RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy832
(80 letters)
>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome
segregation, cell adhesion, kleisin, MIT cell cycle;
HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP:
c.37.1.12
Length = 430
Score = 69.3 bits (170), Expect = 8e-16
Identities = 25/60 (41%), Positives = 36/60 (60%), Gaps = 2/60 (3%)
Query: 1 MYRYKPSPFLLLDEIDAALDNINIWKTIQYIRTVPKMNV--IAVSLKPQFYFHSDILFGI 58
+ Y+PSPF +LDE+DAALD N+ + YIR ++ I +SLK + SD L G+
Sbjct: 350 INSYQPSPFFVLDEVDAALDITNVQRIAAYIRRHRNPDLQFIVISLKNTMFEKSDALVGV 409
>1e69_A Chromosome segregation SMC protein; structural maintenance of
chromosomes, coiled coil; 3.1A {Thermotoga maritima}
SCOP: c.37.1.12
Length = 322
Score = 52.3 bits (126), Expect = 7e-10
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 17/68 (25%)
Query: 1 MYRYKPSPFLLLDEIDAALDNINIWKTIQYIRTVPKMNVIAVSLKPQFYF--H------- 51
+ KPSPF +LDE+D+ LD+ N + + ++ S QF H
Sbjct: 236 LMEIKPSPFYVLDEVDSPLDDYNAERFKRLLKE--------NSKHTQFIVITHNKIVMEA 287
Query: 52 SDILFGIT 59
+D+L G+T
Sbjct: 288 ADLLHGVT 295
>3kta_B Chromosome segregation protein SMC; structural maintenance of
chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A,
transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB:
1xew_Y 1xex_B*
Length = 173
Score = 50.4 bits (121), Expect = 1e-09
Identities = 19/68 (27%), Positives = 32/68 (47%), Gaps = 17/68 (25%)
Query: 1 MYRYKPSPFLLLDEIDAALDNINIWKTIQYIRTVPKMNVIAVSLKPQFYF--H------- 51
+ ++KP+PF L DEIDA LD+ N+ + I+ S + QF
Sbjct: 81 IQKFKPAPFYLFDEIDAHLDDANVKRVADLIKE--------SSKESQFIVITLRDVMMAN 132
Query: 52 SDILFGIT 59
+D + G++
Sbjct: 133 ADKIIGVS 140
>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 = 37.5 bits (86), Expect = 1e-04
Identities = 17/92 (18%), Positives = 33/92 (35%), Gaps = 22/92 (23%)
Query: 7 SPFLLLDEIDAAL-DNINIWKTIQYIRTVPKMNVIAVS---LKP---QFYFHSDILF--- 56
+P L I ++ D + W +++ +I S L+P + F +F
Sbjct: 326 NP-RRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPS 384
Query: 57 -GITLKMLGSL----------TIKGRVHKASL 77
I +L + + ++HK SL
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL 416
>3auy_A DNA double-strand break repair RAD50 ATPase; DNA repair, ABC
transporter ATPase domain-like; HET: DNA ADP; 2.70A
{Methanocaldococcus jannaschii} PDB: 3aux_A* 3av0_B*
Length = 371
Score = 31.4 bits (71), Expect = 0.019
Identities = 9/45 (20%), Positives = 17/45 (37%), Gaps = 1/45 (2%)
Query: 5 KPSPFLLLDEIDAALDNINIWKTIQYIRTVPKM-NVIAVSLKPQF 48
++LDE LD K + R V + +I ++ +
Sbjct: 304 NRVECIILDEPTVYLDENRRAKLAEIFRKVKSIPQMIIITHHREL 348
>3qkt_A DNA double-strand break repair RAD50 ATPase; RECA-like fold,
coiled-coils, ATP binding, DNA bindi MRE11, replication;
HET: DNA ANP; 1.90A {Pyrococcus furiosus} PDB: 3qku_A*
1ii8_A 3qks_B* 3qkr_B* 1ii8_B
Length = 339
Score = 26.2 bits (57), Expect = 1.2
Identities = 13/41 (31%), Positives = 15/41 (36%), Gaps = 2/41 (4%)
Query: 5 KPSPFLLLDEIDAALDNINIWKTIQYIRTVPKMN--VIAVS 43
L+LDE LD K I + K VI VS
Sbjct: 271 GEISLLILDEPTPYLDEERRRKLITIMERYLKKIPQVILVS 311
>1sqh_A Hypothetical protein CG14615-PA; structural genomics, PSI,
