Query 000917
Match_columns 1225
No_of_seqs 188 out of 324
Neff 2.6
Searched_HMMs 29240
Date Tue Mar 26 16:59:46 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/000917.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_685-689//hhsearch_pdb/000917hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3pk1_A Induced myeloid leukemi 1.0 1 1 13.0 -2.0 27 1176-1204 156-182 (189)
2 4hw4_A Induced myeloid leukemi 1.0 1 1 12.9 -6.2 13 1191-1203 136-148 (157)
3 3tj1_A RNA polymerase I-specif 1.0 1 1 12.8 0.0 13 717-729 44-56 (649)
4 1yvu_A Hypothetical protein AQ 1.0 1 1 12.3 0.4 18 1145-1162 662-679 (706)
5 2kc2_A Talin-1, F1; FERM, adhe 1.0 1 1 11.2 -2.2 20 731-750 103-122 (128)
6 4h62_V Mediator of RNA polymer 1.0 1 1 10.9 1.3 23 61-83 4-26 (31)
7 2vqe_C 30S ribosomal protein S 1.0 1 1 10.8 1.0 75 639-717 163-237 (239)
8 4aco_A Centromere DNA-binding 1.0 1 1 10.6 -0.4 9 1198-1206 286-294 (956)
9 1kf6_D Fumarate reductase 13 k 1.0 1 1 10.6 0.3 15 1165-1179 4-18 (119)
10 2cci_F Cell division control p 1.0 1 1 10.2 0.1 27 696-725 4-30 (30)
No 1
>3pk1_A Induced myeloid leukemia cell differentiation Pro 1; BCL-2 family fold, regulation of apoptosis, mitochondri apoptosis-apoptosis regulator complex; 2.49A {Homo sapiens}
Probab=1.00 E-value=1 Score=12.97 Aligned_cols=27 Identities=15% Similarity=0.328 Sum_probs=13.2
Q ss_pred HHHHHHHHCCCCCEEEEEECCEEEEHHHH
Q ss_conf 78999966043117788627820001311
Q 000917 1176 WVLFYILLNQSYSLLMFESNGWLAFYIFL 1204 (1225)
Q Consensus 1176 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1204 (1225)
|+.-|+.-+. .--+-+..||-.|--|.
T Consensus 156 ~i~~fL~~~l--~~WI~~~GGW~gf~~fF 182 (189)
T 3pk1_A 156 SITDVLVRTK--RDWLVKQRGWDGFVEFF 182 (189)
T ss_dssp HHHHHHHHHH--HHHHHHTTTHHHHHHHH
T ss_pred HHHHHHHHHH--HHHHHHCCCHHHHHHHH
T ss_conf 9999998608--88999878889999980
No 2
>4hw4_A Induced myeloid leukemia cell differentiation Pro 1; anti-apoptotic protein, BH3 peptides, apoptosis; 1.53A {Homo sapiens} PDB: 3kj0_A 2pqk_A 3kj1_A 3kj2_A 3kz0_A 3mk8_A 2kbw_A 4hw3_A* 4hw2_A* 3d7v_A 3io9_A 2nl9_A* 2nla_A 4g35_A* 1wsx_A 2jm6_B 2roc_A 2rod_A 3mk8_B
Probab=1.00 E-value=1 Score=12.89 Aligned_cols=13 Identities=31% Similarity=0.823 Sum_probs=6.3
Q ss_pred EEEECCEEEEHHH
Q ss_conf 8862782000131
Q 000917 1191 MFESNGWLAFYIF 1203 (1225)
Q Consensus 1191 ~~~~~~~~~~~~~ 1203 (1225)
+-+..||-.|--|
T Consensus 136 I~~~GGW~gf~~~ 148 (157)
T 4hw4_A 136 LVKQRGWDGFVEF 148 (157)
T ss_dssp HHHTTHHHHHHHH
T ss_pred HHHCCCHHHHHHH
T ss_conf 9987888999999
No 3
>3tj1_A RNA polymerase I-specific transcription initiatio RRN3; heat repeat, transcription factor, nucleus; 2.85A {Saccharomyces cerevisiae}
