Query 029662
Match_columns 190
No_of_seqs 16 out of 18
Neff 2.2
Searched_HMMs 29240
Date Tue Mar 26 18:24:40 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/029662.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_2281-2284//hhsearch_pdb/029662hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2jt1_A PEFI protein; solution 1.0 1 1 23.1 1.6 43 135-177 6-49 (77)
2 1r71_A Transcriptional repress 1.0 1 1 21.5 2.3 29 153-181 53-81 (178)
3 1ylf_A RRF2 family protein; st 1.0 1 1 21.2 3.7 40 134-177 16-55 (149)
4 2k02_A Ferrous iron transport 1.0 1 1 20.8 2.5 28 150-177 14-41 (87)
5 1xn7_A Hypothetical protein YH 1.0 1 1 20.7 3.2 38 135-177 4-41 (78)
6 2heo_A Z-DNA binding protein 1 1.0 1 1 20.6 2.8 37 136-176 13-49 (67)
7 2pi2_A Replication protein A 3 1.0 1 1 20.3 0.0 52 123-177 198-250 (270)
8 2d1h_A ST1889, 109AA long hypo 1.0 1 1 20.0 4.1 43 129-176 18-60 (109)
9 3t8r_A Staphylococcus aureus C 1.0 1 1 19.7 4.2 40 135-177 14-53 (143)
10 3r0a_A Putative transcriptiona 1.0 1 1 19.6 4.7 43 130-177 24-67 (123)
No 1
>2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2}
Probab=1.00 E-value=1 Score=23.10 Aligned_cols=43 Identities=23% Similarity=0.422 Sum_probs=32.3
Q ss_pred HHHHHHHHHCCCCCC-CCCCCHHHHHHHHCHHHHHHHHHHHHHC
Q ss_conf 999999851567888-9998888999873122999998877526
Q 029662 135 LRRIMLLHQGKADDH-NGPLDAKQIAEKFRLDVLQVQAILQCLS 177 (190)
Q Consensus 135 l~~ii~L~QGk~~~h-~gPM~v~~iAeKFrv~v~~vq~Ilqf~S 177 (190)
.++|+.+-+-.-+++ .+|.+|.+||+.|.|-.+.|.+-|..|.
T Consensus 6 ~~~IL~~I~~~i~~~~g~~psv~EIa~~lgvS~~TVrr~L~~Le 49 (77)
T 2jt1_A 6 VTKIISIVQERQNMDDGAPVKTRDIADAAGLSIYQVRLYLEQLH 49 (77)
T ss_dssp HHHHHHHHHHHHHHHTTSCEEHHHHHHHHTCCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHHHHH
T ss_conf 99999999998763269991799999998989999999999999
No 2
>1r71_A Transcriptional repressor protein KORB; INCP, plasmid partitioning, protein-DNA complex, heilx-turn- helix motif, transcription factor; HET: BRU; 2.20A {Escherichia coli} SCOP: a.4.14.1
Probab=1.00 E-value=1 Score=21.51 Aligned_cols=29 Identities=17% Similarity=0.200 Sum_probs=27.2
Q ss_pred CCHHHHHHHHCHHHHHHHHHHHHHCCCCC
Q ss_conf 88889998731229999988775268998
Q 029662 153 LDAKQIAEKFRLDVLQVQAILQCLSLPPE 181 (190)
Q Consensus 153 M~v~~iAeKFrv~v~~vq~Ilqf~SlP~e 181 (190)
++..+||++|-+..+.|.+.|.++.||++
T Consensus 53 ~t~eeiA~~lG~s~s~V~~~LrLl~Lp~~ 81 (178)
T 1r71_A 53 KKKGDIAKEIGKSPAFITQHVTLLDLPEK 81 (178)
T ss_dssp CCHHHHHHHHTCCHHHHHHHHGGGSCCHH
T ss_pred CCHHHHHHHHCCCHHHHHHHHHHHCCCHH
T ss_conf 99999999989499999999999769999
No 3
>1ylf_A RRF2 family protein; structural genomics, transcription regulator, P protein structure initiative; 2.50A {Bacillus cereus atcc 14579} SCOP: a.4.5.55
Probab=1.00 E-value=1 Score=21.17 Aligned_cols=40 Identities=13% Similarity=0.245 Sum_probs=30.0
Q ss_pred HHHHHHHHHHCCCCCCCCCCCHHHHHHHHCHHHHHHHHHHHHHC
Q ss_conf 99999998515678889998888999873122999998877526
Q 029662 134 QLRRIMLLHQGKADDHNGPLDAKQIAEKFRLDVLQVQAILQCLS 177 (190)
Q Consensus 134 ~l~~ii~L~QGk~~~h~gPM~v~~iAeKFrv~v~~vq~Ilqf~S 177 (190)
.|+-++.|.+. ..+|+++++||+.+.+....+.+|++-|.
