RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2594
(117 letters)
>1k8k_A ARP3, actin-like protein 3, actin-2; beta-propeller, structural
protein; 2.00A {Bos taurus} SCOP: c.55.1.1 c.55.1.1 PDB:
1tyq_A* 1u2v_A* 2p9i_A* 2p9k_A* 2p9l_A 2p9n_A* 2p9p_A*
2p9s_A* 2p9u_A* 3dxk_A* 3dxm_A* 3rse_A
Length = 418
Score = 117 bits (296), Expect = 5e-33
Identities = 73/84 (86%), Positives = 77/84 (91%)
Query: 34 LQRDIKRVVDARLKLSETLSGGYIKPKPIDVQVITHHMQRYAVWFGGSMLASTPEFYEVC 93
LQRD+KR VDARLKLSE LSGG +KPKPIDVQVITHHMQRYAVWFGGSMLASTPEFY+VC
Sbjct: 335 LQRDLKRTVDARLKLSEELSGGRLKPKPIDVQVITHHMQRYAVWFGGSMLASTPEFYQVC 394
Query: 94 HTKAAYEEYGPSICRHNPVFGTMT 117
HTK YEE GPSICRHNPVFG M+
Sbjct: 395 HTKKDYEEIGPSICRHNPVFGVMS 418
>3dwl_A Actin-related protein 3; propellor, actin-binding, ATP-binding,
cytoskeleton, nucleot binding, WD repeat; HET: ATP;
3.78A {Schizosaccharomyces pombe}
Length = 427
Score = 113 bits (284), Expect = 3e-31
Identities = 50/83 (60%), Positives = 57/83 (68%), Gaps = 2/83 (2%)
Query: 34 LQRDIKRVVDARLKLSETLSGGYIKPKPIDVQVITHHMQRYAVWFGGSMLASTPEFYEVC 93
LQRD+KR+VD R+ SE LSG K +DV VI+H QR AVWFGGS+LA TPEF C
Sbjct: 346 LQRDLKRIVDERIHRSEMLSGA--KSGGVDVNVISHKRQRNAVWFGGSLLAQTPEFGSYC 403
Query: 94 HTKAAYEEYGPSICRHNPVFGTM 116
HTKA YEEYG SI R +FG
Sbjct: 404 HTKADYEEYGASIARRYQIFGNS 426
>1k8k_B ARP2, actin-like protein 2; beta-propeller, structural protein;
2.00A {Bos taurus} SCOP: c.55.1.1 PDB: 1tyq_B* 1u2v_B*
2p9i_B* 2p9l_B 2p9n_B* 2p9p_B* 2p9s_B* 2p9u_B* 3dxk_B*
3dxm_B* 3rse_B 2p9k_B*
Length = 394
Score = 90.9 bits (226), Expect = 3e-23
Identities = 16/76 (21%), Positives = 34/76 (44%), Gaps = 6/76 (7%)
Query: 34 LQRDIKRVVDARLKLSETLSGGYIKPKPIDVQVITHHMQRYAVWFGGSMLAS-TPEFYEV 92
L+R++K++ R L G K +++ +++ V+ GG++LA +
Sbjct: 317 LERELKQLYLER-----VLKGDVEKLSKFKIRIEDPPRRKHMVFLGGAVLADIMKDKDNF 371
Query: 93 CHTKAAYEEYGPSICR 108
T+ Y+E G +
Sbjct: 372 WMTRQEYQEKGVRVLE 387
>2fxu_A Alpha-actin-1, actin, alpha skeletal muscle; actin complexed to
bistramide A, structural protein; HET: HIC ATP BID;
1.35A {Oryctolagus cuniculus} SCOP: c.55.1.1 c.55.1.1
PDB: 1h1v_A* 1kxp_A* 1lot_B* 1m8q_7* 1ma9_B* 1mvw_1*
1nwk_A* 1o18_1* 1o19_1* 1o1a_1* 1o1b_0* 1o1c_0* 1o1d_0*
1o1e_1* 1o1f_0* 1o1g_1* 1j6z_A* 1qz6_A* 1rdw_X* 1rfq_A*
...
