RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8452
(166 letters)
>3pvl_A Myosin VIIA isoform 1; protein complex, novel folding, protein
cargo binding, cargo proteins, motor protein-protein
transport complex; 2.80A {Mus musculus}
Length = 655
Score = 33.4 bits (75), Expect = 0.032
Identities = 10/72 (13%), Positives = 24/72 (33%), Gaps = 9/72 (12%)
Query: 90 FYLIFCRSVWYFP-LRLDCQLYVQVLFNQIAPDYLEGLLLVLPNEQIPQDIVYDVAKLAA 148
+ L F + V+ + + +++ Q+ G + D+A+LA+
Sbjct: 348 WRLFFRKEVFTPWHNPSEDNVATNLIYQQVVRGVKFGEY--------RCEKEDDLAELAS 399
Query: 149 LLHRAADMSHPP 160
+ S
Sbjct: 400 QQYFVDYGSEMI 411
Score = 28.0 bits (61), Expect = 1.8
Identities = 5/42 (11%), Positives = 15/42 (35%), Gaps = 1/42 (2%)
Query: 40 SQVFYLIFCRSVWYFP-LRLDCQLYVQVLFNQIAPDYLEGLI 80
+ + L F + V+ + + +++ Q+ G
Sbjct: 345 NAPWRLFFRKEVFTPWHNPSEDNVATNLIYQQVVRGVKFGEY 386
>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 = 31.7 bits (71), Expect = 0.11
Identities = 24/131 (18%), Positives = 35/131 (26%), Gaps = 38/131 (29%)
Query: 22 VGSVVNDCPSKHHFPRCFSQVFYLIF--CRSVWYFPLRLDCQLYVQVLFNQIAPDYLEGL 79
V + ++F+L C S P + L Q L QI P++
Sbjct: 167 ALDVCLSYKVQCKMDF---KIFWLNLKNCNS----PETVLEML--QKLLYQIDPNWTSRS 217
Query: 80 IVHLNTIFPVFYLIFCRSVWYFPLRL-DCQLYVQVLFNQIAPDYLEGLLLVLPNEQIPQD 138
N LR+ Q ++ L Y LLVL
Sbjct: 218 DHSSNI----------------KLRIHSIQAELRRLLKS--KPYENC-LLVL-------L 251
Query: 139 IVYDVAKLAAL 149
V + A
Sbjct: 252 NVQNAKAWNAF 262
>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 = 30.7 bits (68), Expect = 0.14
Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 7/35 (20%)
Query: 133 EQIPQDIVYDVAKLAALLHRAADMSHPP-AMKETI 166
E+ Q + KL A L AD S P A+K T+
Sbjct: 18 EK--QAL----KKLQASLKLYADDSAPALAIKATM 46
>4dxa_B KREV interaction trapped protein 1; GTPase, FERM, protein-protein
interaction, GTP binding, CYTO protein binding; HET:
GSP; 1.95A {Homo sapiens}
Length = 322
Score = 28.8 bits (64), Expect = 0.77
Identities = 13/66 (19%), Positives = 26/66 (39%), Gaps = 13/66 (19%)
Query: 92 LIFCRSVWYFPLRLDCQL----YVQVLFNQIAPDYLEGLLLVLPNEQIPQDIVYDVAKLA 147
+F R PL ++ Q+ + +LF++ + L+G + LA
Sbjct: 91 QLFLRRDVRLPLEVEKQIEDPLAILILFDEARYNLLKGFYTAPDA---------KLITLA 141
Query: 148 ALLHRA 153
+LL +
Sbjct: 142 SLLLQI 147
>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 = 28.5 bits (63), Expect = 1.5
Identities = 37/209 (17%), Positives = 60/209 (28%), Gaps = 88/209 (42%)
Query: 15 RPTITIDVGSV--VNDCPSKHHFP-----RCFSQVF----------------------YL 45
RP +T+ GS+ V P+ F F+++ +L
Sbjct: 7 RP-LTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFL 65
Query: 46 IFCRSVWYFPLRLDCQLYVQVL---FNQIAPDYLEG-----LIVHL-----NTIFPVFYL 92
+ S+ + QVL + YLEG L L T+ L
Sbjct: 66 GYVSSL---VEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKEL 122
Query: 93 IFCRSVWYFPLRL---------------------DCQLYVQVLFN-Q-IAPDYLEGLLLV 129
I ++ Y R+ + QL F Q DY E L
Sbjct: 123 I--KN--YITARIMAKRPFDKKSNSALFRAVGEGNAQLVAI--FGGQGNTDDYFEEL--- 173
Query: 130 LPNEQIPQDIVYDVAK--LAALLHRAADM 156
+D+ Y + L+ +A+
Sbjct: 174 -------RDL-YQTYHVLVGDLIKFSAET 194
