Query 006477
Match_columns 643
No_of_seqs 191 out of 282
Neff 5.3
Searched_HMMs 29240
Date Tue Mar 26 02:07:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006477.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/006477hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3u1u_A RNA polymerase-associat 100.0 6.9E-41 2.3E-45 313.3 10.0 132 255-390 6-137 (137)
2 2bze_A KIAA0252 protein; human 100.0 1.9E-40 6.5E-45 315.5 12.8 134 255-392 20-153 (153)
3 1gp8_A Protein (scaffolding pr 68.6 5 0.00017 29.5 3.6 33 418-450 7-39 (40)
4 3do9_A UPF0302 protein BA_1542 53.4 17 0.00059 35.3 5.6 35 419-453 149-183 (188)
5 1e52_A Excinuclease ABC subuni 44.2 37 0.0013 27.3 5.3 38 416-453 21-58 (63)
6 1x4t_A Hypothetical protein LO 39.6 64 0.0022 27.9 6.3 42 355-408 21-69 (92)
7 1hlv_A CENP-B, major centromer 22.1 1.1E+02 0.0037 26.4 5.1 38 354-392 75-112 (131)
8 4e81_A Chaperone protein DNAK; 21.4 5.6E+02 0.019 24.7 12.7 25 345-369 109-133 (219)
9 1u00_A HSC66, chaperone protei 20.2 5.9E+02 0.02 24.5 11.1 97 345-453 106-203 (227)
10 2w6a_A ARF GTPase-activating p 19.5 1.5E+02 0.0052 23.6 4.7 22 349-370 4-25 (63)
No 1
>3u1u_A RNA polymerase-associated protein RTF1 homolog; plus-3, transcription elongation, structural genomics, struc genomics consortium, SGC; 1.80A {Homo sapiens} PDB: 2db9_A
Probab=100.00 E-value=6.9e-41 Score=313.26 Aligned_cols=132 Identities=28% Similarity=0.582 Sum_probs=122.9
Q ss_pred CCCCCHhhhhcceechHHHHHhhcCccccccccccEEEEeecCCCCCCceEEEEEEEeecCCCCCccccCCceeeeEEEE
Q 006477 255 SGRPTYDDIKEITIRRSKLAKWFMEPFFEELIVGCFVRVGIGRSKNGPIYRLCMVRNVDATEPDRSYKLENRTTCKYLNV 334 (643)
Q Consensus 255 ~~~atledl~~irLsRs~L~k~~~~P~Fee~V~GCFVRV~IG~~~~g~vYRm~qI~gV~~~e~~K~Y~l~~~~Tnk~L~L 334 (643)
.+.++|+||++|+|+|++|++||++|+|+++|+||||||+||++.+.++||||+|+||. +++++|+|+++.||+||.|
T Consensus 6 ~~v~~l~dl~~i~L~R~~l~~~~~~P~Fe~~V~GcFVRv~ig~~~~~~~Yrl~qI~gv~--~~~k~Y~l~~~~T~~~L~l 83 (137)
T 3u1u_A 6 QPVSLPEELNRVRLSRHKLERWCHMPFFAKTVTGCFVRIGIGNHNSKPVYRVAEITGVV--ETAKVYQLGGTRTNKGLQL 83 (137)
T ss_dssp SBCCSHHHHHTTBCCHHHHHHHTTSTTHHHHHTTCEEEEEEEC----CEEEEEEEEEEE--EEEEEEEETTEEEEEEEEE
T ss_pred CCCCCHHHhcceEEEHHHHHHHhcCCChhHheEEEEEEEEeCCCCCCccEEEEEEEEEE--ecCcccccCCceeeEEEEE
Confidence 57889999999999999999999999999999999999999998755999999999996 4799999999999999999
Q ss_pred EeCCCccceeeeeeeccCCcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHH
Q 006477 335 TWGNESSAARWQMAMVSDSPPLEEEFKQWLREVERNSGRMPSKQDVLEKKESIQKI 390 (643)
Q Consensus 335 ~~G~~~~~r~f~m~~VSNspfTe~Ef~rw~~~~~~~~~~lPT~~~v~~K~~~I~ka 390 (643)
+||+. .+.|+|++|||+|||++||++|+++|++.++++||+.+|++|+++|++|
T Consensus 84 ~~g~~--~r~~~~~~vSN~~fte~E~~~w~~~~~~~~~~~Pt~~~l~~K~~~i~~a 137 (137)
T 3u1u_A 84 RHGND--QRVFRLEFVSNQEFTESEFMKWKEAMFSAGMQLPTLDEINKKELSIKEA 137 (137)
T ss_dssp EETTE--EEEEEGGGBCSSCCCHHHHHHHHHHHHHHTCCCCBHHHHHHHHHHTCCC
T ss_pred EeCCc--ceEEEeeeecCCCCCHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhhC
Confidence 99986 4789999999999999999999999999999999999999999999754
No 2
