RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3275
(114 letters)
>1rq6_A 30S ribosomal protein S17E; alpha protein, structural genomics,
protein structure initiative, PSI, NESG; NMR
{Methanothermobacterthermautotrophicus} SCOP: a.4.15.1
Length = 62
Score = 79.7 bits (197), Expect = 2e-21
Identities = 25/51 (49%), Positives = 35/51 (68%)
Query: 53 GRVRTKTVKKASRVIIEKYYTKLTLDFHTNKRICEEIAIIPTKPLRNKIAG 103
G +RT VK+ ++ +IE + K T DF TNK++ EE + + TK LRNKIAG
Sbjct: 2 GNIRTSFVKRIAKEMIETHPGKFTDDFDTNKKLVEEFSTVSTKHLRNKIAG 52
>3iz6_Q 40S ribosomal protein S17 (S17E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum}
Length = 141
Score = 75.8 bits (186), Expect = 5e-19
Identities = 36/51 (70%), Positives = 47/51 (92%)
Query: 53 GRVRTKTVKKASRVIIEKYYTKLTLDFHTNKRICEEIAIIPTKPLRNKIAG 103
GRVRTKTVKK SR +IEKYY+++TLDFHTNK++ EE++I+P+K LRNK+AG
Sbjct: 2 GRVRTKTVKKTSRQVIEKYYSRMTLDFHTNKKVLEEVSILPSKRLRNKVAG 52
Score = 69.3 bits (169), Expect = 1e-16
Identities = 35/67 (52%), Positives = 45/67 (67%)
Query: 1 MKRLRHSQVRGISIKLQEEERERRDNYVPEVSALEQDVIEVDSETKDMLRMLGRVRTKTV 60
M+R++ VRGIS+KLQEEERERR ++VPE SALE + I VD ET +ML LG V
Sbjct: 58 MRRIQRGPVRGISLKLQEEERERRMDFVPEKSALEVEEIRVDKETMEMLAALGMADLPGV 117
Query: 61 KKASRVI 67
++ V
Sbjct: 118 ERQQEVS 124
>2xzm_V RPS17E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_V
Length = 130
Score = 74.6 bits (183), Expect = 9e-19
Identities = 34/51 (66%), Positives = 43/51 (84%)
Query: 53 GRVRTKTVKKASRVIIEKYYTKLTLDFHTNKRICEEIAIIPTKPLRNKIAG 103
GRVRTKTVK+A++ +IE YY+KLT DFH NK+I E+A +P+K LRNKIAG
Sbjct: 2 GRVRTKTVKRAAKSLIEHYYSKLTNDFHFNKKILSEVAQVPSKRLRNKIAG 52
Score = 71.6 bits (175), Expect = 2e-17
Identities = 32/65 (49%), Positives = 46/65 (70%)
Query: 1 MKRLRHSQVRGISIKLQEEERERRDNYVPEVSALEQDVIEVDSETKDMLRMLGRVRTKTV 60
MKR++ VRGIS+K+QEEERERR +YVPE S ++ + + +D+ETK+ML+ LG +
Sbjct: 58 MKRIQKGPVRGISLKVQEEERERRLDYVPEKSIIDIEKVTIDNETKEMLKKLGYQNIPGL 117
Query: 61 KKASR 65
AS
Sbjct: 118 VSASA 122
>3u5c_R RP51A, 40S ribosomal protein S17-A; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_Q 3o30_K 3o2z_K 3u5g_R
Length = 136
Score = 73.6 bits (180), Expect = 3e-18
Identities = 38/51 (74%), Positives = 45/51 (88%)
Query: 53 GRVRTKTVKKASRVIIEKYYTKLTLDFHTNKRICEEIAIIPTKPLRNKIAG 103
GRVRTKTVK+AS+ +IE+YY KLTLDF TNKR+C+EIA I +K LRNKIAG
Sbjct: 2 GRVRTKTVKRASKALIERYYPKLTLDFQTNKRLCDEIATIQSKRLRNKIAG 52
Score = 61.3 bits (148), Expect = 2e-13
Identities = 36/75 (48%), Positives = 48/75 (64%), Gaps = 4/75 (5%)
Query: 1 MKRLRHSQVRGISIKLQEEERERRDNYVPEVSALE----QDVIEVDSETKDMLRMLGRVR 56
MKR++ VRGIS KLQEEERER+D YVPEVSAL+ V+ VD++T D+++ LG
Sbjct: 58 MKRIQKGPVRGISFKLQEEERERKDQYVPEVSALDLSRSNGVLNVDNQTSDLVKSLGLKL 117
Query: 57 TKTVKKASRVIIEKY 71
+V S +Y
Sbjct: 118 PLSVINVSAQRDRRY 132
>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 = 31.0 bits (69), Expect = 0.078
Identities = 14/111 (12%), Positives = 35/111 (31%), Gaps = 35/111 (31%)
Query: 5 RHSQVRGISIKLQEEERERRDNYV-----PEVSALEQDVIEV---DSETKDMLRMLGRVR 56
+ + + S+ + E E R + P + + ++ + D D++ ++ ++
Sbjct: 354 KLTTIIESSLNVLEPA-EYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLH 412
Query: 57 TKT-VKKAS-------------------------RVIIEKYYTKLTLDFHT 81
+ V+K R I++ Y T D
Sbjct: 413 KYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDD 463
>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 = 29.2 bits (65), Expect = 0.30
Identities = 16/63 (25%), Positives = 23/63 (36%), Gaps = 17/63 (26%)
Query: 18 EEERERRDNYVPEVSALEQDVIEVDSETKDMLRMLGRVRTKTVKKASRVIIEKYYTKLTL 77
EE R+ Y V D+I+ +ET L L R EK +T+ L
Sbjct: 171 EELRDLYQTYHVLV----GDLIKFSAET---LSELIRTTLDA---------EKVFTQ-GL 213
