RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9278
(98 letters)
>3i2n_A WD repeat-containing protein 92; WD40 repeats, structural
genomics, structural genomic consortium, SGC,
apoptosis, transcription; 1.95A {Homo sapiens}
Length = 357
Score = 99.4 bits (248), Expect = 1e-26
Identities = 50/93 (53%), Positives = 66/93 (70%)
Query: 6 KLDKPQIICLVEKSLDYQLFDCKWMPCSAKFIVLGMKPKGTGSIQMYEINDGQPELVKTV 65
+KPQII ++K +Y +FDCKW+PCSAKF+ +G +GTG IQ+YEI G +L++ +
Sbjct: 3 AFEKPQIIAHIQKGFNYTVFDCKWVPCSAKFVTMGNFARGTGVIQLYEIQHGDLKLLREI 62
Query: 66 EKPNAFKCGTFNASPLSERYLATGDFEGKLQIW 98
EK KCGTF A+ L +RYLATGDF G L IW
Sbjct: 63 EKAKPIKCGTFGATSLQQRYLATGDFGGNLHIW 95
>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 = 33.0 bits (74), Expect = 0.007
Identities = 10/28 (35%), Positives = 17/28 (60%), Gaps = 4/28 (14%)
Query: 41 MKPKGTGSIQMYEINDGQPEL-VK-TVE 66
+K K S+++Y +D P L +K T+E
Sbjct: 22 LK-KLQASLKLYA-DDSAPALAIKATME 47
>3lrv_A PRE-mRNA-splicing factor 19; PRP19, WD40, E3 ubiquitin ligase,
spliceosome, DNA damage, D repair, mRNA processing,
nucleus; 2.60A {Saccharomyces cerevisiae}
Length = 343
Score = 31.3 bits (70), Expect = 0.035
Identities = 9/52 (17%), Positives = 17/52 (32%), Gaps = 3/52 (5%)
Query: 47 GSIQMYEINDGQPELVKTVEKPNAFKCGTFNASPLSERYLATGDFEGKLQIW 98
G+I D +V + + + G LA +G L ++
Sbjct: 149 GTIGFQSYEDDSQYIVHSAKSDVEYSSGVL--HK-DSLLLALYSPDGILDVY 197
>2oit_A Nucleoporin 214KDA; NH2 terminal domain of NUP214/CAN, X-RAY
crystallography, beta-propeller, structure, mRNA export,
NPC assembly, leukemia; HET: MES; 1.65A {Homo sapiens}
PDB: 3fmo_A* 3fmp_A* 3fhc_A
Length = 434
Score = 31.0 bits (69), Expect = 0.045
Identities = 15/76 (19%), Positives = 30/76 (39%), Gaps = 7/76 (9%)
Query: 23 QLFDCKWMPCSAKFIVLGMKPKGTGSIQMYEINDGQPELVKTVEKPNAFKCGTFNASPLS 82
+ D KW P + + + GSI + ++ + ++ T+ A + SP
Sbjct: 151 MVIDMKWNPTVPSMVAVCL---ADGSIAVLQVTETV-KVCATLPSTVAVTSVCW--SPKG 204
Query: 83 ERYLATGDFEGKLQIW 98
+ LA G G + +
Sbjct: 205 -KQLAVGKQNGTVVQY 219
>1nr0_A Actin interacting protein 1; beta propeller, WD40 repeat, ADF,
cofilin, structural genomics, PSI, protein structure
initiative; 1.70A {Caenorhabditis elegans} SCOP:
b.69.4.1 b.69.4.1 PDB: 1pev_A
Length = 611
Score = 29.9 bits (68), Expect = 0.11
Identities = 10/52 (19%), Positives = 20/52 (38%), Gaps = 3/52 (5%)
Query: 47 GSIQMYEINDGQPELVKTVEKPNAFKCGTFNASPLSERYLATGDFEGKLQIW 98
+ +Y+++ VKT+ P F S + +L D K+ +
Sbjct: 470 SKVHVYKLSGASVSEVKTIVHPAEITSVAF--SN-NGAFLVATDQSRKVIPY 518
Score = 25.6 bits (57), Expect = 2.9
Identities = 10/20 (50%), Positives = 13/20 (65%), Gaps = 1/20 (5%)
Query: 79 SPLSERYLATGDFEGKLQIW 98
SP S Y A+GD G ++IW
Sbjct: 68 SP-SGYYCASGDVHGNVRIW 86
