RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17744
(326 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 = 54.3 bits (130), Expect = 3e-08
Identities = 58/372 (15%), Positives = 113/372 (30%), Gaps = 124/372 (33%)
Query: 38 SLRPGSAMKMQLS----EHQTHIP--LHSRTNSPRGDSSFDEDDYEDEDEDGDDGGEGGG 91
S RP + LS EH +P + + F++ E + D
Sbjct: 5 STRP-----LTLSHGSLEHVLLVPTASFFIASQLQ--EQFNKILPEPTEGFAAD------ 51
Query: 92 ADKAYDPLE----F-AHLATSTDLKEMFAYIEKYTPQPIDLTYKLRPFIPDYIPAVGDID 146
D+ P E F ++++ + ++ + + L L F Y+ DI
Sbjct: 52 -DEPTTPAELVGKFLGYVSSLVEPSKVGQFDQV-------LNLCLTEFENCYL-EGNDIH 102
Query: 147 AFIKVARPDGRPDSLGLTVLDEPCFEQSDPAILN-LQLRQSSKCPTSSKAT--IIKKVED 203
A A+ L ++ ++ I N + R +K P K+ + + V +
Sbjct: 103 AL--AAK---------LLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGE 151
Query: 204 ADKNKKAI-------DRWIKDIGDLHKNKPP----------------------PSVHYSR 234
+ AI D + +++ DL++ +++
Sbjct: 152 GNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQ 211
Query: 235 GMPDLDNLMQEWSNDVEQT----------IS-----------------EVGLPPEDLD-- 265
G+ ++ EW + T IS +G P +L
Sbjct: 212 GL-NI----LEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSY 266
Query: 266 -CDLTTYI-DLMAAIL-----DIPRF-ESRIETLHVIFSLYAAIQSSSNQNAAYPG---- 313
T + L+ A+ F S + + V+F + + + P
Sbjct: 267 LKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILED 326
Query: 314 SGNNGGG--TPM 323
S N G +PM
Sbjct: 327 SLENNEGVPSPM 338
>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 = 39.5 bits (91), Expect = 3e-04
Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 5/34 (14%)
Query: 118 EKYTPQPID-LTYKLRPFIPDYIPAVGDIDAFIK 150
EK Q + L L+ + D PA+ I A ++
Sbjct: 18 EK---QALKKLQASLKLYADDSAPALA-IKATME 47
Score = 31.5 bits (70), Expect = 0.17
Identities = 5/14 (35%), Positives = 9/14 (64%), Gaps = 3/14 (21%)
Query: 34 KIESSLR---PGSA 44
K+++SL+ SA
Sbjct: 24 KLQASLKLYADDSA 37
>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 = 36.0 bits (82), Expect = 0.018
Identities = 30/212 (14%), Positives = 56/212 (26%), Gaps = 76/212 (35%)
Query: 25 ENGEARVPMKIESSLRPGSAMKMQLSEHQTHIP---------------LHSRT----NSP 65
+ M + + L S ++ Q E IP LH N P
Sbjct: 397 FDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIP 456
Query: 66 RGDSSFDEDDYEDEDEDGDDGGEGGGADKAYDPLEFAHLA---TSTDLKEMFAYIEK-YT 121
+ FD DD D Y ++H+ + + E +
Sbjct: 457 KT---FDSDDLIPPYLDQ------------Y---FYSHIGHHLKNIEHPERMTLFRMVF- 497
Query: 122 PQPIDLTY---KLRPFIPDYIPAVGDIDAFIKVARPDGRPDSLGLTVLD----------- 167
+D + K+R + S+ T+
Sbjct: 498 ---LDFRFLEQKIR-----------------HDSTAWNASGSILNTLQQLKFYKPYICDN 537
Query: 168 EPCFEQSDPAILNLQLRQSSKCPTSSKATIIK 199
+P +E+ AIL+ + S +++
Sbjct: 538 DPKYERLVNAILDFLPKIEENLICSKYTDLLR 569
>1otk_A Protein PAAC, phenylacetic acid degradation protein PAAC;
structural genomics, PSI, protein structure initiative;
2.00A {Escherichia coli} SCOP: a.25.1.2 PDB: 3pvt_B*
3pvr_B* 3pvy_B* 3pw1_B* 3pw8_A* 3pwq_A
Length = 249
Score = 34.1 bits (78), Expect = 0.040
Identities = 13/64 (20%), Positives = 23/64 (35%), Gaps = 2/64 (3%)
Query: 202 EDADKNKKAIDRWIKDIGDLHKNKPPPSVHYSRG-MPDLDNLMQEWSNDVEQTISEVGLP 260
K ++AI++ + +L G D L W +V I+E L
Sbjct: 151 VSGQKMQQAINKLWRFTAELFDADEIDIALSEEGIAVDPRTLRAAWEAEVFAGINEATLN 210
Query: 261 -PED 263
P++
Sbjct: 211 VPQE 214