Query: 78 DFH 80
+
Sbjct: 214 NIL 216
>1nt0_A MAsp2, mannose-binding protein associated serine proteas; CUB
domain, EGF like domain., hydrolase, sugar binding
protein; HET: NAG EDO; 2.70A {Rattus norvegicus} SCOP:
b.23.1.1 b.23.1.1 g.3.11.1
Length = 286
Score = 28.4 bits (63), Expect = 0.52
Identities = 10/51 (19%), Positives = 21/51 (41%)
Query: 37 DVIEVDSETKDMLRMLGRVRTKTVKKASRVIIEKYYTKLTLDFHTNKRICE 87
D +++ S TK + + G+ T T + L + FH++ +
Sbjct: 56 DFVKLTSGTKVLATLCGQESTDTERAPGNDTFYSLGPSLKVTFHSDYSNEK 106
>4aqb_A Mannan-binding lectin serine protease 1; blood clotting,
mannan-binding protein, complement, ficolins complement
pathway, mannose- binding lectin; HET: NAG BMA MAN;
4.20A {Homo sapiens}
Length = 361
Score = 27.6 bits (61), Expect = 0.91
Identities = 8/46 (17%), Positives = 24/46 (52%)
Query: 37 DVIEVDSETKDMLRMLGRVRTKTVKKASRVIIEKYYTKLTLDFHTN 82
D ++V++E + + GR T T + + ++ + +++ F ++
Sbjct: 57 DYVKVETEDQVLATFCGRETTDTEQTPGQEVVLSPGSFMSITFRSD 102
>3dem_A Complement factor MAsp-3; complement system, innate immunity,
calcium binding sites, C pathway, EGF-like domain,
glycoprotein, hydrolase; HET: NAG; 2.30A {Homo sapiens}
Length = 278
Score = 27.2 bits (60), Expect = 1.1
Identities = 8/49 (16%), Positives = 24/49 (48%)
Query: 37 DVIEVDSETKDMLRMLGRVRTKTVKKASRVIIEKYYTKLTLDFHTNKRI 85
D ++V++E + + GR T T + + ++ + +++ F ++
Sbjct: 57 DYVKVETEDQVLATFCGRETTDTEQTPGQEVVLSPGSFMSITFRSDFSN 105
>3nv9_A Malic enzyme; rossmann fold, oxidoreductase; 2.25A {Entamoeba
histolytica}
Length = 487
Score = 26.8 bits (60), Expect = 1.9
Identities = 8/61 (13%), Positives = 25/61 (40%), Gaps = 5/61 (8%)
Query: 40 EVDSETKDMLRMLGRVRTKTVKKASRVIIEKYYTKLTLDFHTNKRICEEIAIIPTKPLRN 99
++ ++ ++ L ++ + ++ ++Y +L H + +I I+P L
Sbjct: 3 QLKADLSNLEECLPSTLSQEQRAVAK---TQFYKELAEKVHKFYK--GKIQIMPKCTLAG 57
Query: 100 K 100
Sbjct: 58 F 58
>2xi5_A RNA polymerase L, L-protein; transferase, bunyaviridae,
orthobunyavirus, aedes triseriatu hydrolase; 2.20A
{Bunyavirus la crosse} PDB: 2xi7_A*
Length = 184
Score = 25.7 bits (56), Expect = 4.0
Identities = 14/43 (32%), Positives = 18/43 (41%)
Query: 59 TVKKASRVIIEKYYTKLTLDFHTNKRICEEIAIIPTKPLRNKI 101
+V S VI Y +LT D I EI II P+ +
Sbjct: 97 SVSNESSVITYDKYYELTRDISDRLSIPIEIVIIRIDPVSRDL 139
>2dvm_A Malic enzyme, 439AA long hypothetical malate oxidoreductase; NAD,
structural genomics, NPPSFA; HET: NAD MES; 1.60A
{Pyrococcus horikoshii} PDB: 1ww8_A*
Length = 439
Score = 25.6 bits (57), Expect = 4.1
Identities = 8/25 (32%), Positives = 13/25 (52%), Gaps = 1/25 (4%)
Query: 77 LDFHTNKRICE-EIAIIPTKPLRNK 100
L+FH N +I +IP L ++
Sbjct: 7 LEFHKNNFPGNGKIEVIPKVSLESR 31
>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch
recognition, mismatched unpaired DNA binding protein-DNA
complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B*
3thy_B* 3thz_B*
Length = 918
Score = 24.9 bits (55), Expect = 7.5
Identities = 4/22 (18%), Positives = 13/22 (59%)
Query: 3 RLRHSQVRGISIKLQEEERERR 24
+ R +++G+ +++ +E R
Sbjct: 497 KKRKDEIQGVIDEIRMHLQEIR 518
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
0.318 0.134 0.358
Gapped
Lambda K H
0.267 0.0563 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,708,407
Number of extensions: 92128
Number of successful extensions: 156
Number of sequences better than 10.0: 1
Number of HSP's gapped: 154
Number of HSP's successfully gapped: 27
Length of query: 114
Length of database: 6,701,793
Length adjustment: 77
Effective length of query: 37
Effective length of database: 4,551,876
Effective search space: 168419412
Effective search space used: 168419412
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (23.8 bits)