Query 001182
Match_columns 1131
No_of_seqs 281 out of 434
Neff 3.0
Searched_HMMs 29240
Date Mon Mar 25 15:14:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001182.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/001182hhsearch_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 1.2E-23 4.1E-28 201.2 4.7 85 1040-1129 27-119 (121)
2 1ew4_A CYAY protein; friedreic 13.1 23 0.00079 33.4 -1.7 21 4-24 47-67 (106)
3 3t3l_A Frataxin, mitochondrial 10.4 33 0.0011 33.6 -1.7 20 4-23 60-79 (129)
4 3oeq_A Frataxin homolog, mitoc 8.8 44 0.0015 32.6 -1.4 19 4-22 66-84 (123)
5 1s5r_A High mobility group box 7.4 1E+02 0.0036 22.9 0.3 13 587-599 13-25 (26)
6 4h62_V Mediator of RNA polymer 6.2 1.8E+02 0.006 22.4 1.0 23 61-83 4-26 (31)
7 1afo_A Glycophorin A; integral 6.0 1.4E+02 0.0049 24.5 0.5 7 629-635 34-40 (40)
8 1ogd_A High affinity ribose tr 5.7 3.5E+02 0.012 26.4 3.1 30 1095-1125 101-130 (131)
9 3mn2_A Probable ARAC family tr 4.8 8.1E+02 0.028 21.3 4.7 39 1053-1098 2-42 (108)
10 3dsa_A D-ribose high-affinity 4.7 4.4E+02 0.015 26.0 3.1 31 1095-1126 112-142 (142)
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=99.88 E-value=1.2e-23 Score=201.15 Aligned_cols=85 Identities=28% Similarity=0.356 Sum_probs=64.4
Q ss_pred ccchhccccCCccHHHHHHHHHHHHhhccCCCCCCceeeHHHHhc--------cCCHHHHHHHHHHhhhccCCCceeecC
Q 001182 1040 PEDARVLENSGWSSRTRAVSKYLQTLFVREPVQGRKVLALDHLLV--------GKTRKEASRMFFETLVLKTKDYIHVEQ 1111 (1131)
Q Consensus 1040 ~ee~q~~Ee~~WSKRT~qma~~LRt~F~~~~~~G~~slSfsqLl~--------G~TRKeAAr~FYElLVLKTrd~IdVeQ 1111 (1131)
.|+.+..++.+|||||++|+++||.+|..+ ++++|++|+. |+|||+||++|||+|||||+|||+|+|
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 467777899999999999999999999875 5899999974 889999999999999999999999999
Q ss_pred CCCCcceEeccCCccccc
Q 001182 1112 ARPLDNINIKPGAKLMKA 1129 (1131)
Q Consensus 1112 eEPYGDI~IsaGPkL~ks 1129 (1131)
.+|||||.|++||+||..
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=13.13 E-value=23 Score=33.39 Aligned_cols=21 Identities=29% Similarity=0.732 Sum_probs=18.2
Q ss_pred chhhhhccCCchhhhhhhhcc
Q 001182 4 SQFILAKKGPLGTIWIAAHLE 24 (1131)
Q Consensus 4 S~~LLsKKGpLa~IWLAATl~ 24 (1131)
++.|++|..|+-+|||||-.+
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 456888999999999999876
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=10.37 E-value=33 Score=33.56 Aligned_cols=20 Identities=20% Similarity=0.647 Sum_probs=17.6
Q ss_pred chhhhhccCCchhhhhhhhc
Q 001182 4 SQFILAKKGPLGTIWIAAHL 23 (1131)
Q Consensus 4 S~~LLsKKGpLa~IWLAATl 23 (1131)
++.|++|..|+.+|||||-.
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=8.82 E-value=44 Score=32.57 Aligned_cols=19 Identities=26% Similarity=0.721 Sum_probs=16.8
Q ss_pred chhhhhccCCchhhhhhhh
Q 001182 4 SQFILAKKGPLGTIWIAAH 22 (1131)
Q Consensus 4 S~~LLsKKGpLa~IWLAAT 22 (1131)
++.|++|..|+-+||||+-
T Consensus 66 ~~~VINkQ~P~~QIWlaSp 84 (123)
T 3oeq_A 66 GTYVINKQPPNKQIWLASP 84 (123)
T ss_dssp CCEEEECCCSSSCCEEEET
T ss_pred CEEEEeCCChhhHHheecC
Confidence 4678889999999999996
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=7.43 E-value=1e+02 Score=22.90 Aligned_cols=13 Identities=38% Similarity=0.335 Sum_probs=9.6
Q ss_pred hhhhhcccccccc
Q 001182 587 VASRKRARSASQT 599 (1131)
Q Consensus 587 ~~smKr~R~~sr~ 599 (1131)
.+||-|.|.+||.
