RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1421
(89 letters)
>4ds1_A Dynein light chain 1, cytoplasmic; dynein light chain fold,
peptide binding, nucle structural protein-transport
protein complex; 1.85A {Saccharomyces cerevisiae}
Length = 97
Score = 160 bits (407), Expect = 2e-53
Identities = 44/92 (47%), Positives = 67/92 (72%), Gaps = 3/92 (3%)
Query: 1 MSDR---KAVIKNADMSEEMQQDAVDCATQALEKYNIEKDIAAYIKKEFDKKYNPTWHCI 57
MSD ++K +D+++++++D + + AL+KY +E+DIA +KK+ D KY TWH I
Sbjct: 6 MSDENKSTPIVKASDITDKLKEDILTISKDALDKYQLERDIAGTVKKQLDVKYGNTWHVI 65
Query: 58 VGRNFGSYVTHETRHFIYFYLGQVAILLFKSG 89
VG+NFGSYVTHE HF+YFY+G +A L+FK+
Sbjct: 66 VGKNFGSYVTHEKGHFVYFYIGPLAFLVFKTA 97
>1yo3_A Dynein light chain 1; structural genomics consortium, microtub
malaria, SGC, transport protein; 1.65A {Plasmodium
falciparum} PDB: 1f3c_A 1f95_A 1f96_A 1rhw_A 2p1k_A
2p2t_A 3bri_A 3e2b_A 3fm7_E 3glw_A 3dvt_A 2pg1_A 3p8m_A
1pwj_A 2xqq_A 3brl_A 1re6_A 1cmi_A 3dvh_A 3dvp_A ...
Length = 102
Score = 159 bits (404), Expect = 6e-53
Identities = 69/89 (77%), Positives = 83/89 (93%)
Query: 1 MSDRKAVIKNADMSEEMQQDAVDCATQALEKYNIEKDIAAYIKKEFDKKYNPTWHCIVGR 60
+ R +V+KN DM+EEMQ DA+DCA QAL+KYN+EKDIAA+IKKEFD+KY+PTWHC+VGR
Sbjct: 14 LVPRGSVVKNVDMTEEMQIDAIDCANQALQKYNVEKDIAAHIKKEFDRKYDPTWHCVVGR 73
Query: 61 NFGSYVTHETRHFIYFYLGQVAILLFKSG 89
NFGSYVTHET++FIYFY+GQVAILLFKSG
Sbjct: 74 NFGSYVTHETKNFIYFYIGQVAILLFKSG 102
>3m6z_A Topoisomerase V; helix-hairpin-helix, conformational changes I
protein; HET: PO4; 1.40A {Methanopyrus kandleri} PDB:
3m6k_A* 3m7d_A 3m7g_A
Length = 380
Score = 28.9 bits (64), Expect = 0.17
Identities = 11/35 (31%), Positives = 21/35 (60%)
Query: 13 MSEEMQQDAVDCATQALEKYNIEKDIAAYIKKEFD 47
M ++Q V+CA + ++Y I +D+A + + FD
Sbjct: 286 MRRYLEQRIVECALKLQDRYGIREDVALCLARAFD 320
>2csb_A Topoisomerase V, TOP61; topoisomerase IB, helix-turn-helix, helix-H
helix, HHH motif, three helix bundle, methanopyrus
kandleri isomerase; 2.30A {Methanopyrus kandleri} SCOP:
a.60.2.4 a.60.2.4 a.60.2.4 a.60.2.4 a.267.1.1 PDB:
2csd_A
Length = 519
Score = 28.9 bits (64), Expect = 0.18
Identities = 11/35 (31%), Positives = 21/35 (60%)
Query: 13 MSEEMQQDAVDCATQALEKYNIEKDIAAYIKKEFD 47
M ++Q V+CA + ++Y I +D+A + + FD
Sbjct: 286 MRRYLEQRIVECALKLQDRYGIREDVALCLARAFD 320
>3tuf_A Stage III sporulation protein AH; intercellular signalling,
intercellular channel, sporulation engulfment and
signalling, intercellular space; 2.26A {Bacillus
subtilis} PDB: 3uz0_A
Length = 197
Score = 26.0 bits (56), Expect = 1.5
Identities = 10/39 (25%), Positives = 18/39 (46%)
Query: 5 KAVIKNADMSEEMQQDAVDCATQALEKYNIEKDIAAYIK 43
A++ + D + + + +A D T E EK + IK
