RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12684
(163 letters)
>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 = 141 bits (358), Expect = 6e-40
Identities = 28/144 (19%), Positives = 55/144 (38%), Gaps = 34/144 (23%)
Query: 17 DVQFEALRYLTGECNYGGRVTDDWDRRTLNTILYKFFCPAALEDENYLFDPSVTDDWDRR 76
+ + A+R + G YGGR+ +++D R L + L + F P+A
Sbjct: 2843 KIPWIAVRTILGSTIYGGRIDNEFDMRLLYSFLEQLFTPSAFNP---------------- 2886
Query: 77 TLNTILYKFFCPAALEDENYLFDPSGFYYTPNEPDYDGYLNYIKNLPLVASPIIFGMNEN 136
++ PS P ++ +I+ LP +++PI G+ EN
Sbjct: 2887 ------------------DFPLVPSIGLSVPEGTTRAHFMKWIEALPEISTPIWLGLPEN 2928
Query: 137 ADILKDQQETNLVLGNVLLTQERT 160
A+ L + ++ ++ Q
Sbjct: 2929 AESLLLSNKARKMINDLQKMQSSE 2952
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 113 bits (283), Expect = 9e-30
Identities = 16/144 (11%), Positives = 37/144 (25%), Gaps = 34/144 (23%)
Query: 13 NQLTDVQFEALRYLTGECNYGGRVTDDWDRRTLNTILYKFFCPAALEDENYLFDPSVTDD 72
N ++ + +R YGG++ ++ D + + FC +N P V
Sbjct: 2578 NSTNNIPWAQVRDHIATIVYGGKIDEEKDLEVVAKLCAHVFCG----SDNLQIVPGV--- 2630
Query: 73 WDRRTLNTILYKFFCPAALEDENYLFDPSGFYYTPNEPDYDGYLNYIKNL--PLVASPII 130
P E + + N P +
Sbjct: 2631 -------------------------RIPQPLLQQSEEEERARLTAILSNTIEPADSLSSW 2665
Query: 131 FGMNENADILKDQQETNLVLGNVL 154
+ + + ++ + V +
Sbjct: 2666 LQLPRESILNYERLQAKEVASSTE 2689
>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 = 39.1 bits (90), Expect = 3e-04
Identities = 20/135 (14%), Positives = 39/135 (28%), Gaps = 29/135 (21%)
Query: 32 YGGRVTDDWDRRTLNTI---LYKFF----CPAALEDENYLFDPSVTD-DWDRRTLNTILY 83
Y T D D + Y + LF D + + +
Sbjct: 453 YNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDST 512
Query: 84 KFFCPAALED-----ENYLFDPSGFYYTPNEPDYDGYLN-YIKNLPLVASPIIFG----- 132
+ ++ + + Y Y N+P Y+ +N + LP + +I
Sbjct: 513 AWNASGSILNTLQQLKFY-----KPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDL 567
Query: 133 -----MNENADILKD 142
M E+ I ++
Sbjct: 568 LRIALMAEDEAIFEE 582
Score = 31.0 bits (69), Expect = 0.17
Identities = 16/98 (16%), Positives = 25/98 (25%), Gaps = 16/98 (16%)
Query: 29 ECNYGGRVTDDWDRRTLNTILYKFFC--PAALEDENYLFDPSVTDDWDRRTLNTILYKFF 86
+C D + L+ A+ LF W + + + F
Sbjct: 34 DCKD----VQDMPKSILSKEEIDHIIMSKDAVSGTLRLF-------WTLLSKQEEMVQKF 82
Query: 87 CPAALEDENYLFDPSGFYYTPNEP--DYDGYLNYIKNL 122
L NY F S +P Y+ L
Sbjct: 83 VEEVLRI-NYKFLMSPIKTEQRQPSMMTRMYIEQRDRL 119
Score = 26.4 bits (57), Expect = 5.5
Identities = 14/93 (15%), Positives = 29/93 (31%), Gaps = 15/93 (16%)
Query: 1 MSGYRSTYLTYLNQLTDVQFEALR-----YLT-GECNYGGRVTDDWDRRTLNTILYKF-- 52
+ G T++ L+ + + +L CN + + L +LY+
Sbjct: 158 VLGSGKTWVA-LDVCLSYKVQCKMDFKIFWLNLKNCN-----SPETVLEMLQKLLYQIDP 211
Query: 53 -FCPAALEDENYLFDPSVTDDWDRRTLNTILYK 84
+ + N RR L + Y+
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE 244
>2ium_A Avian adenovirus CELO long fibre; receptor-binding, trimeric
proteins, viral fibres, beta-sandwich, fiber protein,
