RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16645
(94 letters)
>2b3y_A Iron-responsive element binding protein 1; IRP1 IRE-IRP1
aconitase activity, lyase; 1.85A {Homo sapiens} SCOP:
c.8.2.1 c.83.1.1 PDB: 2b3x_A 3snp_A 3sn2_A 2ipy_A
Length = 888
Score = 143 bits (362), Expect = 2e-41
Identities = 50/91 (54%), Positives = 62/91 (68%), Gaps = 3/91 (3%)
Query: 3 NPYEHLKKTLNIGEKTYNYYDLPGL-GQSYDKLPFSIRVLLESAVRNCDEFQVKKSHVEN 61
NP+ HL + L+ + +++L L Y +LPFSIRVLLE+A+RNCDEF VKK +EN
Sbjct: 2 NPFAHLAEPLDPVQPGKKFFNLNKLEDSRYGRLPFSIRVLLEAAIRNCDEFLVKKQDIEN 61
Query: 62 ILKWEENQRLEGGVEVPFKPARVILQDLTGV 92
IL W Q +EVPFKPARVILQD TGV
Sbjct: 62 ILHWNVTQ--HKNIEVPFKPARVILQDFTGV 90
>1c96_A Mitochondrial aconitase; lyase, tricarboxylic acid cycle,
iron-sulfur, mitochondrion, transit peptide, 4Fe-4S,
3D-structure; HET: FLC; 1.81A {Bos taurus} SCOP:
c.8.2.1 c.83.1.1 PDB: 1c97_A* 1b0k_A* 1b0j_A* 7acn_A*
6acn_A* 5acn_A* 1b0m_A* 1ami_A* 1amj_A 8acn_A* 1fgh_A*
1aco_A* 1nis_A* 1nit_A
Length = 753
Score = 58.8 bits (143), Expect = 5e-12
Identities = 14/63 (22%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 31 YDKLPFSIRVLLESAVRNCDEFQ-VKKSHVENILKWEENQRLEGGVEVPFKPARVILQDL 89
YD L +I ++ + R + + H+++ E + G + +P RV +QD
Sbjct: 17 YDLLEKNIDIVRKRLNRPLTLSEKIVYGHLDDPANQEIER---GKTYLRLRPDRVAMQDA 73
Query: 90 TGV 92
T
Sbjct: 74 TAQ 76
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 29.6 bits (66), Expect = 0.12
Identities = 15/64 (23%), Positives = 24/64 (37%), Gaps = 10/64 (15%)
Query: 20 NYYD-LPGLGQSYDKL--PF--SIRVLLESAVRNCDEFQVKKSHVENILKWEENQRLEGG 74
+Y++ L L Q+Y L L +R + + + NIL+W LE
Sbjct: 168 DYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEW-----LENP 222
Query: 75 VEVP 78
P
Sbjct: 223 SNTP 226
>3v48_A Aminohydrolase, putative aminoacrylate hydrolase RUTD; structural
genomics, PSI-biology, NEW YORK structural genomi
research consortium; 2.10A {Escherichia coli SE11}
Length = 268
Score = 28.4 bits (64), Expect = 0.28
Identities = 9/40 (22%), Positives = 15/40 (37%), Gaps = 2/40 (5%)
Query: 22 YDLPGLGQSYDKL--PFSIRVLLESAVRNCDEFQVKKSHV 59
YD G G + D L +SI + + ++ V
Sbjct: 47 YDQRGTGNNPDTLAEDYSIAQMAAELHQALVAAGIEHYAV 86
>2hzl_A Trap-T family sorbitol/mannitol transporter, periplasmic binding
protein, SMOM; trap transporter, periplasmic subunit,
ligand binding; 1.40A {Rhodobacter sphaeroides 2} PDB:
2hzk_A
Length = 365
Score = 28.1 bits (63), Expect = 0.36
Identities = 12/69 (17%), Positives = 23/69 (33%), Gaps = 14/69 (20%)
Query: 21 YYDLPGLGQS------------YDKLPFSIRVLLESAVRNCDEFQVKKSHVENILKWEEN 68
YY PG + Y+ L + + LL +A D ++ +N +
Sbjct: 232 YYYYPGWWEGGPTVHFMFNKSAYEGLTPTYQSLLRTACHAADANMLQLYDWKNPTAIKSL 291
Query: 69 QRLEGGVEV 77
G ++
Sbjct: 292 V--AQGTQL 298
>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 = 14/77 (18%), Positives = 24/77 (31%), Gaps = 23/77 (29%)
Query: 5 YEHLKKTLNIGEKTYNYYDLPGLGQSYDKLPFSIRVLLESAVRNCDEFQV--------KK 56
+ H GE Y Y D+ + V ++ V N D V K
Sbjct: 2 HHHHHMDFETGEHQYQYKDI-------------LSVFEDAFVDNFDCKDVQDMPKSILSK 48
Query: 57 SHVENILKWEENQRLEG 73
+++I+ + G