T Consensus 16 Al~~L~~La~~----~~~~~~~~~iA~~~~i~~~~l~kil~~L~ 55 (149)
T 1ylf_A 16 AVHILSILKNN----PSSLCTSDYMAESVNTNPVVIRKIMSYLK 55 (149)
T ss_dssp HHHHHHHHHHS----CGGGCCHHHHHHHHTSCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHC----CCCCCCHHHHHHHHCCCHHHHHHHHHHHH
T ss_conf 99999999838----99986999999988909999999999999
No 4
>2k02_A Ferrous iron transport protein C; FEOC, iron-sulfur, metal-binding, metal binding protein; NMR {Klebsiella pneumoniae subsp}
Probab=1.00 E-value=1 Score=20.82 Aligned_cols=28 Identities=21% Similarity=0.457 Sum_probs=25.3
Q ss_pred CCCCCHHHHHHHHCHHHHHHHHHHHHHC
Q ss_conf 9998888999873122999998877526
Q 029662 150 NGPLDAKQIAEKFRLDVLQVQAILQCLS 177 (190)
Q Consensus 150 ~gPM~v~~iAeKFrv~v~~vq~Ilqf~S 177 (190)
+|.++|.+||+.|.|...-|.+.|..|.
T Consensus 14 ~g~vsv~eLA~~l~VS~~TIRrDL~~Le 41 (87)
T 2k02_A 14 QGRMEAKQLSARLQTPQPLIDAMLERME 41 (87)
T ss_dssp SCSEEHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHHH
T ss_conf 4998699999998909999999999999
No 5
>1xn7_A Hypothetical protein YHGG; alpha+beta, GFT structural genomics, protein structure initiative, PSI, NESG; NMR {Escherichia coli} SCOP: a.4.5.62
Probab=1.00 E-value=1 Score=20.73 Aligned_cols=38 Identities=26% Similarity=0.320 Sum_probs=29.0
Q ss_pred HHHHHHHHHCCCCCCCCCCCHHHHHHHHCHHHHHHHHHHHHHC
Q ss_conf 9999998515678889998888999873122999998877526
Q 029662 135 LRRIMLLHQGKADDHNGPLDAKQIAEKFRLDVLQVQAILQCLS 177 (190)
Q Consensus 135 l~~ii~L~QGk~~~h~gPM~v~~iAeKFrv~v~~vq~Ilqf~S 177 (190)
|++|+.+-+ .+|.++|.+||+.|.|...-|.+.|..+.
T Consensus 4 L~~Il~~L~-----~~g~vsv~eLa~~l~VS~~TIRrdL~~Le 41 (78)
T 1xn7_A 4 LIQVRDLLA-----LRGRMEAAQISQTLNTPQPMINAMLQQLE 41 (78)
T ss_dssp HHHHHHHHH-----HSCSBCHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred HHHHHHHHH-----HCCCCCHHHHHHHHCCCHHHHHHHHHHHH
T ss_conf 999999999-----94998699999998909999999999999
No 6
>2heo_A Z-DNA binding protein 1; protein DLM1-Z-DNA complex, immune system-DNA complex; 1.70A {Mus musculus} PDB: 1j75_A
Probab=1.00 E-value=1 Score=20.55 Aligned_cols=37 Identities=19% Similarity=0.357 Sum_probs=29.3
Q ss_pred HHHHHHHHCCCCCCCCCCCHHHHHHHHCHHHHHHHHHHHHH
Q ss_conf 99999851567888999888899987312299999887752
Q 029662 136 RRIMLLHQGKADDHNGPLDAKQIAEKFRLDVLQVQAILQCL 176 (190)
Q Consensus 136 ~~ii~L~QGk~~~h~gPM~v~~iAeKFrv~v~~vq~Ilqf~ 176 (190)
..|+.+... +..|+++.+||++|.+.-+.|.++++-|
T Consensus 13 ~~IL~~L~~----~~~~~s~~eLA~~lglsr~tv~~~l~~L 49 (67)
T 2heo_A 13 QKILQVLSD----DGGPVAIFQLVKKCQVPKKTLNQVLYRL 49 (67)
T ss_dssp HHHHHHHHH----HCSCEEHHHHHHHHCSCHHHHHHHHHHH
T ss_pred HHHHHHHHH----CCCCCCHHHHHHHHCCCHHHHHHHHHHH
T ss_conf 999999987----6999699999999890999999999999
No 7
>2pi2_A Replication protein A 32 kDa subunit; FULL-length RPA14/32, ssDNA binding protein, OB-fold, dioxan replication, DNA binding protein; 2.00A {Homo sapiens} SCOP: b.40.4.3 PDB: 2z6k_A 1dpu_A 1z1d_A
Probab=1.00 E-value=1 Score=20.31 Aligned_cols=52 Identities=19% Similarity=0.321 Sum_probs=35.8
Q ss_pred CCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHC-HHHHHHHHHHHHHC
Q ss_conf 78999862399999999985156788899988889998731-22999998877526
Q 029662 123 KPSPPGTLNVAQLRRIMLLHQGKADDHNGPLDAKQIAEKFR-LDVLQVQAILQCLS 177 (190)