>2bze_A KIAA0252 protein; human RTF1 PLUS3 domain, transcription, elongation, PAF1 complex, histone H3 methylation, H2B ubiquitination, CDC73, LEO1, CTR9; NMR {Homo sapiens} SCOP: b.34.21.1
Probab=100.00 E-value=1.9e-40 Score=315.55 Aligned_cols=134 Identities=28% Similarity=0.562 Sum_probs=126.9
Q ss_pred CCCCCHhhhhcceechHHHHHhhcCccccccccccEEEEeecCCCCCCceEEEEEEEeecCCCCCccccCCceeeeEEEE
Q 006477 255 SGRPTYDDIKEITIRRSKLAKWFMEPFFEELIVGCFVRVGIGRSKNGPIYRLCMVRNVDATEPDRSYKLENRTTCKYLNV 334 (643)
Q Consensus 255 ~~~atledl~~irLsRs~L~k~~~~P~Fee~V~GCFVRV~IG~~~~g~vYRm~qI~gV~~~e~~K~Y~l~~~~Tnk~L~L 334 (643)
.+.++|+||++|+|+|++|++||++|+|+++|+||||||+||++.+.++||||||+||. +++++|+|+++.||+||.|
T Consensus 20 ~~v~~l~di~~irL~Rs~l~~~~~~P~Fe~~V~GcFVRV~ig~~~~~~~YRl~qI~gv~--~~~k~Y~l~~~~T~~~L~l 97 (153)
T 2bze_A 20 HMVSLPEELNRVRLSRHKLERWCHMPFFAKTVTGCFVRIGIGNHNSKPVYRVAEITGVV--ETAKVYQLGGTRTNKGLQL 97 (153)
T ss_dssp SBCCCHHHHHHSEECHHHHHHHSSSSSCHHHHTTCEEEEESSTTSSSCCEEEEEEEEEE--EEEEEEEETTEEEEEEEEE
T ss_pred CCcCCHHHhhheEEEHHHHHHHhcCCchhHheEEEEEEEEeCCCCCCccEEEEEEEeEE--ecCcccccCCcccceEEEE
Confidence 57889999999999999999999999999999999999999986555999999999997 4799999999999999999
Q ss_pred EeCCCccceeeeeeeccCCcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHhc
Q 006477 335 TWGNESSAARWQMAMVSDSPPLEEEFKQWLREVERNSGRMPSKQDVLEKKESIQKINT 392 (643)
Q Consensus 335 ~~G~~~~~r~f~m~~VSNspfTe~Ef~rw~~~~~~~~~~lPT~~~v~~K~~~I~ka~n 392 (643)
+||+. .+.|+|++|||+|||++||++|++.|++.++++||+.+|++|+.+|++|+|
T Consensus 98 ~~g~~--~r~~~m~~vSN~~fte~Ef~~w~~~~~~~~~~~PT~~~v~~K~~~i~~a~n 153 (153)
T 2bze_A 98 RHGND--QRVFRLEFVSNQEFTESEFMKWKEAMFSAGMQLPTLDEINKKELSIKEALN 153 (153)
T ss_dssp ESSSC--EEEECGGGBCCSCCCHHHHHHHHHHHHHHTCCCCBHHHHHHHHHHHHHHC-
T ss_pred EECCc--ceEEEeeEeeCCCCCHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHhC
Confidence 99987 478999999999999999999999999999999999999999999999875
No 3
>1gp8_A Protein (scaffolding protein); coat protein-binding domain, helix- loop-helix motif, viral protein; NMR {Enterobacteria phage P22} SCOP: j.58.1.1 PDB: 2gp8_A
Probab=68.58 E-value=5 Score=29.48 Aligned_cols=33 Identities=30% Similarity=0.564 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Q 006477 418 AAEKDRLRRELEVAQSRHDEVDMERIKKRLQEL 450 (643)
Q Consensus 418 a~eK~rL~~ele~A~~~gD~~ev~~l~~qL~eL 450 (643)
+-...-|++++.+|-+.||.+.|..|+.||+.|
T Consensus 7 ~d~I~aiEQqiyvA~seGd~etv~~Le~QL~~l 39 (40)
T 1gp8_A 7 AANKDAIRKQMDAAASKGDVETYRKLKAKLKGI 39 (40)
T ss_dssp HHHHHHHHHHHHHHHTTSCHHHHHHHHHHHTTC
T ss_pred HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Confidence 345667899999999999999999999999653
No 4
>3do9_A UPF0302 protein BA_1542/GBAA1542/BAS1430; uncharacterized protein, structural genomics, protein structure initiative, PSI; 2.75A {Bacillus anthracis}
Probab=53.37 E-value=17 Score=35.25 Aligned_cols=35 Identities=23% Similarity=0.457 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhc
Q 006477 419 AEKDRLRRELEVAQSRHDEVDMERIKKRLQELEAS 453 (643)
Q Consensus 419 ~eK~rL~~ele~A~~~gD~~ev~~l~~qL~eLe~~ 453 (643)
++|.+|+.+|+.|.+.||.+...+|..+|.-||..