viral protein; 1.6A {Avian adenovirus GAL1} PDB: 2iun_A
Length = 248
Score = 28.7 bits (63), Expect = 0.67
Identities = 9/58 (15%), Positives = 12/58 (20%), Gaps = 4/58 (6%)
Query: 52 FFCPAALEDENYLFDPSVTDDWDRRTLNTILYKF--FCPAALEDENYLFDPSGFYYTP 107
F PS+ DW N + Y F P +
Sbjct: 140 FSPNPYGSLNTITTLPSIASDWYVPESNLVTYTKIHFKPTGSQQLQ--LASGELVVAA 195
>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 = 28.1 bits (62), Expect = 1.6
Identities = 30/132 (22%), Positives = 44/132 (33%), Gaps = 29/132 (21%)
Query: 5 RSTYLTY---LNQLTDVQFEALRYLTGECNYGGRVTDDWDRRTLNTILYKFFCPAALEDE 61
R Y TY + L E L L R T D ++ L
Sbjct: 174 RDLYQTYHVLVGDLIKFSAETLSELI-------RTTLDAEK----------VFTQGLNIL 216
Query: 62 NYLFDPSVTDDWDRRTLNTILYKFFCP--AALEDENYLFDPSGFYYTPNE--PDYDGYLN 117
+L +PS T D D L +I CP ++ +Y+ +TP E G
Sbjct: 217 EWLENPSNTPDKD--YLLSIPIS--CPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATG 272
Query: 118 YIKNLPLVASPI 129
+ + L + A I
Sbjct: 273 HSQGL-VTAVAI 283
>1nf1_A NF1-333, protein (neurofibromin); type I neurofibromatosis, RAS,
GAP, signal transduction, cancer, growth regulation, GTP
hydrolysis; 2.50A {Homo sapiens} SCOP: a.116.1.2
Length = 333
Score = 27.8 bits (61), Expect = 1.9
Identities = 8/59 (13%), Positives = 15/59 (25%), Gaps = 3/59 (5%)
Query: 48 ILYKFFCPAALEDENYLFDPSVTDDWDRRTLNTI---LYKFFCPAALEDENYLFDPSGF 103
+ +F PA + R L + L E ++ + F
Sbjct: 191 MFLRFINPAIVSPYEAGILDKKPPPIIERGLKLMSKILQSIANHVLFTKEEHMRPFNDF 249
>3bxj_A RAS GTPase-activating protein syngap; GTPase activation, membrane,
phosphoprotein, SH3-binding, signaling protein; 3.00A
{Rattus norvegicus}
Length = 483
Score = 26.9 bits (58), Expect = 3.8
Identities = 12/44 (27%), Positives = 18/44 (40%)
Query: 38 DDWDRRTLNTILYKFFCPAALEDENYLFDPSVTDDWDRRTLNTI 81
D DR ++ +F CPA + + D+ RTL I
Sbjct: 332 DIADRLISASLFLRFLCPAIMSPSLFGLMQEYPDEQTSRTLTLI 375
>1q87_A 39 kDa initiator binding protein; INR, core promoter, DNA binding
protein; 2.32A {Trichomonas vaginalis} SCOP: e.47.1.1
PDB: 1q88_A 1q89_A
Length = 221
Score = 26.5 bits (57), Expect = 4.0
Identities = 15/59 (25%), Positives = 26/59 (44%), Gaps = 5/59 (8%)
Query: 83 YKFFCPAALEDENYLFDPSGFYYTPNEPD-----YDGYLNYIKNLPLVASPIIFGMNEN 136
+ F P A ++ N D ++ NEP+ + I N PL+ + + M+EN
Sbjct: 128 WLTFDPQAEKNANNQRDSISGWFDQNEPNCLILKTPTGIRKIWNKPLIEATGQYLMDEN 186
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
0.321 0.140 0.433
Gapped
Lambda K H
0.267 0.0625 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,637,466
Number of extensions: 153889
Number of successful extensions: 309
Number of sequences better than 10.0: 1
Number of HSP's gapped: 304
Number of HSP's successfully gapped: 18
Length of query: 163
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 77
Effective length of database: 4,300,587
Effective search space: 331145199
Effective search space used: 331145199
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: 53 (24.4 bits)