Q Consensus 123 r~~p~GTLNva~l~~ii~L~QGk~~~h~gPM~v~~iAeKFr-v~v~~vq~Ilqf~S 177 (190)
+.+|...|+..+ +.|+.+.+...+ +.-+++++|+.+|+ +....|..+++||+
T Consensus 198 ~~~~~~~~~~~~-~~Vl~~i~~~~~--~~Gi~~~~I~~~l~~~~~~~v~~al~~L~ 250 (270)
T 2pi2_A 198 SFMPANGLTVAQ-NQVLNLIKACPR--PEGLNFQDLKNQLKHMSVSSIKQAVDFLS 250 (270)
T ss_dssp --------------------------------------------------------
T ss_pred CCCCCCCCCHHH-HHHHHHHHHCCC--CCCCCHHHHHHHHCCCCHHHHHHHHHHHH
T ss_conf 556777877899-999999970887--46979999999842899999999999998
No 8
>2d1h_A ST1889, 109AA long hypothetical transcriptional regulator; helix-turn-helix, intermolecular and intramolecular S-S bond structural genomics; 2.05A {Sulfolobus tokodaii} SCOP: a.4.5.50
Probab=1.00 E-value=1 Score=19.96 Aligned_cols=43 Identities=16% Similarity=0.357 Sum_probs=33.5
Q ss_pred CCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHCHHHHHHHHHHHHH
Q ss_conf 623999999999851567888999888899987312299999887752
Q 029662 129 TLNVAQLRRIMLLHQGKADDHNGPLDAKQIAEKFRLDVLQVQAILQCL 176 (190)
Q Consensus 129 TLNva~l~~ii~L~QGk~~~h~gPM~v~~iAeKFrv~v~~vq~Ilqf~ 176 (190)
.|...+++-|+.|+. +++++++.+||+.+.+..+.|.++|+.+
T Consensus 18 ~l~~~~~~~l~~l~~-----~~~~~t~~ela~~l~is~~tv~~~l~~L 60 (109)
T 2d1h_A 18 KITDTDVAVLLKMVE-----IEKPITSEELADIFKLSKTTVENSLKKL 60 (109)
T ss_dssp TCCHHHHHHHHHHHH-----HCSCEEHHHHHHHHTCCHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHH-----CCCCCCHHHHHHHHCCCHHHHHHHHHHH
T ss_conf 699899999999998-----0799899999999893999999999999
No 9
>3t8r_A Staphylococcus aureus CYMR; transcriptional regulator protein, dimer, sulfenic acid, UNK function; 1.70A {Staphylococcus aureus} PDB: 3t8t_A
Probab=1.00 E-value=1 Score=19.74 Aligned_cols=40 Identities=25% Similarity=0.326 Sum_probs=29.3
Q ss_pred HHHHHHHHHCCCCCCCCCCCHHHHHHHHCHHHHHHHHHHHHHC
Q ss_conf 9999998515678889998888999873122999998877526
Q 029662 135 LRRIMLLHQGKADDHNGPLDAKQIAEKFRLDVLQVQAILQCLS 177 (190)
Q Consensus 135 l~~ii~L~QGk~~~h~gPM~v~~iAeKFrv~v~~vq~Ilqf~S 177 (190)
|+-++.|.+. ..++|+++++||+.+.+....+.+|++-|.
T Consensus 14 l~~L~~La~~---~~~~~~s~~~IA~~~~i~~~~l~kil~~L~ 53 (143)
T 3t8r_A 14 LTLMISLAKK---EGQGCISLKSIAEENNLSDLYLEQLVGPLR 53 (143)
T ss_dssp HHHHHHHHTT---TTSCCEEHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred HHHHHHHHHC---CCCCCCCHHHHHHHHCCCHHHHHHHHHHHH
T ss_conf 9999999838---899975899999877909999999999999
No 10
>3r0a_A Putative transcriptional regulator; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; 2.31A {Methanosarcina mazei}
Probab=1.00 E-value=1 Score=19.65 Aligned_cols=43 Identities=23% Similarity=0.336 Sum_probs=31.4
Q ss_pred CCHHHHHHHHHHHHCCCCCCCCC-CCHHHHHHHHCHHHHHHHHHHHHHC
Q ss_conf 23999999999851567888999-8888999873122999998877526
Q 029662 130 LNVAQLRRIMLLHQGKADDHNGP-LDAKQIAEKFRLDVLQVQAILQCLS 177 (190)
Q Consensus 130 LNva~l~~ii~L~QGk~~~h~gP-M~v~~iAeKFrv~v~~vq~Ilqf~S 177 (190)
|...+.+-+..|.+ +.+| +++.+||+++.+..+.|.++|+.|-
T Consensus 24 Lt~~e~~il~~L~~-----~~~~~~t~~eLa~~l~~s~sTV~r~L~~L~ 67 (123)
T 3r0a_A 24 LTKADLNVMKSFLN-----EPDRWIDTDALSKSLKLDVSTVQRSVKKLH 67 (123)
T ss_dssp CCHHHHHHHHHHHH-----STTCCEEHHHHHHHHTSCHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHH-----CCCCCCCHHHHHHHHCCCHHHHHHHHHHHH
T ss_conf 89999999999997-----899996999999998919999999999999
Done!