T Consensus 13 lssmar~r~asr~ 25 (26)
T 1s5r_A 13 LSSMARQRRASXX 25 (26)
T ss_dssp HHHHHHTTTCC--
T ss_pred hHHHHHHhhhhcc
Confidence 4789999999984
No 6
>4h62_V Mediator of RNA polymerase II transcription subun; mediator complex, nucleus; HET: MES; 3.00A {Saccharomyces cerevisiae}
Probab=6.22 E-value=1.8e+02 Score=22.36 Aligned_cols=23 Identities=30% Similarity=0.683 Sum_probs=15.2
Q ss_pred cceEEEEeccchhHHHhHHHHHH
Q 001182 61 LGVVRIYSRKVNYLFDDCSEALL 83 (1131)
Q Consensus 61 lGVVRIYSRKvkYLL~Dcn~aL~ 83 (1131)
.||+|.-.+|++-|++.|-+.+.
T Consensus 4 sgvtrfdekqieelldncietfv 26 (31)
T 4h62_V 4 SGVTRFDEKQIEELLDNCIETFV 26 (31)
T ss_dssp ------CHHHHHHHHHHHHHHHH
T ss_pred CccccccHHHHHHHHHHHHHHHH
Confidence 48999999999999999988765
No 7
>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=6.03 E-value=1.4e+02 Score=24.47 Aligned_cols=7 Identities=71% Similarity=0.961 Sum_probs=3.7
Q ss_pred HHHhhhc
Q 001182 629 IRRIRKK 635 (1131)
Q Consensus 629 IRRiRkK 635 (1131)
|||+|||
T Consensus 34 I~rl~Kk 40 (40)
T 1afo_A 34 IRRLIKK 40 (40)
T ss_dssp HHHHSCC
T ss_pred HHHHhhC
Confidence 5555554
No 8
>1ogd_A High affinity ribose transport protein RBSD; sugar transport; HET: RIP; 1.95A {Bacillus subtilis} SCOP: c.133.1.1 PDB: 1ogc_A* 1oge_A* 1ogf_A
Probab=5.70 E-value=3.5e+02 Score=26.40 Aligned_cols=30 Identities=20% Similarity=0.222 Sum_probs=24.2
Q ss_pred HHHhhhccCCCceeecCCCCCcceEeccCCc
Q 001182 1095 FFETLVLKTKDYIHVEQARPLDNINIKPGAK 1125 (1131)
Q Consensus 1095 FYElLVLKTrd~IdVeQeEPYGDI~IsaGPk 1125 (1131)
||+. .=+.+-.|.---..|||+|++++|--
T Consensus 101 Fy~~-~~~a~avVrTGE~~pYaNiIL~~GV~ 130 (131)
T 1ogd_A 101 FKLL-TKDAKAVIRTGEFTPYANCILQAGVL 130 (131)
T ss_dssp HHHH-GGGCSEEEECCCCSTTCCEEEEECCC
T ss_pred HHHH-HhCceEEEECCCCCcccEEEEEcCcc
Confidence 8987 44566778888889999999999854
No 9
>3mn2_A Probable ARAC family transcriptional regulator; structural genomics, PSI-2, protein structure initiative; 1.80A {Rhodopseudomonas palustris}
Probab=4.81 E-value=8.1e+02 Score=21.31 Aligned_cols=39 Identities=18% Similarity=0.459 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHhhccCCCCCCceeeHHHHhc--cCCHHHHHHHHHHh
Q 001182 1053 SRTRAVSKYLQTLFVREPVQGRKVLALDHLLV--GKTRKEASRMFFET 1098 (1131)
Q Consensus 1053 KRT~qma~~LRt~F~~~~~~G~~slSfsqLl~--G~TRKeAAr~FYEl 1098 (1131)
.+..++..+|..++... +++.+|+. |.+++.-.+.|-+.
T Consensus 2 ~~i~~~~~~i~~~~~~~-------~~~~~lA~~~~~s~~~l~r~fk~~ 42 (108)
T 3mn2_A 2 NAVRQVEEYIEANWMRP-------ITIEKLTALTGISSRGIFKAFQRS 42 (108)
T ss_dssp HHHHHHHHHHHHHTTSC-------CCHHHHHHHHTCCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcccCC-------CCHHHHHHHHCCCHHHHHHHHHHH
Confidence 46678888998887533 78888885 88998888888765
No 10
>3dsa_A D-ribose high-affinity transport system; D-ribose transport system, RBSD, decamer, csgid, transport protein, structural genomics; 2.45A {Salmonella typhimurium} PDB: 3e7n_A
Probab=4.68 E-value=4.4e+02 Score=25.96 Aligned_cols=31 Identities=16% Similarity=0.322 Sum_probs=23.8
Q ss_pred HHHhhhccCCCceeecCCCCCcceEeccCCcc
Q 001182 1095 FFETLVLKTKDYIHVEQARPLDNINIKPGAKL 1126 (1131)
Q Consensus 1095 FYElLVLKTrd~IdVeQeEPYGDI~IsaGPkL 1126 (1131)
||+..- +.+-.|.---..|||+|++++|--|
T Consensus 112 Fy~~~k-~a~aVVrTGE~~pYaNiIL~~GV~f 142 (142)
T 3dsa_A 112 FKKLTA-DSQAVIRSGECSPYANVILCAGVTF 142 (142)
T ss_dssp HHHHGG-GSSEEEECCCCSTTCCEEEEECCC-
T ss_pred HHHHHh-cCeEEEECCCCCccceEEEEecccC
Confidence 888874 4466677777889999999998643
Done!