Sbjct: 104 NAIVSSDDATAKEKSEAYDKMTALSEVEGTEKQLETLIK 142
>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 = 26.0 bits (56), Expect = 2.3
Identities = 12/87 (13%), Positives = 21/87 (24%), Gaps = 30/87 (34%)
Query: 14 SEEMQQDAVDCATQAL-EKYNIEK-----DIAAYIKKEFDK----------KYN-----P 52
++ +L EK E I +K + + YN
Sbjct: 401 KSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFD 460
Query: 53 TWHCIVGRNFGSYVTHETRHFIYFYLG 79
+ I Y Y ++G
Sbjct: 461 SDDLIPPYLDQ-Y--------FYSHIG 478
>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 = 25.8 bits (56), Expect = 2.6
Identities = 9/31 (29%), Positives = 12/31 (38%), Gaps = 8/31 (25%)
Query: 18 QQ-------DAVDCATQALEKYNIEK-DIAA 40
QQ A+D T L ++K DI
Sbjct: 1851 QQYVAAGDLRALDTVTNVLNFIKLQKIDIIE 1881
>3js3_A 3-dehydroquinate dehydratase; AROD, covalent reaction intermediate,
amino-acid biosynthesis, aromatic amino acid
biosynthesis, lyase; HET: DHS; 2.20A {Clostridium
difficile}
Length = 258
Score = 24.2 bits (52), Expect = 6.3
Identities = 14/72 (19%), Positives = 24/72 (33%), Gaps = 7/72 (9%)
Query: 1 MSDRKA-VIKNADMSEEMQQ-DAVDCATQALEKYNIEKDIAAYIKKEFDKKYNPTWHCIV 58
M + A + K A M + + + AT + K ++ I +
Sbjct: 165 MQELGADLPKIAVMPQNEKDVLVLLEATNEMFKIYADRPIITMSMSGMGV-----ISRLC 219
Query: 59 GRNFGSYVTHET 70
G FGS +T
Sbjct: 220 GEIFGSALTFGA 231
>1gd9_A Aspartate aminotransferase; pyridoxal enzyme, temperature
dependence O substrate recognition; HET: PLP; 1.80A
{Pyrococcus horikoshii} SCOP: c.67.1.1 PDB: 1gde_A*
1dju_A*
Length = 389
Score = 24.0 bits (53), Expect = 7.8
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 38 IAAYIKKEFDKKYNPTWHCIVG 59
IA +KK+ + +P +V
Sbjct: 72 IAEKLKKQNGIEADPKTEIMVL 93
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 24.0 bits (51), Expect = 8.9
Identities = 11/55 (20%), Positives = 27/55 (49%), Gaps = 9/55 (16%)
Query: 3 DRKAVIKNAD-MSEEMQQDAVDCATQALEKY------NIEKDIAAYIKKEFDKKY 50
+++ ++ D S+ M+Q+ + A + LE++ +EK+ + DK +
Sbjct: 93 EQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKIN--NRIADKAF 145
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
0.322 0.135 0.404
Gapped
Lambda K H
0.267 0.0669 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,391,656
Number of extensions: 71944
Number of successful extensions: 223
Number of sequences better than 10.0: 1
Number of HSP's gapped: 223
Number of HSP's successfully gapped: 21
Length of query: 89
Length of database: 6,701,793
Length adjustment: 57
Effective length of query: 32
Effective length of database: 5,110,296
Effective search space: 163529472
Effective search space used: 163529472
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 (23.5 bits)