Probab=1.00 E-value=1 Score=12.77 Aligned_cols=13 Identities=46% Similarity=0.493 Sum_probs=5.9
Q ss_pred HHHCCCCCCCEEE
Q ss_conf 2201356540252
Q 000917 717 LKRKVLMDDTMVL 729 (1225)
Q Consensus 717 ~KRKvl~Dd~mVL 729 (1225)
+||||.||+.+-+
T Consensus 44 k~~~v~f~~~~~~ 56 (649)
T 3tj1_A 44 KKRKVQFSDSTGL 56 (649)
T ss_dssp -------------
T ss_pred CCCCCCCCCCCCC
T ss_conf 2114324655565
No 4
>1yvu_A Hypothetical protein AQ_1447; RNAse H fold, RNA binding protein, gene regulation; 2.90A {Aquifex aeolicus} SCOP: b.34.14.1 c.55.3.10 PDB: 2f8s_A 2f8t_A 2nub_A
Probab=1.00 E-value=1 Score=12.35 Aligned_cols=18 Identities=17% Similarity=0.327 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHCCCCCCC
Q ss_conf 988877775622886321
Q 000917 1145 ACFLFCDIFLKLNLPMKC 1162 (1225)
Q Consensus 1145 ~~~~~~~~~~~~~~~~~~ 1162 (1225)
-|+++..-+-...+|.-|
T Consensus 662 Lc~ly~r~t~svslPaPi 679 (706)
T 1yvu_A 662 LTLMNYSSFQPIKLPATV 679 (706)
T ss_dssp GGGGGCCSSSCCCSCTTT
T ss_pred HHHHCCCCCCCCCCCHHH
T ss_conf 898601648996047589
No 5
>2kc2_A Talin-1, F1; FERM, adhesion, cell membrane, cell projection, cytoplasm, cytoskeleton, membrane, phosphoprotein, structural protein; NMR {Mus musculus}
Probab=1.00 E-value=1 Score=11.17 Aligned_cols=20 Identities=25% Similarity=0.436 Sum_probs=7.6
Q ss_pred HHHHHHHHCCCHHHHHHHHC
Q ss_conf 27788851380679885302
Q 000917 731 GDVIRQQLTNTEDIRRIRKK 750 (1225)
Q Consensus 731 nd~iRqQL~~tEdirrkRKK 750 (1225)
..+.|+|=....+.+..|||
T Consensus 103 srtL~EQGI~e~~tllLRrK 122 (128)
T 2kc2_A 103 GRTLREQGVEEHETLLLRRK 122 (128)
T ss_dssp SSCHHHHTCCTTSEEEEEES
T ss_pred CCCHHHCCCCCCCEEEEEEE
T ss_conf 88688939899977899988
No 6
>4h62_V Mediator of RNA polymerase II transcription subun; mediator complex, nucleus; HET: MES; 3.00A {Saccharomyces cerevisiae}
Probab=1.00 E-value=1 Score=10.95 Aligned_cols=23 Identities=30% Similarity=0.683 Sum_probs=19.4
Q ss_pred CCEEEEEECCHHHHHHHHHHHHH
Q ss_conf 63699982001358887999999
Q 000917 61 LGVVRIYSRKVNYLFDDCSEALL 83 (1225)
Q Consensus 61 lGVVRIYSRKVkYLLsDCneaL~ 83 (1225)
-||.|.-.+|.+-|++.|-+.+.
T Consensus 4 sgvtrfdekqieelldncietfv 26 (31)
T 4h62_V 4 SGVTRFDEKQIEELLDNCIETFV 26 (31)
T ss_dssp ------CHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHHHHHH
T ss_conf 76441359999999998999998
No 7
>2vqe_C 30S ribosomal protein S3; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} PDB: 1gix_F* 1hnw_C* 1hnx_C* 1hnz_C* 1hr0_C 1ibk_C* 1ibl_C* 1ibm_C 1j5e_C 1jgo_F* 1jgp_F* 1jgq_F* 1ml5_F* 1n32_C* 1n33_C* 1n34_C 1n36_C 1xmo_C* 1xmq_C* 1xnq_C* ...
