~F~~~d~~g~dsLSfsqLL~--G~TRKeAAr~FFElLVLKTrd~IdVeQeEPY 1196 (1212)
..++|-.+++.+|+..+...+ ...++.+|++ |.++. + ...-+-.|.++|+|.-.+..++
T Consensus 2 ~lt~~q~~il~~I~~~~~~~g----~~~s~~eia~~lgl~~~-t--v~~~l~~Le~~G~i~~~~~~~r 62 (196)
T 3k2z_A 2 DLTERQRKVLLFIEEFIEKNG----YPPSVREIARRFRITPR-G--ALLHLIALEKKGYIERKNGKPR 62 (196)
T ss_dssp CCCHHHHHHHHHHHHHHHHHS----SCCCHHHHHHHHTSCHH-H--HHHHHHHHHHTTSEECC---TT
T ss_pred CcCHHHHHHHHHHHHHHHHhC----CCCCHHHHHHHcCCCcH-H--HHHHHHHHHHCCCEEecCCCcc
Confidence 468899999999999886542 2467889996 56655 2 3444667889999988876655
No 9
>3cz6_A DNA-binding protein RAP1; helical bundle, activator, chromosomal protein, nucleus, phosphoprotein, repressor, telomere; HET: MES; 1.85A {Saccharomyces cerevisiae} PDB: 3owt_A
Probab=4.19 E-value=77 Score=32.82 Aligned_cols=35 Identities=34% Similarity=0.582 Sum_probs=25.6
Q ss_pred ccceeehhhhhhhhhcChHHHHHhhhcCCCCccceeeeeccccccc
Q 000947 690 DDTMVLHGDVIRQQLTNTEDIRRIRKKAPCTGPEILMIQMQFLEDD 735 (1212)
Q Consensus 690 DD~MVlhgD~IRQQLtnTEDIRRiRkKAPCTr~EI~mIq~q~Led~ 735 (1212)
||.|+..|| ..||+||.||- ..|-....+.|||-.
T Consensus 121 DDe~L~s~d--------~~dikrL~kKH---G~erie~R~~FLe~~ 155 (168)
T 3cz6_A 121 DDESLKSND--------QEQIRKLVKKH---GTGRMEMRKRFFEKD 155 (168)
T ss_dssp HHHHHHSCC--------HHHHHHHHHHH---CHHHHHHHHHHHCC-
T ss_pred hHHHHHcCC--------HHHHHHHHHHh---CHHHHHHHHHHHHhc
Confidence 677777666 77899999987 666667777777754
No 10
>3mn2_A Probable ARAC family transcriptional regulator; structural genomics, PSI-2, protein structure initiative; 1.80A {Rhodopseudomonas palustris}
Probab=4.08 E-value=6.4e+02 Score=22.18 Aligned_cols=42 Identities=17% Similarity=0.373 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHhccCCCCCCceeeHHHHhc--cCCHHHHHHHHHHhhcc
Q 000947 1134 SRTRAVSKYLQTLFVREPVQGRKVLALDHLLV--GKTRKEASRMFFETLVL 1182 (1212)
Q Consensus 1134 KRT~qML~~LRt~F~~~d~~g~dsLSfsqLL~--G~TRKeAAr~FFElLVL 1182 (1212)
.+..++..+|..++.. .+++.+|+. |.+++.-.+.|-+..-.
T Consensus 2 ~~i~~~~~~i~~~~~~-------~~~~~~lA~~~~~s~~~l~r~fk~~~G~ 45 (108)
T 3mn2_A 2 NAVRQVEEYIEANWMR-------PITIEKLTALTGISSRGIFKAFQRSRGY 45 (108)
T ss_dssp HHHHHHHHHHHHHTTS-------CCCHHHHHHHHTCCHHHHHHHHHHHTSS
T ss_pred HHHHHHHHHHHHcccC-------CCCHHHHHHHHCCCHHHHHHHHHHHhCc
Confidence 5677889999988753 378888885 88999999988876544
Done!