RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2907
(88 letters)
>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle
protein; 1.80A {Gallus gallus} PDB: 3u1a_A
Length = 101
Score = 28.3 bits (63), Expect = 0.14
Identities = 13/51 (25%), Positives = 25/51 (49%)
Query: 28 EDANFEQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQI 78
+ E+ + D +D++L+ L +++D L + E E SL R+I
Sbjct: 45 DIVQLEKQLRVTEDSRDQVLEELHKSEDSLLFAEENAAKAESEVASLNRRI 95
Score = 23.7 bits (51), Expect = 7.7
Identities = 7/44 (15%), Positives = 18/44 (40%)
Query: 36 MVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79
M + +K+ LD + + + +E + L++Q+
Sbjct: 11 MQMLKLDKENALDRAEQAEADKKAAEERSKQLEDDIVQLEKQLR 54
>3bas_A Myosin heavy chain, striated muscle/general control protein GCN4
chimera; alpha-helical coiled coil, disorder, salt
links; 2.30A {Argopecten irradians} SCOP: h.1.26.1 PDB:
1nkn_A 3bat_A
Length = 89
Score = 26.1 bits (57), Expect = 1.1
Identities = 11/46 (23%), Positives = 27/46 (58%)
Query: 33 EQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQI 78
E+ VT+ ++K+ L ++++ +D++ E K +E E L++ +
Sbjct: 41 EEQNVTLLEQKNDLFGSMKQLEDKVEELLSKNYHLENEVARLKKLV 86
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 26.7 bits (58), Expect = 1.2
Identities = 11/57 (19%), Positives = 23/57 (40%), Gaps = 8/57 (14%)
Query: 23 SLFSGEDANF-EQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQI 78
S+F A+ L+ ++ + K + +++ K S+VEK+ I
Sbjct: 379 SVFP-PSAHIPTILLSLIWFDVIK-----SDVMVVVNKLH-KYSLVEKQPKESTISI 428
>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle
protein; 2.50A {Gallus gallus}
Length = 101
Score = 25.6 bits (56), Expect = 1.6
Identities = 14/51 (27%), Positives = 27/51 (52%)
Query: 28 EDANFEQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQI 78
E ++ + DE +K ++++E Q++L + K + E E SL R+I
Sbjct: 45 EQQGLQKKLKGTEDEVEKYSESVKEAQEKLEQAEKKATDAEAEVASLNRRI 95
Score = 24.1 bits (52), Expect = 5.3
Identities = 7/46 (15%), Positives = 22/46 (47%)
Query: 36 MVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAAS 81
M + +K+ +D + + + + +E+E+ LQ+++ +
Sbjct: 11 MQMLKLDKENAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGT 56
>3nvt_A 3-deoxy-D-arabino-heptulosonate 7-phosphate synth; bifunctional
3-deoxy-7-phosphoheptulonate synthase/chorismat
listeria monocytogenes EGD-E; 1.95A {Listeria
monocytogenes} PDB: 3tfc_A*
Length = 385
Score = 25.1 bits (55), Expect = 3.0
Identities = 14/54 (25%), Positives = 23/54 (42%), Gaps = 3/54 (5%)
Query: 26 SGEDANFEQLMVTMFDEKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIA 79
SG D E L + L+ LR D+L+ L + +R +L ++I
Sbjct: 9 SGVDLGTENLYFQSNAMVNTNLEELRTQVDQLNI---DLLELISKRANLVQEIG 59
>3l39_A Putative PHOU-like phosphate regulatory protein; BT4638, structural
genomics, joint center for structural genomics, JCSG;
1.93A {Bacteroides thetaiotaomicron}
Length = 227
Score = 24.9 bits (54), Expect = 3.5
Identities = 7/38 (18%), Positives = 14/38 (36%)
Query: 45 KLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAASL 82
L+ R+ L + +L +E + D + L
Sbjct: 148 DELETFRKNPKPLRDYCTQLHDIENQADDVYELFITKL 185
>2znc_A Carbonic anhydrase IV; lyase, zinc, murine, membrane; 2.80A {Mus
musculus} SCOP: b.74.1.1 PDB: 3znc_A*
Length = 258
Score = 24.7 bits (54), Expect = 4.3
Identities = 7/24 (29%), Positives = 12/24 (50%)
Query: 32 FEQLMVTMFDEKDKLLDNLRETQD 55
F + + D+K + DN+R Q
Sbjct: 224 FSKNLYYDEDQKLNMKDNVRPLQP 247
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 24.8 bits (54), Expect = 4.6
Identities = 7/39 (17%), Positives = 18/39 (46%)
Query: 42 EKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQIAA 80
+ +L ++ + Q+ L + EK++ L ++ A
Sbjct: 1117 KIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEA 1155
>1z3i_X Similar to RAD54-like; recombination ATPase helicase,
recombination-DNA binding COM; 3.00A {Danio rerio} SCOP:
c.37.1.19 c.37.1.19
Length = 644
Score = 24.6 bits (54), Expect = 4.8
Identities = 7/30 (23%), Positives = 13/30 (43%)
Query: 40 FDEKDKLLDNLRETQDRLSETSGKLSMVEK 69
FD L T+ + SGK+ +++
Sbjct: 377 FDGALDLFPQNYSTKAVEPQLSGKMLVLDY 406
>3fw3_A Carbonic anhydrase 4; structure-based drug design. small molecule
complex. CO-CRYS membrane, disease mutation,
glycoprotein, GPI-anchor; HET: ETS GLC; 1.72A {Homo
sapiens} PDB: 1znc_A* 3f7b_A* 3f7u_A*
Length = 266
Score = 24.3 bits (53), Expect = 5.5
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 30 ANFEQLMVTMFDEKDKLLDNLRETQD 55
F Q + ++ + DN+R Q
Sbjct: 232 LAFSQKLYYDKEQTVSMKDNVRPLQQ 257
>3d3o_A Putative transcriptional regulator, ICIR family; alpha-beta
structure, effector domain, structural genomics, protein
structure initiative; HET: MSE; 2.46A {Acinetobacter SP}
Length = 178
Score = 23.7 bits (52), Expect = 9.5
Identities = 4/24 (16%), Positives = 10/24 (41%)
Query: 39 MFDEKDKLLDNLRETQDRLSETSG 62
+ D+ L+ L +L ++
Sbjct: 150 IKQNYDRYLELLLNGVQQLKKSDS 173
>3e7l_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+
ATPase, response regulator, transcriptional activator,
ATP-binding; 2.25A {Aquifex aeolicus}
Length = 63
Score = 22.7 bits (49), Expect = 9.9
Identities = 10/37 (27%), Positives = 19/37 (51%), Gaps = 3/37 (8%)
Query: 42 EKDKLLDNLRETQDRLSETSGKLSMVEKERDSLQRQI 78
EK + + LRE L T+ ++ + + +L R+I
Sbjct: 20 EKIFIEEKLREYDYDLKRTAEEIGI---DLSNLYRKI 53
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.316 0.131 0.371
Gapped
Lambda K H
0.267 0.0599 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,217,449
Number of extensions: 58536
Number of successful extensions: 162
Number of sequences better than 10.0: 1
Number of HSP's gapped: 162
Number of HSP's successfully gapped: 29
Length of query: 88
Length of database: 6,701,793
Length adjustment: 56
Effective length of query: 32
Effective length of database: 5,138,217
Effective search space: 164422944
Effective search space used: 164422944
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (23.7 bits)