RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17538
(164 letters)
>3c3r_A Programmed cell death 6-interacting protein; ALIX BRO1 CHMP4C
amphipathic-helix, apoptosis, HOST-virus interaction,
protein transport, transport; 2.02A {Homo sapiens} PDB:
2oew_A 3c3o_A 3c3q_A
Length = 380
Score = 146 bits (368), Expect = 3e-43
Identities = 77/166 (46%), Positives = 105/166 (63%), Gaps = 2/166 (1%)
Query: 1 MAEFLAVPLKKPTDVDIIKPLKNLIALQFPNDNEKLDILNEKLNLFSKLRTAAVWKVFEK 60
MA F++V LKK ++VD+ KPL I +P+ E+ SKLR AAV + +K
Sbjct: 22 MATFISVQLKKTSEVDLAKPLVKFIQQTYPSGGEEQAQYCRAAEELSKLRRAAVGRPLDK 81
Query: 61 HESSLEVIYSYYDHLVSLESKIFPAT--VNIPFRWKDAFNKGSLFGGRISLTVCSLAWER 118
HE +LE + YYD + S+E K + + + F WKDAF+KGSLFGG + L + SL +E+
Sbjct: 82 HEGALETLLRYYDQICSIEPKFPFSENQICLTFTWKDAFDKGSLFGGSVKLALASLGYEK 141
Query: 119 VCVLFNIAALQSAIAQAQSLDTDEGLKLAAKMLQSSAGIFNYLKST 164
CVLFN AAL S IA Q+LD DEGLK+AAK Q ++G F ++K T
Sbjct: 142 SCVLFNCAALASQIAAEQNLDNDEGLKIAAKHYQFASGAFLHIKET 187
>2xs1_A Programmed cell death 6-interacting protein; protein
transport-viral protein complex, cell cycle; 2.30A {Homo
sapiens} PDB: 2xs8_A 2oev_A 2r05_A 2r02_A 2r03_A 2oex_A
2ojq_A
Length = 704
Score = 149 bits (377), Expect = 7e-43
Identities = 77/166 (46%), Positives = 105/166 (63%), Gaps = 2/166 (1%)
Query: 1 MAEFLAVPLKKPTDVDIIKPLKNLIALQFPNDNEKLDILNEKLNLFSKLRTAAVWKVFEK 60
MA F++V LKK ++VD+ KPL I +P+ E+ SKLR AAV + +K
Sbjct: 7 MATFISVQLKKTSEVDLAKPLVKFIQQTYPSGGEEQAQYCRAAEELSKLRRAAVGRPLDK 66
Query: 61 HESSLEVIYSYYDHLVSLESKIFPAT--VNIPFRWKDAFNKGSLFGGRISLTVCSLAWER 118
HE +LE + YYD + S+E K + + + F WKDAF+KGSLFGG + L + SL +E+
Sbjct: 67 HEGALETLLRYYDQICSIEPKFPFSENQICLTFTWKDAFDKGSLFGGSVKLALASLGYEK 126
Query: 119 VCVLFNIAALQSAIAQAQSLDTDEGLKLAAKMLQSSAGIFNYLKST 164
CVLFN AAL S IA Q+LD DEGLK+AAK Q ++G F ++K T
Sbjct: 127 SCVLFNCAALASQIAAEQNLDNDEGLKIAAKHYQFASGAFLHIKET 172
>1zb1_A BRO1 protein; AIP1, BRO1 domain, SNF7, trafficking, protein
transport; 1.95A {Saccharomyces cerevisiae}
Length = 392
Score = 124 bits (311), Expect = 8e-35
Identities = 36/166 (21%), Positives = 62/166 (37%), Gaps = 9/166 (5%)
Query: 1 MAEFLAVPLKKPTDVDIIKPLKNLIALQFPNDNEKLDILNEKLNLFSKLRTAAVWKVFEK 60
+ LK +D K L + + + + + + + LR A +
Sbjct: 7 KPYLFDLKLKDTEKLDWKKGLSSYLKKSYGSSQWRTFYDEKATSELDHLRNNANGE--LA 64
Query: 61 HESSLEVIYSYYDHLVSLESKIFPAT--VNIPFRWKDAFNKGSLFGGRISLTVCSLAWER 118
S E YY L L ++ + + F W DA + G + + +LA+E+
Sbjct: 65 PSSLSEQNLKYYSFLEHLYFRLGSKGSRLKMDFTWYDAEYSSAQKGLKYTQ--HTLAFEK 122
Query: 119 VCVLFNIAALQSAIAQAQSLDTDEGLKLAAKMLQSSAGIFNYLKST 164
C LFNIA + + IA+ +E K + L + F YL
Sbjct: 123 SCTLFNIAVIFTQIAREN---INEDYKNSIANLTKAFSCFEYLSEN 165
>3rau_A Tyrosine-protein phosphatase non-receptor type 23; BRO1 domain,
hydrolase; 1.95A {Homo sapiens}
Length = 363
Score = 110 bits (275), Expect = 1e-29
Identities = 37/164 (22%), Positives = 68/164 (41%), Gaps = 15/164 (9%)
Query: 4 FLAVPLKKPTDVDIIKPLKNLIALQFPNDNEKLDILNEKLNLFSKLRTAAVWKVFEKHES 63
+ + LK+ D +K + + E + NE+L LR AV +
Sbjct: 11 MIWLDLKEAGDFHFQPAVKKFVLKNY---GENPEAYNEELKKLELLRQNAVRV--PRDFE 65