protein structure initiative, northeast structural
genomics consortium, NESG; 2.00A {Drosophila
melanogaster} SCOP: d.108.1.5
Length = 312
Score = 24.4 bits (52), Expect = 4.6
Identities = 10/36 (27%), Positives = 16/36 (44%)
Query: 18 ALDNINIWKTIQYIRTVPKMNVIAVSLKPQFYFHSD 53
L N W +P+ ++ +SL+ QFY H
Sbjct: 38 LLYNQRKWDRQLSEAQIPRNDLNHISLRKQFYTHRR 73
>2oqm_A Hypothetical protein; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; 1.83A {Shewanella denitrificans} SCOP: a.213.1.3
Length = 192
Score = 24.1 bits (52), Expect = 6.2
Identities = 8/19 (42%), Positives = 10/19 (52%), Gaps = 1/19 (5%)
Query: 46 PQFYFHSDILFGITLKMLG 64
P YFH +GI L+ G
Sbjct: 156 PNLYFHITTAYGI-LRHNG 173
>3qth_A Uncharacterized protein; DINB/YFIT-like putative metalloenzymes,
structural genomics, center for structural genomics,
JCSG; HET: MSE; 2.20A {Colwellia psychrerythraea}
Length = 176
Score = 24.0 bits (52), Expect = 6.5
Identities = 7/19 (36%), Positives = 11/19 (57%), Gaps = 1/19 (5%)
Query: 46 PQFYFHSDILFGITLKMLG 64
P F+FH +++ I K G
Sbjct: 137 PNFFFHISMVYAI-AKNNG 154
>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 = 23.9 bits (51), Expect = 7.5
Identities = 6/38 (15%), Positives = 12/38 (31%), Gaps = 2/38 (5%)
Query: 1 MYRYKPSP--FLLLDEIDAALDNINIWKTIQYIRTVPK 36
M YK S + + D + + + + P
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPV 1670
>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA
replication, MCM complex, AAA+ Pro ATP-binding,
DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}
Length = 595
Score = 23.8 bits (52), Expect = 7.6
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 38 NVIAVSLKPQFYFHSDILFGITLKMLG 64
+ I S+ P Y H ++ + L + G
Sbjct: 287 DRIISSIAPSIYGHWELKEALALALFG 313
>2p17_A Pirin-like protein; GK1651, structural genomics, south
collaboratory for structural genomics, protein
structure in secsg; 1.52A {Geobacillus kaustophilus}
Length = 277
Score = 23.7 bits (52), Expect = 8.6
Identities = 6/12 (50%), Positives = 6/12 (50%)
Query: 7 SPFLLLDEIDAA 18
PFLLL E
Sbjct: 37 DPFLLLMEDIFE 48
>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur
cluster, adenosine diphosphate, nucleotide-binding; HET:
ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*
Length = 607
Score = 23.8 bits (52), Expect = 9.1
Identities = 8/37 (21%), Positives = 15/37 (40%), Gaps = 4/37 (10%)
Query: 9 FLLLDEIDAALDN---INIWKTIQYIRTVPKMNVIAV 42
F DE + LD + + + I+ + V+ V
Sbjct: 249 FYFFDEPSSYLDIRQRLKVARVIRRLAN-EGKAVLVV 284
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
0.326 0.141 0.414
Gapped
Lambda K H
0.267 0.0620 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,211,113
Number of extensions: 57008
Number of successful extensions: 180
Number of sequences better than 10.0: 1
Number of HSP's gapped: 179
Number of HSP's successfully gapped: 19
Length of query: 80
Length of database: 6,701,793
Length adjustment: 49
Effective length of query: 31
Effective length of database: 5,333,664
Effective search space: 165343584
Effective search space used: 165343584
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.7 bits)