Score = 27.7 bits (61), Expect = 2.1
Identities = 18/121 (14%), Positives = 38/121 (31%), Gaps = 41/121 (33%)
Query: 44 YLIFCRSVWYFPLRLDCQLYVQVLFNQIAPDYLEGLIVHLNTI-----------FPVFYL 92
Y++ + + + P L YL+G H + + F++
Sbjct: 249 YVVTAKLLGFTPGELR--------------SYLKGATGHSQGLVTAVAIAETDSWESFFV 294
Query: 93 IFCRSV-WYFPLRLDCQLYVQVLFNQIAPDYL-------EG----LLLV--LPNEQIPQD 138
+++ F + + C + P L EG +L + L EQ+
Sbjct: 295 SVRKAITVLFFIGVRCYEAYPNTS--LPPSILEDSLENNEGVPSPMLSISNLTQEQVQDY 352
Query: 139 I 139
+
Sbjct: 353 V 353
Score = 27.3 bits (60), Expect = 3.0
Identities = 26/129 (20%), Positives = 40/129 (31%), Gaps = 34/129 (26%)
Query: 56 LRLDCQLYVQVLFNQ-----IA--PDYLEGLIVHLNTIFPVFYLIFCRSVWYFPLRLDCQ 108
L Q+ + L N ++ P L GL + L L R F R +
Sbjct: 360 LPAGKQVEI-SLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIP--FSER---K 413
Query: 109 LYVQVLFNQI-AP---DYLEG----LLLVLPNEQI---PQDI---VY------DVAKLAA 148
L F + +P L + L + +DI VY D+ L+
Sbjct: 414 LKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSG 473
Query: 149 -LLHRAADM 156
+ R D
Sbjct: 474 SISERIVDC 482
>2kiw_A INT protein; alpha, structural genomics, PSI-2, protein structure
initiative, northeast structural genomics consortium;
NMR {Staphylococcus haemolyticus JCSC1435}
Length = 111
Score = 26.2 bits (58), Expect = 3.2
Identities = 8/31 (25%), Positives = 17/31 (54%)
Query: 57 RLDCQLYVQVLFNQIAPDYLEGLIVHLNTIF 87
+ D Q +V + Q + +Y++ ++ N IF
Sbjct: 46 KHDYQRFVDDISAQYSKNYVDSIVASTNMIF 76
>3ivf_A Talin-1; FERM domain, cell membrane, cell projection, cytoskeleton,
M phosphoprotein, cell adhesion, structural protein;
1.94A {Mus musculus} PDB: 2kma_A 2kc1_A
Length = 371
Score = 26.8 bits (59), Expect = 4.2
Identities = 13/68 (19%), Positives = 23/68 (33%), Gaps = 11/68 (16%)
Query: 88 PVFYLIFCRSVWYFPLRLDCQLYVQV--LFNQIAPDYLEGLLLVLPNEQIPQDIVYDVAK 145
L+ R +Y +D + VQ+ L+ Q D L G V ++ +
Sbjct: 158 EHETLLLRRKFFYSDQNVDSRDPVQLNLLYVQARDDILNGSHPVSFDK---------ACE 208
Query: 146 LAALLHRA 153
A +
Sbjct: 209 FAGFQCQI 216
>1uwm_A Ferredoxin VI, FDVI; electron transport, metal-binding,
iron-sulfur, iron, 2Fe-2S; 2.0A {Rhodobacter capsulatus}
SCOP: d.15.4.1 PDB: 1e9m_A
Length = 106
Score = 25.2 bits (56), Expect = 5.5
Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 8/32 (25%)
Query: 104 RLDCQLYVQVLFNQIAPDYLEGLLLVLPNEQI 135
RL CQ+ V L+GL++ LP +QI
Sbjct: 83 RLTCQIKVT--------SLLDGLVVHLPEKQI 106
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
0.333 0.148 0.494
Gapped
Lambda K H
0.267 0.0622 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,692,387
Number of extensions: 145936
Number of successful extensions: 349
Number of sequences better than 10.0: 1
Number of HSP's gapped: 346
Number of HSP's successfully gapped: 18
Length of query: 166
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 79
Effective length of database: 4,272,666
Effective search space: 337540614
Effective search space used: 337540614
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (22.0 bits)
S2: 53 (24.4 bits)