Query: 64 SLEVIYSYYDHLVSLESKIF---PATVNIPFRWKDAFNKGSLFGGRISLTVCSLAWERVC 120
V+ Y L L+S++ +P W + F+ S+ + +E+ C
Sbjct: 66 GCSVLRKYLGQLHYLQSRVPMGSGQEAAVPVTWTEIFSGKSV-------AHEDIKYEQAC 118
Query: 121 VLFNIAALQSAIAQAQSLDTDEGLKLAAKMLQSSAGIFNYLKST 164
+L+N+ AL S + ++EG+K++ Q +AG F YL+
Sbjct: 119 ILYNLGALHSMLGAMDKRVSEEGMKVSCTHFQCAAGAFAYLREH 162
>3r9m_A BRO1 domain-containing protein BROX; protein binding; 1.95A {Homo
sapiens} PDB: 3um3_A 3zxp_A 3um2_A 3um1_A 3uly_A 3um0_A
Length = 376
Score = 91.0 bits (225), Expect = 2e-22
Identities = 34/166 (20%), Positives = 58/166 (34%), Gaps = 15/166 (9%)
Query: 4 FLAVPLKK--PTDVDIIKPLKNLIALQFPNDNEKLDILNEKLNLFSKLRTAAVWKVFEKH 61
F PLK P + + A + ND L LF+ L
Sbjct: 7 FHRNPLKATAPVSFNYYGVVTGPSASKICNDLRSS--RARLLELFTDLSCNP-------- 56
Query: 62 ESSLEVIYSYYDHLVSLESKIFPATVNIPFRWKDAFNKGSLFGGRISLTVCSLAWERVCV 121
E SY+ L + + +T R+ F G++ +E + +
Sbjct: 57 EMMKNAADSYFSLLQGFINSLDESTQESKLRYIQNFKWTDTLQGQVPSAQQDAVFELISM 116
Query: 122 LFNIAALQSAIAQAQSLD---TDEGLKLAAKMLQSSAGIFNYLKST 164
FN+A + A + T++ K + L+ +AGIF +LK +
Sbjct: 117 GFNVALWYTKYASRLAGKENITEDEAKEVHRSLKIAAGIFKHLKES 162
>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 = 51.0 bits (121), Expect = 3e-08
Identities = 21/106 (19%), Positives = 39/106 (36%), Gaps = 27/106 (25%)
Query: 2 AEFLAVPLKK-PTDVDIIKPLK-NLIALQFPNDNEKLDILNEKLNLFSKLRTAAVWKVFE 59
++L + P +V P + ++IA + + + L + + K+
Sbjct: 308 LKYLDCRPQDLPREVLTTNPRRLSIIA----------ESIRDGLATWDNWKHVNCDKLTT 357
Query: 60 KHESSLEVIYS-----YYDHLVSLESKIFPATVNIPFR-----WKD 95
ESSL V+ +D L +FP + +IP W D
Sbjct: 358 IIESSLNVLEPAEYRKMFDRLS-----VFPPSAHIPTILLSLIWFD 398
Score = 39.8 bits (92), Expect = 2e-04
Identities = 33/153 (21%), Positives = 54/153 (35%), Gaps = 39/153 (25%)
Query: 13 TDVDIIKPLKNLIALQFPNDNEKLDIL-NEKLNLFS---KLRTAAVWKVFEKHESSLEVI 68
+ +++ L+ L+ PN + D N KL + S +LR K +E+ L V+
Sbjct: 194 SPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK---PYENCLLVL 250
Query: 69 YSYYDHLVSLESKIFPATVNIPFRWKDAFNKGSLFGGRISLTVCSLAWER-VCVLFNIAA 127
+ V +K + +AFN +I LT R V ++A
Sbjct: 251 ----LN-VQ-NAKAW-----------NAFN----LSCKILLTT------RFKQVTDFLSA 283
Query: 128 LQ----SAIAQAQSLDTDEGLKLAAKMLQSSAG 156
S + +L DE L K L
Sbjct: 284 ATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ 316
>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 = 39.6 bits (92), Expect = 3e-04
Identities = 28/132 (21%), Positives = 54/132 (40%), Gaps = 34/132 (25%)
Query: 3 EFLAVPLKKPT-----DVDIIKPLKNLIA--LQF------PNDNEKLD-ILNEKLNLFSK 48
+F + L +PT D + P + L+ L + P+ + D +LN L F
Sbjct: 36 QFNKI-LPEPTEGFAADDEPTTPAE-LVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFEN 93
Query: 49 --LRT----AAVWKVFEKHESSL----EVIYSYYDHLVSLESKIFPATVNIPFRWKDAFN 98
L A K+ ++++++L E+I +Y + + + + FR A
Sbjct: 94 CYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFR---AVG 150
Query: 99 KGS-----LFGG 105
+G+ +FGG
Sbjct: 151 EGNAQLVAIFGG 162
Score = 38.9 bits (90), Expect = 4e-04
Identities = 31/194 (15%), Positives = 60/194 (30%), Gaps = 74/194 (38%)