>3l6g_A Betaine ABC transporter permease and substrate BI protein; glycine
betaine binding, substrate binding domain, venus FLY
cell membrane; HET: B3P; 1.90A {Lactococcus lactis} PDB:
3l6h_A
Length = 256
Score = 30.1 bits (68), Expect = 0.75
Identities = 25/171 (14%), Positives = 54/171 (31%), Gaps = 44/171 (25%)
Query: 68 DSSFDEDDYEDEDEDGDDGGEGGGAD-----KAYDPLEFAHLATSTDLKEMFAYIEK--- 119
+S D + ++ G + G G A +YD L+ L S+ M + +
Sbjct: 97 NSIEDLTNQANKTITGIEPGAGVMAASEKTLNSYDNLKDWKLVPSSS-GAMTVALGEAIK 155
Query: 120 ---------YTPQPIDLTYKLRPFIPDYIPAVGDIDAFIKVARPDGRPDSLGLTVLDEPC 170
++P + Y L+ ++ D +G + + R
Sbjct: 156 QHKDIVITGWSPHWMFNKYDLK-YLADPKGTMGTSENINTIVRKG--------------- 199
Query: 171 FEQSDPAIL----NLQLRQSSKCPTSSKATIIKKVEDADKNKKAIDRWIKD 217
++ +P T ++ +++ ++A WIKD
Sbjct: 200 LKKENPEAYKVLDKFNW------TTKDMEAVMLDIQNGKTPEEAAKNWIKD 244
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 29.1 bits (65), Expect = 2.8
Identities = 18/156 (11%), Positives = 44/156 (28%), Gaps = 24/156 (15%)
Query: 109 DLKEMFAYIEKY-TPQPIDLTYKLRPFIPDYIPAVGDIDAFIKVAR---PDGRPDSLGL- 163
D++ +++++E+ TP + + L P I +P F+K P LGL
Sbjct: 2867 DMRLLYSFLEQLFTPSAFNPDFPLVPSIGLSVPEGTTRAHFMKWIEALPEISTPIWLGLP 2926
Query: 164 --------TVLDEPCFEQSDPAILNLQLRQSSKCPTSSKATIIKKVEDADKNKKAIDRWI 215
+ + +Q + + K+ + ++ +
Sbjct: 2927 ENAESLLLSNKARKMIND----LQKMQSSEEDGEDDQVSGSSKKESSSSS-SEDKGKAKL 2981
Query: 216 KDIGDLHKNKPPPSVHYSRGMPDLDN------LMQE 245
+ P + + +E
Sbjct: 2982 RATITEWTKLLPKPLKQLKRTTQNIKDPLFRCFERE 3017
>2ayu_A Nucleosome assembly protein; histone chaperone; 3.00A
{Saccharomyces cerevisiae} SCOP: d.305.1.1 PDB: 2z2r_A
Length = 417
Score = 28.4 bits (62), Expect = 4.0
Identities = 6/33 (18%), Positives = 12/33 (36%)
Query: 68 DSSFDEDDYEDEDEDGDDGGEGGGADKAYDPLE 100
D D+D ++D+ + A + E
Sbjct: 381 DEEEDDDHGLEDDDGESAEEQDDFAGRPEQAPE 413
>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm,
lipoprotein, membrane, methylation, nucleotide-binding,
prenylation, ----; HET: GDP; 1.53A {Arabidopsis
thaliana} PDB: 2nty_C* 2wbl_C
Length = 182
Score = 26.9 bits (60), Expect = 7.1
Identities = 12/37 (32%), Positives = 17/37 (45%), Gaps = 2/37 (5%)
Query: 127 LTYKLRPFIPDYIPAVGDIDAFIKVARPDGRPDSLGL 163
++Y F DY+P V D F +G +LGL
Sbjct: 26 ISYTSNTFPTDYVPTVFDN--FSANVVVNGATVNLGL 60
>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP
hydrolysis, structural genomics, structural genomics
consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP:
c.37.1.8
Length = 207
Score = 26.6 bits (59), Expect = 9.7
Identities = 8/37 (21%), Positives = 15/37 (40%), Gaps = 2/37 (5%)
Query: 127 LTYKLRPFIPDYIPAVGDIDAFIKVARPDGRPDSLGL 163
+ + F Y+P V + ++ DG+ L L
Sbjct: 43 IVFSKDEFPEVYVPTVFEN--YVADIEVDGKQVELAL 77
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
0.312 0.133 0.387
Gapped
Lambda K H
0.267 0.0600 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,210,078
Number of extensions: 320640
Number of successful extensions: 548
Number of sequences better than 10.0: 1
Number of HSP's gapped: 533
Number of HSP's successfully gapped: 19
Length of query: 326
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 232
Effective length of database: 4,077,219
Effective search space: 945914808
Effective search space used: 945914808
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 57 (26.0 bits)