RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11354
(120 letters)
>1mzw_B U4/U6 snRNP 60KDA protein; cyclophilin, peptidyl-prolyl-CIS/trans
isomerase, spliceosome, U4/U6-60K protein, WD protein;
2.00A {Homo sapiens}
Length = 31
Score = 57.0 bits (138), Expect = 7e-13
Identities = 23/31 (74%), Positives = 27/31 (87%)
Query: 86 QVKLNLRQLGEPICLFGEGPAERRSRLRDLL 116
+VK +LR LGEPI LFGEGPAERR RLR++L
Sbjct: 1 EVKASLRALGEPITLFGEGPAERRERLRNIL 31
>2dk4_A PRE-mRNA-splicing factor 18; SFM domain, HPRP18, structural NPPSFA,
national project on protein structural and function
analyses; NMR {Homo sapiens} SCOP: a.140.6.1
Length = 76
Score = 39.8 bits (92), Expect = 1e-05
Identities = 15/57 (26%), Positives = 23/57 (40%)
Query: 59 AKDKQALLQEFERRKKARHVNVSTDDNQVKLNLRQLGEPICLFGEGPAERRSRLRDL 115
+ E + ++ +V LR+ GEPI LFGE + RLR +
Sbjct: 4 GSSGTSSNPVLELELAEEKLPMTLSRQEVIRRLRERGEPIRLFGETDYDAFQRLRKI 60
>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 = 35.8 bits (82), Expect = 0.002
Identities = 22/141 (15%), Positives = 41/141 (29%), Gaps = 41/141 (29%)
Query: 15 TVHYGSLE-------------EQERKRLAAN-----KDVDDDQEKYTNVHTSNVYME-ID 55
T+ +GSLE Q +++ + D E T ++ +
Sbjct: 10 TLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVS 69
Query: 56 DEMAKDKQ--------ALLQEFER---RKKARHVNVSTDDNQVKLNLRQLGEPI------ 98
+ K L EFE H + + L + E I
Sbjct: 70 SLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITA 129
Query: 99 CLFGEGPAERRSRLRDLLSSL 119
+ + P +++S S+L
Sbjct: 130 RIMAKRPFDKKSN-----SAL 145
>3byi_A RHO GTPase activating protein 15; BM046, arhgap15, structural
genomics consortium, signaling protein; 2.25A {Homo
sapiens}
Length = 214
Score = 31.4 bits (72), Expect = 0.041
Identities = 13/73 (17%), Positives = 26/73 (35%), Gaps = 16/73 (21%)
Query: 63 QALLQEFERRKKARHVNVSTDD-NQV----KLNLRQLGEPICLFG-----------EGPA 106
Q L + +K + +D + V K+ R+L EP+ + +
Sbjct: 67 QKLRFIVNQEEKLNLDDSQWEDIHVVTGALKMFFRELPEPLFPYSFFEQFVEAIKKQDNN 126
Query: 107 ERRSRLRDLLSSL 119
R ++ L+ L
Sbjct: 127 TRIEAVKSLVQKL 139
>2ee4_A RHO GTPase activating protein 5 variant; all alpha protein,
GTPase-activating protein for RHO family members,
structural genomics, NPPSFA; NMR {Homo sapiens} PDB:
2ee5_A
Length = 209
Score = 30.7 bits (70), Expect = 0.081
Identities = 10/72 (13%), Positives = 24/72 (33%), Gaps = 15/72 (20%)
Query: 63 QALLQEFERRKKARHVNVSTDDNQV----KLNLRQLGEPICLFG-----------EGPAE 107
+ ++F++ V++ N V K L +P+ + E
Sbjct: 59 DNIQKQFDQDHNINLVSMEVTVNAVAGALKAFFADLPDPLIPYSLHPELLEAAKIPDKTE 118
Query: 108 RRSRLRDLLSSL 119
R L++++
Sbjct: 119 RLHALKEIVKKF 130
>2osa_A N-chimaerin; RHO-GAP, GTPase activation, structural genomics,
structural genomics consortium, SGC, signaling protein;
1.80A {Homo sapiens}
Length = 202
Score = 29.5 bits (67), Expect = 0.17
Identities = 13/80 (16%), Positives = 27/80 (33%), Gaps = 21/80 (26%)
Query: 59 AKDKQALLQEFERRKKARHVNVSTDDNQ--------VKLNLRQLGEPICLFG-------- 102
+ + + F+R + ++S + + +KL R L P+ +
Sbjct: 52 SDLIEDVKMAFDRDGEK--ADISVNMYEDINIITGALKLYFRDLPIPLITYDAYPKFIES 109
Query: 103 ---EGPAERRSRLRDLLSSL 119
P E+ L + L L
Sbjct: 110 AKIMDPDEQLETLHEALKLL 129
>3fk2_A Glucocorticoid receptor DNA-binding factor 1; structural genomics
consortium, GTPase-activating protein, SGC, alternative
splicing, anti-oncogene; 2.80A {Homo sapiens}
Length = 246
Score = 28.9 bits (65), Expect = 0.33
Identities = 9/72 (12%), Positives = 24/72 (33%), Gaps = 15/72 (20%)
Query: 63 QALLQEFERRKKARHVNVSTDDNQV----KLNLRQLGEPICLFG-----------EGPAE 107
++L ++F++ N V K +L +P+ + +