Sbjct: 49 EEIDHIIM--SKDAVSG 63
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT,
cytoplasmic vesicle, membrane, Ca structural protein;
7.94A {Bos taurus}
Length = 190
Score = 26.3 bits (57), Expect = 1.4
Identities = 8/15 (53%), Positives = 10/15 (66%), Gaps = 2/15 (13%)
Query: 60 ENILKWEENQ--RLE 72
E+I KW E Q RL+
Sbjct: 85 ESIRKWREEQRKRLQ 99
>2xua_A PCAD, 3-oxoadipate ENOL-lactonase; hydrolase, catechol
metabolism; 1.90A {Burkholderia xenovorans}
Length = 266
Score = 26.4 bits (59), Expect = 1.4
Identities = 9/40 (22%), Positives = 18/40 (45%), Gaps = 3/40 (7%)
Query: 22 YDLPGLGQSYDKL--PFSIRVLLESAVRNCDEFQVKKSHV 59
YD G G S + P++I L + D ++ +++
Sbjct: 58 YDTRGHGHS-EAPKGPYTIEQLTGDVLGLMDTLKIARANF 96
>3om8_A Probable hydrolase; structural genomics, PSI-2, protein structure
initiative, MI center for structural genomics, MCSG;
HET: MES; 2.25A {Pseudomonas aeruginosa}
Length = 266
Score = 26.0 bits (58), Expect = 1.7
Identities = 11/40 (27%), Positives = 19/40 (47%), Gaps = 3/40 (7%)
Query: 22 YDLPGLGQSYDKL--PFSIRVLLESAVRNCDEFQVKKSHV 59
YD G G S P+++ L E + D +V+++H
Sbjct: 59 YDARGHGAS-SVPPGPYTLARLGEDVLELLDALEVRRAHF 97
>3e0x_A Lipase-esterase related protein; APC60309, clostridium
acetobutylicum ATCC 824, structural genomics, PSI-2;
HET: MSE; 1.45A {Clostridium acetobutylicum}
Length = 245
Score = 25.3 bits (56), Expect = 3.6
Identities = 8/35 (22%), Positives = 16/35 (45%)
Query: 22 YDLPGLGQSYDKLPFSIRVLLESAVRNCDEFQVKK 56
DL G G+S + P ++ +++ +V K
Sbjct: 47 LDLKGHGESKGQCPSTVYGYIDNVANFITNSEVTK 81
>1nv8_A HEMK protein; class I adoMet-dependent methyltransferase; HET:
SAM MEQ; 2.20A {Thermotoga maritima} SCOP: c.66.1.30
PDB: 1nv9_A* 1vq1_A* 1sg9_A*
Length = 284
Score = 24.0 bits (53), Expect = 8.4
Identities = 6/35 (17%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 59 VENILKWEENQRLEGGVEVPFKPARVILQDLTGVN 93
+ ++++ +LEG E +I+ + G+
Sbjct: 16 IWSLIRDCS-GKLEGVTETSVLEVLLIVSRVLGIR 49
>1yx1_A Hypothetical protein PA2260; structural genomics, PSI, PROT
structure initiative; HET: MSE; 1.80A {Pseudomonas
aeruginosa PAO1} SCOP: c.1.15.7
Length = 264
Score = 23.8 bits (51), Expect = 9.9
Identities = 10/70 (14%), Positives = 23/70 (32%), Gaps = 5/70 (7%)
Query: 5 YEHLKKTLNIGEKTYNYY-----DLPGLGQSYDKLPFSIRVLLESAVRNCDEFQVKKSHV 59
Y H K + + DL + P + +E ++ D + + H+
Sbjct: 187 YVHCKAVIRNRDGKLVAVPPSAADLQYWQRLLQHFPEGVARAIEYPLQGDDLLSLSRRHI 246
Query: 60 ENILKWEENQ 69
+ + + Q
Sbjct: 247 AALARLGQPQ 256
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 0.138 0.405
Gapped
Lambda K H
0.267 0.0496 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,434,969
Number of extensions: 68006
Number of successful extensions: 128
Number of sequences better than 10.0: 1
Number of HSP's gapped: 125
Number of HSP's successfully gapped: 14
Length of query: 94
Length of database: 6,701,793
Length adjustment: 61
Effective length of query: 33
Effective length of database: 4,998,612
Effective search space: 164954196
Effective search space used: 164954196
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 (24.0 bits)