Query: 17 IIKPL-KNLIALQFPNDNEKLD--------ILNEKLNLFSKLRTAAVWKVFEK------- 60
I K + ++ + F ++ L + L K A ++ +
Sbjct: 1706 IFKEINEHSTSYTFRSEKGLLSATQFTQPALT-----LMEK----AAFEDLKSKGLIPAD 1756
Query: 61 -----HESSL-EVIYSYYDHLVSLESKIFPATVNIPFRWKDA----FNKGSLF------- 103
H SL E Y+ L SL A V + + F +G
Sbjct: 1757 ATFAGH--SLGE--YA---ALASL------ADV-MSI--ESLVEVVFYRGMTMQVAVPRD 1800
Query: 104 -GGRISLTVCSLAWERVCVLFNIAALQSAIAQAQSLDTDEGLKLA--------------A 148
GR + + ++ RV F+ ALQ + + T +++
Sbjct: 1801 ELGRSNYGMIAINPGRVAASFSQEALQYVVERVGK-RTGWLVEIVNYNVENQQYVAAGDL 1859
Query: 149 KMLQSSAGIFNYLK 162
+ L + + N++K
Sbjct: 1860 RALDTVTNVLNFIK 1873
Score = 33.9 bits (77), Expect = 0.018
Identities = 24/138 (17%), Positives = 43/138 (31%), Gaps = 37/138 (26%)
Query: 46 FSKLRTAAVWKVFEKHESSLE-VIYSYYDHLVSL------ESKIFPATVNIPFRW----K 94
F +LR +++ + + +I + L L K+F +NI W
Sbjct: 170 FEELR-----DLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNI-LEWLENPS 223
Query: 95 DAFNKGSLFGGRISL---TVCSLA-WERVCVLFNI----------------AALQSAIAQ 134
+ +K L IS V LA + L L +A+A
Sbjct: 224 NTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAI 283
Query: 135 AQSLDTDEGLKLAAKMLQ 152
A++ + K +
Sbjct: 284 AETDSWESFFVSVRKAIT 301
>1vqu_A Anthranilate phosphoribosyltransferase 2; 17130499, structur
genomics, joint center for structural genomics, JCSG,
prote structure initiative, PSI; 1.85A {Nostoc SP}
Length = 374
Score = 29.1 bits (66), Expect = 0.58
Identities = 9/33 (27%), Positives = 15/33 (45%)
Query: 121 VLFNIAALQSAIAQAQSLDTDEGLKLAAKMLQS 153
V N A LD +G+ +A ++LQ+
Sbjct: 326 VALNAALALQVAGAVPLLDHAQGVSVAKEILQT 358
>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 = 25.7 bits (55), Expect = 7.0
Identities = 9/36 (25%), Positives = 15/36 (41%), Gaps = 16/36 (44%)
Query: 59 EKH-----ESSLEVIYSYYDHLVSLESKIFPA-TVN 88
EK ++SL++ Y D +S PA +
Sbjct: 18 EKQALKKLQASLKL---YAD-----DSA--PALAIK 43
>3bgy_A Polynucleotide 5'-triphosphatase; RNA capping, tunnel
triphsophatase, metalloenzyme, beta barrel, hydrolase,
mRNA capping; 1.65A {Acanthamoeba polyphaga mimivirus}
PDB: 2qy2_A* 2qze_A
Length = 237
Score = 25.6 bits (55), Expect = 8.5
Identities = 12/65 (18%), Positives = 26/65 (40%), Gaps = 6/65 (9%)
Query: 7 VPLKKPTDVDIIKPLKNLIALQFPNDNEKLDILNEKLNLFSKLRTAAVWKVF--EKHESS 64
+ D+ +I P KN+ + N + + E + FSK + + +
Sbjct: 66 IESNNYLDISLIFPDKNVYRVSLFNQEQ----IGEFITKFSKASSNDISRYIVSLDPSDD 121
Query: 65 LEVIY 69
+E++Y
Sbjct: 122 IEIVY 126
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 0.134 0.389
Gapped
Lambda K H
0.267 0.0488 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,402,700
Number of extensions: 128078
Number of successful extensions: 253
Number of sequences better than 10.0: 1
Number of HSP's gapped: 240
Number of HSP's successfully gapped: 19
Length of query: 164
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 78
Effective length of database: 4,300,587
Effective search space: 335445786
Effective search space used: 335445786
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 (24.8 bits)