RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4684
(237 letters)
>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 = 38.1 bits (88), Expect = 0.002
Identities = 34/218 (15%), Positives = 57/218 (26%), Gaps = 78/218 (35%)
Query: 29 LGLVGLSDEELRKIPITGWRKIVKHACRILMRCVFAVMGFHWVKIKGRQASCKEAPVISV 88
L + L+ E++ + V L + +
Sbjct: 339 LSISNLTQEQV--------QDYVNKTNSHL----------------------PAGKQVEI 368
Query: 89 APHSSFSDALPVICIGAPS--VVARGETASLPFVKRIIVKLWICKLGRAAYRAGGMQITS 146
+L + VV+ G SL + + L R A G+ +
Sbjct: 369 --------SL----VNGAKNLVVS-GPPQSL---YGLNLTL------RKAKAPSGLDQSR 406
Query: 147 IGVQASRQEAPI-----LVI-AP-HSTFL-DAGIVYVTDFPSIIVRRESGLNPWLGKLIN 198
I + L + +P HS L A + D V + K I
Sbjct: 407 IP---FSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNV-------SFNAKDIQ 456
Query: 199 YTQPVYVWRDDPNSRQKT---IQEIIDRAKSEQ-DWPQ 232
PVY D + R + + I+D W
Sbjct: 457 I--PVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWET 492
Score = 30.4 bits (68), Expect = 0.55
Identities = 27/170 (15%), Positives = 52/170 (30%), Gaps = 51/170 (30%)
Query: 33 GLSD---EELRKI-----PITGWRKIVKHACRILMRCVFAVM--------GFH---WVKI 73
G +D EELR + + G ++K + L + + G + W++
Sbjct: 164 GNTDDYFEELRDLYQTYHVLVG--DLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLEN 221
Query: 74 KGRQASCKEAPVISVAPHSSFSDALPVICI-------------G-APSVVARGETASLPF 119
+ P S P+I + G P + +
Sbjct: 222 PSNTPD---KDYLLSIPIS-----CPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGH 273
Query: 120 VKRIIVKLWI--CKLGRAAYRAGGMQIT---SIGVQASRQEA-PILVIAP 163
+ ++ + I + + + IT IGV+ EA P + P
Sbjct: 274 SQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRC--YEAYPNTSLPP 321
>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 = 31.1 bits (69), Expect = 0.18
Identities = 10/35 (28%), Positives = 13/35 (37%), Gaps = 12/35 (34%)
Query: 72 KIKGRQASCKE-APVISVAPHSSFSDALPVICIGA 105
+K QAS K A D+ P + I A
Sbjct: 21 ALKKLQASLKLYAD-----------DSAPALAIKA 44
>1zza_A Stannin, AG8_1; helix, membrane protein; NMR {Homo sapiens}
Length = 90
Score = 30.1 bits (67), Expect = 0.19
Identities = 10/38 (26%), Positives = 22/38 (57%)
Query: 1 TGIFTVVILPVRLVLIATLLVIAWCLACLGLVGLSDEE 38
TG+ TV+++ + + + L++ WC L + S++E
Sbjct: 12 TGVVTVIVILIAIAALGALILGCWCYLRLQRISQSEDE 49
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.5 bits (68), Expect = 0.35
Identities = 8/34 (23%), Positives = 16/34 (47%), Gaps = 9/34 (26%)
Query: 206 WRDDPNSR--------QKTIQEIIDRAKSE-QDW 230
WR++ R + QE ++AK + ++W
Sbjct: 90 WREEQRKRLQELDAASKVMEQEWREKAKKDLEEW 123
>3e9l_A PRE-mRNA-processing-splicing factor 8; nucleotidyl transfer,
disease mutation, MRN splicing, nucleus, phosphoprotein,
retinitis pigmentosa; 1.95A {Homo sapiens} SCOP:
c.55.3.14
Length = 257
Score = 28.1 bits (62), Expect = 2.6
Identities = 17/68 (25%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 119 FVKRIIVKLWICK--LGRAAYRAGGMQITSIGVQASRQEAPILVIAPHSTFLDAGIVYVT 176
F+K I +W + LG+ A ++ ++ +E P +I LD V++
Sbjct: 59 FLKIIHTSVWAGQKRLGQLAKWKTAEEVAALIRSLPVEEQPKQIIVTRKGMLDPLEVHLL 118
Query: 177 DFPSIIVR 184
DFP+I+++