>1ccw_B Protein (glutamate mutase); coenzyme B12, radical reaction,
TIM-barrel rossman-fold, isomerase; HET: CNC TAR; 1.60A
{Clostridium cochlearium} SCOP: c.1.19.2 PDB: 1cb7_B*
1i9c_B*
Length = 483
Score = 28.7 bits (64), Expect = 0.23
Identities = 10/36 (27%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 60 ELVKTVEKPNAFKCGTFNASPLSERYLATG--DFEG 93
++++ V P + GT ++ L+E A G EG
Sbjct: 137 KVLEAVNLPLQARHGTPDSRLLAEIIHAGGWTSNEG 172
>2pm9_A Protein WEB1, protein transport protein SEC31; beta propeller;
3.30A {Saccharomyces cerevisiae}
Length = 416
Score = 26.5 bits (59), Expect = 1.5
Identities = 4/20 (20%), Positives = 10/20 (50%)
Query: 79 SPLSERYLATGDFEGKLQIW 98
+P + A F+ K+++
Sbjct: 314 APEAPDLFACASFDNKIEVQ 333
Score = 25.8 bits (57), Expect = 2.3
Identities = 12/55 (21%), Positives = 24/55 (43%), Gaps = 5/55 (9%)
Query: 47 GSIQMYEINDGQP--ELVKTVEK-PNAFKCGTFNASPLSERYLATGDFEGKLQIW 98
GS+++Y N+ + ++ K F + + LA+G G++ IW
Sbjct: 89 GSLELYSTNEANNAINSMARFSNHSSSVKTVKF--NAKQDNVLASGGNNGEIFIW 141
>2xyi_A Probable histone-binding protein CAF1; transcription, repressor,
phosphoprotein, WD-repeat; HET: PG4; 1.75A {Drosophila
melanogaster} PDB: 3c99_A 3c9c_A 2yb8_B 2yba_A 2xu7_A*
3gfc_A 3cfs_B 3cfv_B
Length = 430
Score = 26.2 bits (58), Expect = 1.6
Identities = 11/80 (13%), Positives = 27/80 (33%), Gaps = 10/80 (12%)
Query: 26 DCKWMPCSAKFIVLGMKPKGTGSIQMYEINDGQPELVKTVEKPNAF------KCGTFNA- 78
++MP +A I + + +++ + + E K G +
Sbjct: 133 RARYMPQNACVIATKT---PSSDVLVFDYTKHPSKPEPSGECQPDLRLRGHQKEGYGLSW 189
Query: 79 SPLSERYLATGDFEGKLQIW 98
+P YL + + + +W
Sbjct: 190 NPNLNGYLLSASDDHTICLW 209
Score = 25.9 bits (57), Expect = 2.2
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 79 SPLSERYLATGDFEGKLQIW 98
+P SE LATG + + +W
Sbjct: 286 NPYSEFILATGSADKTVALW 305
Score = 25.9 bits (57), Expect = 2.4
Identities = 14/75 (18%), Positives = 26/75 (34%), Gaps = 9/75 (12%)
Query: 29 WMPCSAKFIVLGMKPKGTGSIQMYEINDGQPELVKTVEKPNAFKC--GTFNA---SPLSE 83
W P +++ +I +++IN E + ++ N F L E
Sbjct: 189 WNPNLNGYLLSA---SDDHTICLWDINATPKE-HRVIDAKNIFTGHTAVVEDVAWHLLHE 244
Query: 84 RYLATGDFEGKLQIW 98
+ + KL IW
Sbjct: 245 SLFGSVADDQKLMIW 259
>3ei3_B DNA damage-binding protein 2; UV-damage, DDB, nucleotide excision
repair, xeroderma pigmentosum, cytoplasm, DNA repair;
HET: DNA PG4; 2.30A {Danio rerio} PDB: 3ei1_B* 3ei2_B*
4a08_B* 4a09_B* 4a0a_B* 4a0b_B* 4a0k_D* 4a0l_B*
Length = 383
Score = 26.6 bits (59), Expect = 1.6
Identities = 7/51 (13%), Positives = 16/51 (31%), Gaps = 11/51 (21%)
Query: 48 SIQMYEINDGQPELVKTVEKPNAFKCGTFNASPLSERYLATGDFEGKLQIW 98
S +++ V ++ + P +A G G + +W
Sbjct: 62 SYKLHRTASPFDRRVTSL----EW-------HPTHPTTVAVGSKGGDIILW 101
Score = 25.0 bits (55), Expect = 5.3