Length = 375
Score = 82.4 bits (204), Expect = 5e-20
Identities = 20/52 (38%), Positives = 32/52 (61%)
Query: 57 IKPKPIDVQVITHHMQRYAVWFGGSMLASTPEFYEVCHTKAAYEEYGPSICR 108
+ P + +++I ++Y+VW GGS+LAS F ++ TK Y+E GPSI
Sbjct: 320 LAPSTMKIKIIAPPERKYSVWIGGSILASLSTFQQMWITKQEYDEAGPSIVH 371
>3qb0_A Actin-related protein 4; actin fold, ATP binding, nucleus,
structural protein; HET: ATP; 3.40A {Saccharomyces
cerevisiae}
Length = 498
Score = 68.5 bits (167), Expect = 5e-15
Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 62 IDVQVITHHMQR-YAVWFGGSMLASTPEFYEVCHTKAAYEEYGPSICRHN 110
+ H ++R Y W GGS+L S F+++ K YEE G ++
Sbjct: 446 FRILTTGHTIERQYQSWLGGSILTSLGTFHQLWVGKKEYEEVGVERLLND 495
>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 = 32.1 bits (72), Expect = 0.031
Identities = 23/156 (14%), Positives = 48/156 (30%), Gaps = 46/156 (29%)
Query: 2 PPLVATRLKWLLNCPDEAECTPNSKHR---AKKTW---------LQRDI----------- 38
P ++ + + W + N H+ +K + ++
Sbjct: 388 PTILLSLI-WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALH 446
Query: 39 KRVVDARLKLSETLSGGYIKPKPID---VQVITHHM---QRYAVWFGGSMLASTPEFYE- 91
+ +VD + +T + P +D I HH+ + M+ F E
Sbjct: 447 RSIVD-HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQ 505
Query: 92 -VCHTKAAY-------------EEYGPSICRHNPVF 113
+ H A+ + Y P IC ++P +
Sbjct: 506 KIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKY 541
>3djm_A Uncharacterized protein DUF427; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI-2; 2.51A {Rhodobacter sphaeroides 2}
Length = 116
Score = 26.6 bits (59), Expect = 1.2
Identities = 6/45 (13%), Positives = 12/45 (26%), Gaps = 3/45 (6%)
Query: 60 KPIDVQVITHHMQRYAVWFGGSMLASTPEFYEVCHTKAAYEEYGP 104
I ++ + ++L T E+ Y P
Sbjct: 6 NHIRLRKAEGKWV---IRTDSAVLGETLNAIELTEGSRDPVIYFP 47
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 26.8 bits (59), Expect = 1.9
Identities = 7/28 (25%), Positives = 11/28 (39%), Gaps = 3/28 (10%)
Query: 78 FGG---SMLASTPEFYEVCHTKAAYEEY 102
FG + P++ T+ Y EY
Sbjct: 1447 FGQKGGQAIVVHPDYLYGAITEDRYNEY 1474
>3tcs_A Racemase, putative; PSI-biology, nysgrc, structural genomics, NEW
YORK structura genomics research consortium, TIM barrel;
HET: PG4; 1.88A {Roseobacter denitrificans} PDB: 3u4f_A
3t9p_A 3t8q_A
Length = 388
Score = 24.9 bits (55), Expect = 7.9
Identities = 5/25 (20%), Positives = 8/25 (32%)
Query: 61 PIDVQVITHHMQRYAVWFGGSMLAS 85
D+ + + F GS L
Sbjct: 78 ITDLDDLLDIVTEREHKFPGSYLRR 102
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
0.321 0.135 0.439
Gapped
Lambda K H
0.267 0.0778 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,930,754
Number of extensions: 100841
Number of successful extensions: 188
Number of sequences better than 10.0: 1
Number of HSP's gapped: 185
Number of HSP's successfully gapped: 10
Length of query: 117
Length of database: 6,701,793
Length adjustment: 80
Effective length of query: 37
Effective length of database: 4,468,113
Effective search space: 165320181
Effective search space used: 165320181
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (23.3 bits)