T Consensus 149 ~~~~~L~~~ID~ALd~~D~e~F~~Lt~~L~~~~~~ 183 (188)
T 3do9_A 149 FRRERLLKQIDEALDKQDKEAFHRLTAELKMLEGH 183 (188)
T ss_dssp HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGG
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhcc
Confidence 78999999999999999999999999999999875
No 5
>1e52_A Excinuclease ABC subunit; DNA excision repair, UVRB, DNA repair, UVRC binding domain; NMR {Escherichia coli} SCOP: a.2.9.1 PDB: 1qoj_A
Probab=44.20 E-value=37 Score=27.31 Aligned_cols=38 Identities=11% Similarity=0.149 Sum_probs=32.3
Q ss_pred hhHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhc
Q 006477 416 NVAAEKDRLRRELEVAQSRHDEVDMERIKKRLQELEAS 453 (643)
Q Consensus 416 N~a~eK~rL~~ele~A~~~gD~~ev~~l~~qL~eLe~~ 453 (643)
.+.-....|..++..|-..-+++++++|..+|..|+..
T Consensus 21 ~~~~~i~~Le~~M~~AA~~leFE~AA~lRD~I~~L~~~ 58 (63)
T 1e52_A 21 ALQQKIHELEGLMMQHAQNLEFEEAAQIRDQLHQLREL 58 (63)
T ss_dssp HHHHHHHHHHHHHHHHHHTTCHHHHTTHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHH
Confidence 34445667889999999999999999999999999864
No 6
>1x4t_A Hypothetical protein LOC57905; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: a.2.15.1
Probab=39.62 E-value=64 Score=27.91 Aligned_cols=42 Identities=19% Similarity=0.311 Sum_probs=32.4
Q ss_pred CCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHhcCCCCHH-------HHHHHHHHhh
Q 006477 355 PLEEEFKQWLREVERNSGRMPSKQDVLEKKESIQKINTFVYSAA-------TVKQMLQEKK 408 (643)
Q Consensus 355 fTe~Ef~rw~~~~~~~~~~lPT~~~v~~K~~~I~ka~n~~~Tee-------dI~~ml~~K~ 408 (643)
-+-.|.++|...+.+ +|.+|+.+|+ |..+++- +|++.|++|.
T Consensus 21 ~~l~~AekWR~qvik---------EIs~Kv~~Iq---n~~L~E~~IRdLNDEINkL~rEK~ 69 (92)
T 1x4t_A 21 TELPKAEKWRRQIIG---------EISKKVAQIQ---NAGLGEFRIRDLNDEINKLLREKG 69 (92)
T ss_dssp CCHHHHHHHHHHHHH---------HHHHHHHHHH---HCCSCHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHH---------HHHHHHHHhh---CCCCCHHHHHHHHHHHHHHHHHHH
Confidence 466899999999876 7999999999 6777764 4556666665
No 7
>1hlv_A CENP-B, major centromere autoantigen B; helix-turn-helix, protein-DNA complex, riken structural genomics/proteomics initiative, RSGI; 2.50A {Homo sapiens} SCOP: a.4.1.7 a.4.1.7 PDB: 1bw6_A
Probab=22.14 E-value=1.1e+02 Score=26.37 Aligned_cols=38 Identities=16% Similarity=0.110 Sum_probs=32.8
Q ss_pred cCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHhc
Q 006477 354 PPLEEEFKQWLREVERNSGRMPSKQDVLEKKESIQKINT 392 (643)
Q Consensus 354 pfTe~Ef~rw~~~~~~~~~~lPT~~~v~~K~~~I~ka~n 392 (643)
+-.|..+..|+..|...|++ ||-..|..|...|...+.
