RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8289
(91 letters)
>1cc1_L Hydrogenase (large subunit); NI-Fe-Se hydrogenase, oxidoreductase;
2.15A {Desulfomicrobium baculatum} SCOP: e.18.1.1
Length = 498
Score = 27.2 bits (60), Expect = 0.79
Identities = 9/63 (14%), Positives = 17/63 (26%), Gaps = 14/63 (22%)
Query: 12 GPLARIWLAAHWDKKLTKAHVFETNIEKSVDGILQPKFNQVTERLESRKVCPGGDNFEKH 71
GPLAR+W+ + + + E + + +H
Sbjct: 333 GPLARMWVQNPELSPVGQKLLKE--------------LYGIEAKKFRDLGDKAFSIMGRH 378
Query: 72 WFR 74
R
Sbjct: 379 VLR 381
>2wpn_B Periplasmic [nifese] hydrogenase, large subunit,
selenocysteine-containing; metal-binding,
oxidoreductase, oxygen tolerance; HET: FSX SBY PSW;
2.04A {Desulfovibrio vulgaris}
Length = 495
Score = 27.2 bits (60), Expect = 0.86
Identities = 7/23 (30%), Positives = 12/23 (52%)
Query: 12 GPLARIWLAAHWDKKLTKAHVFE 34
GPLAR+W+ + K + +
Sbjct: 329 GPLARMWVNNPELSPVGKKLLKD 351
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 26.5 bits (57), Expect = 1.0
Identities = 6/36 (16%), Positives = 13/36 (36%), Gaps = 18/36 (50%)
Query: 51 QVTERLESRKVCPGGDNFEKHWFRIKVH-PDWESNP 85
Q ++L++ +K++ D S P
Sbjct: 20 QALKKLQA---------------SLKLYADD--SAP 38
>3uqy_L Hydrogenase-1 large chain; membrane-bound hydrogenase,
oxidoreductase; HET: LMT; 1.47A {Escherichia coli} PDB:
3usc_L* 3use_L*
Length = 582
Score = 26.8 bits (58), Expect = 1.0
Identities = 9/21 (42%), Positives = 10/21 (47%)
Query: 12 GPLARIWLAAHWDKKLTKAHV 32
GPLAR +A H T V
Sbjct: 411 GPLARTLIAYHKGDAATVESV 431
>1e3d_B [NIFE] hydrogenase large subunit; molecular modelling, electron
transfer; HET: FSX; 1.8A {Desulfovibrio desulfuricans}
SCOP: e.18.1.1
Length = 542
Score = 26.3 bits (57), Expect = 1.6
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 12 GPLARIWLAAHWDKKLTKAHV 32
GPLA++ +A + K K +
Sbjct: 377 GPLAQMLVAYGHNHKTIKPTI 397
>1yq9_H Periplasmic [NIFE] hydrogenase large subunit; oxidoreductase; 2.35A
{Desulfovibrio gigas} SCOP: e.18.1.1 PDB: 2frv_L 1frv_B
Length = 536
Score = 26.3 bits (57), Expect = 1.8
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 12 GPLARIWLAAHWDKKLTKAHV 32
GPLA + +A + T V
Sbjct: 370 GPLASVLVAYAKKHEPTVKAV 390
>3ayx_A Membrane-bound hydrogenase large subunit; oxidoreductase,
membrane-bound NI-Fe hydrogenase; 1.18A {Hydrogenovibrio
marinus} PDB: 3ayy_A 3ayz_A 3rgw_L
Length = 596
Score = 25.9 bits (56), Expect = 2.0
Identities = 9/21 (42%), Positives = 10/21 (47%)
Query: 12 GPLARIWLAAHWDKKLTKAHV 32
GPLAR LA + K V
Sbjct: 411 GPLARYILAYAQGVEYVKTQV 431
>2ef5_A Arginase; TTHA1496, structural genomic NPPSFA, national project on
protein structural and function analyses; HET: LYS;
2.00A {Thermus thermophilus} PDB: 2ef4_A* 2eiv_A
Length = 290
Score = 25.6 bits (57), Expect = 2.1
Identities = 5/17 (29%), Positives = 9/17 (52%)
Query: 8 LAKKGPLARIWLAAHWD 24
A+ + +W+ AH D
Sbjct: 106 AARGRRVGVVWVDAHAD 122
>1wui_L Periplasmic [NIFE] hydrogenase large subunit; high resolution
[NIFE]hydrogenase, oxidoreductase, NI-A state, unready
state; HET: NFC; 1.04A {Desulfovibrio vulgaris str}
SCOP: e.18.1.1 PDB: 1ubj_L 1ubh_L 1ubl_L 1ubm_L 1ubo_L
1ubr_L 1ubt_L 1ubu_L 1wuh_L* 1ubk_L* 1wuj_L 1wuk_L
1wul_L 1h2r_L 1h2a_L
Length = 534
Score = 25.9 bits (56), Expect = 2.2
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 12 GPLARIWLAAHWDKKLTKAHV 32
GPLA++ +A KA
Sbjct: 368 GPLAQVLIAYSQGHPKVKAVT 388
>3myr_B Nickel-dependent hydrogenase large subunit; [NIFE] hydrogenase,
photosynthetic P sulfur bacterium, iron-sulfur cluster,
NI-A state; HET: SF4; 2.10A {Allochromatium vinosum}
Length = 561
Score = 25.9 bits (56), Expect = 2.3
Identities = 6/21 (28%), Positives = 9/21 (42%)
Query: 12 GPLARIWLAAHWDKKLTKAHV 32
GPLAR+ + + V
Sbjct: 389 GPLARVLMLYATGHDQARELV 409
>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 = 25.6 bits (55), Expect = 2.8
Identities = 8/58 (13%), Positives = 25/58 (43%)
Query: 34 ETNIEKSVDGILQPKFNQVTERLESRKVCPGGDNFEKHWFRIKVHPDWESNPRPSTYR 91
E ++K V+ +L+ + + +++ + P R +++ D + + + R
Sbjct: 76 EEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSR 133
>1yqw_Q Periplasmic [NIFE] hydrogenase large subunit; NI-Fe hydrogenase
unready state, oxidoreductase; 1.83A {Desulfovibrio
fructosovorans} PDB: 1yrq_H 3h3x_Q 3cus_Q 3cur_H 1frf_L
Length = 549
Score = 24.8 bits (53), Expect = 6.1
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 12 GPLARIWLAAHWDKKLTKAHV 32
GPLAR ++A + K V
Sbjct: 384 GPLARTFIAYAKGQPDFKKVV 404
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 0.136 0.451
Gapped
Lambda K H
0.267 0.0470 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,462,310
Number of extensions: 68078
Number of successful extensions: 123
Number of sequences better than 10.0: 1
Number of HSP's gapped: 123
Number of HSP's successfully gapped: 14
Length of query: 91
Length of database: 6,701,793
Length adjustment: 58
Effective length of query: 33
Effective length of database: 5,082,375
Effective search space: 167718375
Effective search space used: 167718375
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 (24.1 bits)