Sbjct: 119 DFPNIVIK 126
>3enb_A PRE-mRNA-processing-splicing factor 8; PRP8 domain IV, beta finger,
RNAse H, spliceosome, U5-220K, mutation, mRNA splicing,
nucleus; 1.85A {Homo sapiens} SCOP: c.55.3.14 PDB:
3lru_A
Length = 222
Score = 27.7 bits (61), Expect = 2.8
Identities = 17/68 (25%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 119 FVKRIIVKLWICK--LGRAAYRAGGMQITSIGVQASRQEAPILVIAPHSTFLDAGIVYVT 176
F+K I +W + LG+ A ++ ++ +E P +I LD V++
Sbjct: 50 FLKIIHTSVWAGQKRLGQLAKWKTAEEVAALIRSLPVEEQPKQIIVTRKGMLDPLEVHLL 109
Query: 177 DFPSIIVR 184
DFP+I+++
Sbjct: 110 DFPNIVIK 117
>3sbg_A PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain, JAB1/MPN domain;
3.28A {Saccharomyces cerevisiae}
Length = 565
Score = 27.0 bits (59), Expect = 6.0
Identities = 17/68 (25%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 119 FVKRIIVKLWI--CKLGRAAYRAGGMQITSIGVQASRQEAPILVIAPHSTFLDAGIVYVT 176
F+K I +W +L + A +++++ ++E P +I LD V++
Sbjct: 58 FLKIIHTSVWAGQKRLSQLAKWKTAEEVSALVRSLPKEEQPKQIIVTRKAMLDPLEVHML 117
Query: 177 DFPSIIVR 184
DFP+I +R
Sbjct: 118 DFPNIAIR 125
>3sbt_A PRE-mRNA-splicing factor 8; rnaseh like domain, VHS like domain, U5
snRNP assembly; 1.80A {Saccharomyces cerevisiae} PDB:
3e66_A 3e9o_A* 3e9p_A
Length = 260
Score = 26.2 bits (57), Expect = 8.7
Identities = 17/68 (25%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 119 FVKRIIVKLWI--CKLGRAAYRAGGMQITSIGVQASRQEAPILVIAPHSTFLDAGIVYVT 176
F+K I +W +L + A +++++ ++E P +I LD V++
Sbjct: 58 FLKIIHTSVWAGQKRLSQLAKWKTAEEVSALVRSLPKEEQPKQIIVTRKAMLDPLEVHML 117
Query: 177 DFPSIIVR 184
DFP+I +R
Sbjct: 118 DFPNIAIR 125
>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 = 8.9
Identities = 30/226 (13%), Positives = 61/226 (26%), Gaps = 65/226 (28%)
Query: 28 CLGLVGLSDEELRKIPITGW-RKIVKH---ACRILM----RCVFAVMGFHWVKIKGRQAS 79
CL LV L + K +C+IL+ + V +
Sbjct: 246 CL-LV------LLNV----QNAKAWNAFNLSCKILLTTRFKQVTDF-----LSAATTTHI 289
Query: 80 CKEAPVISVAPHSS---FSDALPVICIGAPSVVARGETASLPFVKRIIVKLWICKLGRAA 136
+ +++ P L P V P II + L
Sbjct: 290 SLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT----NPRRLSIIAESIRDGLATWD 345
Query: 137 Y--RAGGMQITSIGVQASRQEAPILVIAPHST---FLDAGIVYVTDFPSIIVRRESGLNP 191
++T+I +++S + V+ P F + FP S
Sbjct: 346 NWKHVNCDKLTTI-IESS-----LNVLEPAEYRKMFDRLSV-----FP------PS---- 384
Query: 192 WLGKLINYTQPVY--VWRD-DPNSRQKTIQEIIDRAKSEQDWPQFS 234
+ + +W D + + ++ + E+ + +
Sbjct: 385 -----AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKEST 425
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 0.139 0.441
Gapped
Lambda K H
0.267 0.0834 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,768,195
Number of extensions: 230184
Number of successful extensions: 679
Number of sequences better than 10.0: 1
Number of HSP's gapped: 677
Number of HSP's successfully gapped: 19
Length of query: 237
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 146
Effective length of database: 4,160,982
Effective search space: 607503372
Effective search space used: 607503372
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 56 (25.2 bits)