Sbjct: 100 ESLQRQFDQDHNLDLAEKDFTVNTVAGAMKSFFSELPDPLVPYNMQIDLVEAHKINDREQ 159
Query: 108 RRSRLRDLLSSL 119
+ L+++L
Sbjct: 160 KLHALKEVLKKF 171
>3iug_A RHO/CDC42/RAC GTPase-activating protein RICS; structural genomics
consortium (SGC), GAP, alternative splicing, cell
junction, cell membrane; 1.77A {Homo sapiens}
Length = 229
Score = 27.3 bits (61), Expect = 1.2
Identities = 13/77 (16%), Positives = 25/77 (32%), Gaps = 23/77 (29%)
Query: 63 QALLQEFERRKKARHVNVSTDDNQ---------VKLNLRQLGEPICLFG----------- 102
Q L EF+ +++ + KL R+L P+ +
Sbjct: 68 QRLRHEFDSEHV---PDLTKEPYVQDIHSVGSLCKLYFRELPNPLLTYQLYEKFSDAVSA 124
Query: 103 EGPAERRSRLRDLLSSL 119
ER ++ D++ L
Sbjct: 125 ATDEERLIKIHDVIQQL 141
>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 = 27.5 bits (60), Expect = 1.4
Identities = 13/128 (10%), Positives = 37/128 (28%), Gaps = 35/128 (27%)
Query: 21 LEEQERKRLAANKDVDDDQEKYTNVHTSNVYMEIDDEMAKDKQ---ALLQEFERRKKARH 77
+ + + L K + + + ++Y+E+ ++ + +++ + K
Sbjct: 408 VNKLHKYSLV-EKQPKE--STIS-IP--SIYLELKVKLENEYALHRSIVDHYNIPKTFDS 461
Query: 78 VNVSTD--DN-----------------------QVKLNLRQLGEPICLFGEGPAERRSRL 112
++ D V L+ R L + I +
Sbjct: 462 DDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDST-AWNASGSI 520
Query: 113 RDLLSSLQ 120
+ L L+
Sbjct: 521 LNTLQQLK 528
>2ivs_A Proto-oncogene tyrosine-protein kinase receptor RET;
nucleotide-binding, hirschsprung disease,
phosphorylation, disease mutation; HET: ACK; 2.00A {Homo
sapiens} PDB: 2ivt_A* 2ivu_A* 2x2k_A* 2x2l_A* 2x2m_A*
2ivv_A*
Length = 314
Score = 26.0 bits (58), Expect = 2.9
Identities = 12/51 (23%), Positives = 20/51 (39%), Gaps = 15/51 (29%)
Query: 55 DDEMAKDKQALLQEFERRKKARHVNVSTDDNQVKLNLRQLG-----EPICL 100
++ + + LL EF K+ H +V +KL G P+ L
Sbjct: 63 ENASPSELRDLLSEFNVLKQVNHPHV------IKL----YGACSQDGPLLL 103
>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 = 24.9 bits (53), Expect = 6.2
Identities = 8/18 (44%), Positives = 11/18 (61%), Gaps = 1/18 (5%)
Query: 22 EEQERKRLAAN-KDVDDD 38
E+Q K+L A+ K DD
Sbjct: 18 EKQALKKLQASLKLYADD 35
>2rli_A SCO2 protein homolog, mitochondrial; copper protein, thioredoxin
fold, metal transport, structural genomics,
spine2-complexes; NMR {Homo sapiens}
Length = 171
Score = 25.0 bits (55), Expect = 7.1
Identities = 7/58 (12%), Positives = 21/58 (36%), Gaps = 16/58 (27%)
Query: 28 RLAANKDVDDDQEKYTNVHTSNVYMEID---------------DEMAKDKQALLQEFE 70
R+ N D+ + Y H+ +Y+ ++ ++++ + + F
Sbjct: 111 RVYYNAGPKDEDQDYIVDHSIAIYL-LNPDGLFTDYYGRSRSAEQISDSVRRHMAAFR 167
>1luf_A Muscle-specific tyrosine kinase receptor MUSK; phosphorylation,
signal transduction, MASS spectrometry, transferase;
2.05A {Rattus norvegicus} SCOP: d.144.1.7
Length = 343
Score = 25.0 bits (55), Expect = 7.7
Identities = 11/51 (21%), Positives = 20/51 (39%), Gaps = 15/51 (29%)
Query: 55 DDEMAKDKQALLQEFERRKKARHVNVSTDDNQVKLNLRQLG-----EPICL 100
++ A + +E + + N+ VKL LG +P+CL
Sbjct: 87 EEASADMQADFQREAALMAEFDNPNI------VKL----LGVCAVGKPMCL 127
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 0.130 0.352
Gapped
Lambda K H
0.267 0.0707 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,779,073
Number of extensions: 95857
Number of successful extensions: 170
Number of sequences better than 10.0: 1
Number of HSP's gapped: 169
Number of HSP's successfully gapped: 26
Length of query: 120
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 38
Effective length of database: 4,412,271
Effective search space: 167666298
Effective search space used: 167666298
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 (21.9 bits)
S2: 51 (23.5 bits)