T Consensus 75 ~~~E~~L~~Wi~~~~~~g~p-vs~~~I~~kA~~i~~~~g 112 (131)
T 1hlv_A 75 DKLEGLLIAWFQQIRAAGLP-VKGIILKEKALRIAEELG 112 (131)
T ss_dssp HHHHHHHHHHHHHHGGGTCC-CCHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHHHhC
Confidence 34588999999999999987 899999999999987653
No 8
>4e81_A Chaperone protein DNAK; chaperone; 1.90A {Escherichia coli} PDB: 3dpp_A* 3dpq_A* 3qnj_A 3dpo_A 1dkz_A 1dky_A 1dkx_A 1bpr_A 2bpr_A 1dg4_A
Probab=21.35 E-value=5.6e+02 Score=24.73 Aligned_cols=25 Identities=20% Similarity=0.332 Sum_probs=19.8
Q ss_pred eeeeeccCCcCCHHHHHHHHHHHHh
Q 006477 345 WQMAMVSDSPPLEEEFKQWLREVER 369 (643)
Q Consensus 345 f~m~~VSNspfTe~Ef~rw~~~~~~ 369 (643)
-.|.+.+++.++++|.++++.....
T Consensus 109 ~~i~I~~~~~Ls~eeI~~m~~~a~~ 133 (219)
T 4e81_A 109 QKITIKASSGLNEDEIQKMVRDAEA 133 (219)
T ss_dssp EEEEECTTCSCCHHHHHHHHHHHHH
T ss_pred ceEeeeccccccHHHHHHHHHHHHH
Confidence 4566666777999999999988766
No 9
>1u00_A HSC66, chaperone protein HSCA; DNAK, HSP70; 1.95A {Escherichia coli} SCOP: a.8.4.1 b.130.1.1
Probab=20.25 E-value=5.9e+02 Score=24.54 Aligned_cols=97 Identities=10% Similarity=0.095 Sum_probs=49.6
Q ss_pred eeeeeccCCcCCHHHHHHHHHHHHhcCCCCCCHHHH-HHHHHHHHHHhcCCCCHHHHHHHHHHhhhcCCCCchhHHHHHH
Q 006477 345 WQMAMVSDSPPLEEEFKQWLREVERNSGRMPSKQDV-LEKKESIQKINTFVYSAATVKQMLQEKKSASSRPLNVAAEKDR 423 (643)
Q Consensus 345 f~m~~VSNspfTe~Ef~rw~~~~~~~~~~lPT~~~v-~~K~~~I~ka~n~~~TeedI~~ml~~K~~~~~~~~N~a~eK~r 423 (643)
..|.+..+..++++|..+++........ .+.. ..+....+.+-.|.|. +...|..-. ..-..-+|..
T Consensus 106 ~~i~i~~~~~Ls~eei~~~~~~~~~~~~----~D~~~~e~~e~kn~le~~i~~---~~~~l~~~~-----~~~~~~~k~~ 173 (227)
T 1u00_A 106 ASIQVKPSYGLTDSEIASMIKDSMSYAE----QDVKARMLAEQKVEAARVLES---LHGALAADA-----ALLSAAERQV 173 (227)
T ss_dssp EEEEECCCSCCCHHHHHHHHHHHHHTHH----HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHG-----GGSCHHHHHH
T ss_pred ceEEEEeccCCCHHHHHHHHHHHHhhhc----ccHHHHHHHHHHHHHHHHHHH---HHHHHHhhh-----ccCCHHHHHH
Confidence 4555556677999999999888776421 1111 1222222333333331 222232211 1112356777
Q ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHHhc
Q 006477 424 LRRELEVAQSRHDEVDMERIKKRLQELEAS 453 (643)
Q Consensus 424 L~~ele~A~~~gD~~ev~~l~~qL~eLe~~ 453 (643)
|...++.++..-+.+..+.|..++++|+..
T Consensus 174 i~~~l~~~~~wl~~~d~~~~~~~~~~L~~~ 203 (227)
T 1u00_A 174 IDDAAAHLSEVAQGDDVDAIEQAIKNVDKQ 203 (227)
T ss_dssp HHHHHHHHHHHTTSSCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence 777776666432222356677777777654
No 10
>2w6a_A ARF GTPase-activating protein GIT1; PIX, zinc, signaling protein, CAT-1, cytoplasm, ANK repeat, coiled-coil, zinc-finger, metal-binding; 1.40A {Rattus norvegicus}
Probab=19.45 E-value=1.5e+02 Score=23.63 Aligned_cols=22 Identities=14% Similarity=0.148 Sum_probs=17.6
Q ss_pred eccCCcCCHHHHHHHHHHHHhc
Q 006477 349 MVSDSPPLEEEFKQWLREVERN 370 (643)
Q Consensus 349 ~VSNspfTe~Ef~rw~~~~~~~ 370 (643)
.+|++|||-.||...+.++...
T Consensus 4 dlsDgpit~qeylevK~ALaaS 25 (63)
T 2w6a_A 4 GSSDGAVTLQEYLELKKALATS 25 (63)
T ss_dssp C--CCSSCHHHHHHHHHHHHHH
T ss_pred cccCCcchHHHHHHHHHHHHhh
Confidence 5799999999999999987763
Done!