Identities = 4/20 (20%), Positives = 10/20 (50%)
Query: 79 SPLSERYLATGDFEGKLQIW 98
+P L T D +++++
Sbjct: 259 NPTDSTKLLTTDQRNEIRVY 278
>3lkb_A Probable branched-chain amino acid ABC transporter, amino acid
binding protein; branched amino acid, PSI-II, NYSGXRC,
structural genomics; 2.40A {Thermus thermophilus}
Length = 392
Score = 25.5 bits (56), Expect = 3.2
Identities = 6/70 (8%), Positives = 20/70 (28%), Gaps = 3/70 (4%)
Query: 6 KLDKPQIICLVEKSLDYQLFDCKWMPCSAKFIVLGMKPK---GTGSIQMYEINDGQPELV 62
++ + + F + + + + + G +++ E G+ V
Sbjct: 310 RITNETVYQAIVGMNGPNAFKPGFAVSTKQGVEIDFTKSEHTGAEGLRILEAKGGRFVPV 369
Query: 63 KTVEKPNAFK 72
F+
Sbjct: 370 TEPFTSALFR 379
>1pgu_A Actin interacting protein 1; WD repeat, seven-bladed
beta-propeller, protein binding; 2.30A {Saccharomyces
cerevisiae} SCOP: b.69.4.1 b.69.4.1 PDB: 1pi6_A
Length = 615
Score = 25.7 bits (57), Expect = 3.4
Identities = 12/54 (22%), Positives = 23/54 (42%), Gaps = 4/54 (7%)
Query: 47 GSIQMYEINDGQP-ELVKTVEKPNAF-KCGTFNASPLSERYLATGDFEGKLQIW 98
GS+ Y+ + +T K +F + F SP S ++ T + K+ +
Sbjct: 183 GSVVFYQGPPFKFSASDRTHHKQGSFVRDVEF--SPDSGEFVITVGSDRKISCF 234
Score = 25.3 bits (56), Expect = 3.9
Identities = 9/21 (42%), Positives = 14/21 (66%), Gaps = 1/21 (4%)
Query: 79 SPLSE-RYLATGDFEGKLQIW 98
SP+ +YL +GD GK+ +W
Sbjct: 73 SPIKGSQYLCSGDESGKVIVW 93
>3td9_A Branched chain amino acid ABC transporter, peripl amino
acid-binding protein; leucine binding, structural
genomics; HET: MSE PHE; 1.90A {Thermotoga maritima}
Length = 366
Score = 25.3 bits (56), Expect = 3.6
Identities = 4/27 (14%), Positives = 11/27 (40%), Gaps = 1/27 (3%)
Query: 46 TGSIQMYEINDGQPELVKTVEKPNAFK 72
S+ + + +G + + P+ K
Sbjct: 341 IKSVVVNIVKNGSVDFEAVI-NPDDLK 366
>3hut_A Putative branched-chain amino acid ABC transporter; extracellular
ligand-binding receptor,transport protein; 1.93A
{Rhodospirillum rubrum atcc 11170}
Length = 358
Score = 24.2 bits (53), Expect = 8.5
Identities = 1/19 (5%), Positives = 6/19 (31%)
Query: 47 GSIQMYEINDGQPELVKTV 65
+ + +G ++
Sbjct: 333 KILTRLVVREGDFRVIDRE 351
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
0.320 0.138 0.438
Gapped
Lambda K H
0.267 0.0753 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,438,597
Number of extensions: 70379
Number of successful extensions: 144
Number of sequences better than 10.0: 1
Number of HSP's gapped: 143
Number of HSP's successfully gapped: 19
Length of query: 98
Length of database: 6,701,793
Length adjustment: 64
Effective length of query: 34
Effective length of database: 4,914,849
Effective search space: 167104866
Effective search space used: 167104866
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 (21.8 bits)
S2: 51 (23.4 bits)