Probab=1.00 E-value=1 Score=10.84 Aligned_cols=75 Identities=12% Similarity=0.200 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCEECCCCCCHHHHHHHHHHCCHHHHHH
Q ss_conf 6654222354310234544323666655456799996001121223766765200259990554445642000023342
Q 000917 639 GKKRSYTESTITVESLNSSESFGVDRTKRNSEFIPDDDDLLSSILVGRKSSVLKMKPTPPVREVASRKRARSASQTNAL 717 (1225)
Q Consensus 639 gkKRs~teStlt~qS~~s~es~g~~~skrT~d~ipDdddllsSILvgr~sP~l~l~PTPp~pev~~~Kr~R~~~~~~~~ 717 (1225)
.|.-.|.|-.+-+|++...=-|+..+..+++--+-=-.=+. -|-..|.-+.+|.|++|...+.-|.|+|......
T Consensus 163 ARtE~~~eG~vpL~Tlra~IDYa~~~a~T~yGviGVKVWI~----~ge~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 237 (239)
T 2vqe_C 163 ARTEWAAQGRVPLHTLRANIDYGFALARTTYGVLGVKAYIF----LGEVIGGQKPKARPELPKAEERPRRRRPAVRVKK 237 (239)
T ss_dssp CCCBCCEEECCCTTCGGGCEEEEEECCBCSSCBCCEEEEEE----CCCC------------------------------
T ss_pred HHHHHHHCCCCCCCCCCCEEEEEEEEEECCCEEEEEEEEEE----CCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECC
T ss_conf 55524314745267763216899999976881489999997----6881877677889777630005311386501036
No 8
>4aco_A Centromere DNA-binding protein complex CBF3 subun; 1.89A {Saccharomyces cerevisiae}
Probab=1.00 E-value=1 Score=10.57 Aligned_cols=9 Identities=67% Similarity=1.313 Sum_probs=0.0
Q ss_pred EEEHHHHHH
Q ss_conf 000131121
Q 000917 1198 LAFYIFLRF 1206 (1225)
Q Consensus 1198 ~~~~~~~~~ 1206 (1225)
||+|.||||
T Consensus 286 LA~YlfLRF 294 (956)
T 4aco_A 286 LAAYLYLRF 294 (956)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
T ss_conf 999999987
No 9
>1kf6_D Fumarate reductase 13 kDa hydrophobic protein; respiration, fumarate reductace, succinate dehydrogenase, CO quinol, quinone, oxidoreductase; HET: FAD HQO CE1 1PE; 2.70A {Escherichia coli} SCOP: f.21.2.2 PDB: 1kfy_D* 1l0v_D* 2b76_D* 3cir_D* 3p4p_D* 3p4q_D* 3p4r_D* 3p4s_D*
Probab=1.00 E-value=1 Score=10.57 Aligned_cols=15 Identities=40% Similarity=0.693 Sum_probs=0.0
Q ss_pred HHHHHCCCCHHHHHH
Q ss_conf 112201463577899
Q 000917 1165 RNYLKSLKPLVWVLF 1179 (1225)
Q Consensus 1165 ~~~~~~~~~~~~~~~ 1179 (1225)
+++-+|-+|.+|-||
T Consensus 4 ~~pkRS~EPi~W~LF 18 (119)
T 1kf6_D 4 PNPKRSDEPVFWGLF 18 (119)
T ss_dssp SSCCCCSHHHHHHHH
T ss_pred CCCCCCCCCCHHEEE
T ss_conf 886767898402114
No 10
>2cci_F Cell division control protein 6 homolog; complex (transferase/cell division), protein kinases, cell C recruitment, substrate recognition; HET: TPO ATP; 2.7A {Homo sapiens}
Probab=1.00 E-value=1 Score=10.15 Aligned_cols=27 Identities=15% Similarity=0.343 Sum_probs=0.0
Q ss_pred CCCCHHHHHHHHHHCCHHHHHHHHCCCCCC
Q ss_conf 999055444564200002334220135654
Q 000917 696 TPPVREVASRKRARSASQTNALKRKVLMDD 725 (1225)
Q Consensus 696 TPp~pev~~~Kr~R~~~~~~~~KRKvl~Dd 725 (1225)
||| .|+-|-+-.|--....+|+..||+
T Consensus 4 SPp---Kq~kkengpp~~~t~kgrrLvFd~ 30 (30)
T 2cci_F 4 SPR---KQGKKENGPPHSHTLKGRRLVFDN 30 (30)
T ss_pred CCC---CCCCCCCCCCCCCCCCCCEEECCC
T ss_conf 860---104456789865665551410269
Done!