RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12238
(166 letters)
>2jrf_A Tubulin polymerization-promoting protein family member 3; solution
structure, structural genomics, PSI-2, protein structure
initiative; NMR {Homo sapiens}
Length = 184
Score = 129 bits (324), Expect = 1e-38
Identities = 59/166 (35%), Positives = 87/166 (52%), Gaps = 18/166 (10%)
Query: 19 GFSSNFKLFSKFGDTKSDGKLLTLSQSDKWMKQAKVIDGKKVTTTDTGIHFKKFKSLKIG 78
G +F+ F+ GD K+ G+ + K K KV DGK VT TD I F K K
Sbjct: 9 GLEESFRKFAIHGDPKASGQEMNGKNWAKLCKDCKVADGKSVTGTDVDIVFSKVKGKSAR 68
Query: 79 LSDYQKFIESLA-----KHKSVPEYDVWASKNS-------------EAQIQNTISRLTDP 120
+ +Y++F ++L + K + + + + +A+ + RLTD
Sbjct: 69 VINYEEFKKALEELATKRFKGKSKEEAFDAICQLVAGKEPANVGVTKAKTGGAVDRLTDT 128
Query: 121 SRYTGSHKLRFDEAGKGKGLAGRKDSVEAAGYVQGYQNRNSYDKTH 166
SRYTGSHK RFDE+GKGKG+AGR+D ++ +GYV Y+N +YD
Sbjct: 129 SRYTGSHKERFDESGKGKGIAGRQDILDDSGYVSAYKNAGTYDAKV 174
>1wlm_A Protein CGI-38; structural genomics, NPPSFA, national project on
protein structural and functional analyses; NMR {Mus
musculus} SCOP: a.39.1.11
Length = 151
Score = 88.7 bits (219), Expect = 2e-23
Identities = 38/133 (28%), Positives = 59/133 (44%), Gaps = 18/133 (13%)
Query: 19 GFSSNFKLFSKFGDTKSDGKLLTLSQSDKWMKQAKVIDGKKVTTTDTGIHFKKFKSLKIG 78
G +F+ F+ GD K+ G+ + K K KV DGK VT TD I F K K+
Sbjct: 16 GLEESFRKFAIHGDPKASGQEMNGKNWAKLCKDCKVADGKAVTGTDVDIVFSKVKAKSAR 75
Query: 79 LSDYQKFIESLA------------------KHKSVPEYDVWASKNSEAQIQNTISRLTDP 120
+ +Y++F ++L + + + ++A+ + RLTD
Sbjct: 76 VINYEEFKKALEELATKRFKGKSKEEAFDAICQLIAGKEPANIGVTKAKTGGAVDRLTDT 135
Query: 121 SRYTGSHKLRFDE 133
S+YTGSHK R
Sbjct: 136 SKYTGSHKERSGP 148
>1pul_A Hypothetical protein C32E8.3 in chromosome I; alpha helical,
northeast structural genomics consortium, PSI, protein
structure initiative; NMR {Caenorhabditis elegans}
SCOP: a.39.1.11
Length = 125
Score = 64.8 bits (157), Expect = 2e-14
Identities = 23/77 (29%), Positives = 36/77 (46%), Gaps = 4/77 (5%)
Query: 19 GFSSNFKLFSKFGDTKSDGKLLTLSQSDKWMKQAKVIDGKKVTTTDTGIHFKKF--KSLK 76
+ F+KFG + +T DKW+K A V+D K +T T TGI F K K
Sbjct: 23 DVKKRWDAFTKFG--AATATEMTGKNFDKWLKDAGVLDNKAITGTMTGIAFSKVTGPKKK 80
Query: 77 IGLSDYQKFIESLAKHK 93
+ +K + +A+ +
Sbjct: 81 ATFDETKKVLAFVAEDR 97
>2iuf_A Catalase; oxidoreductase; HET: HDD NAG; 1.71A {Penicillium
janthinellum} PDB: 2xf2_A*
Length = 688
Score = 28.8 bits (64), Expect = 0.86
Identities = 15/59 (25%), Positives = 26/59 (44%), Gaps = 9/59 (15%)
Query: 47 KWMKQAKVIDGKKVTTTDTGIHFKKFKSLKIG------LSDYQKFIESLAK--HKSVPE 97
+++ Q + D T++ G + SL G L D+ F E + + H+ VPE
Sbjct: 2 QFLSQFYLNDQDVYLTSNVGGPIQDENSLSAGQRGATLLQDFI-FREKIQRFDHERVPE 59
>2rp5_A Putative uncharacterized protein CEP-1; oligomerization domain,
SAM domain, transcription; NMR {Caenorhabditis elegans}
Length = 136
Score = 26.3 bits (57), Expect = 4.0
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 69 FKKFKSLKIGLSDYQKFIESLAKHKSVPEY 98
F++L + ++Y K +E LA+ VP Y
Sbjct: 21 NYSFRTLTLSTAEYTKVVEFLAREAKVPRY 50
>3i9v_9 NADH-quinone oxidoreductase subunit 9; electron transport,
respiratory chain, cell flavoprotein, FMN, iron,
iron-sulfur, membrane; HET: FMN; 3.10A {Thermus
thermophilus} PDB: 2ybb_8* 2fug_9* 3iam_9* 3ias_9*
3m9s_9*
Length = 182
Score = 26.3 bits (58), Expect = 4.5
Identities = 6/23 (26%), Positives = 8/23 (34%)
Query: 116 RLTDPSRYTGSHKLRFDEAGKGK 138
+ R+ G H L G K
Sbjct: 30 PVALKPRFHGRHVLTRHPNGLEK 52
>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 = 26.4 bits (57), Expect = 6.7
Identities = 13/102 (12%), Positives = 30/102 (29%), Gaps = 38/102 (37%)
Query: 15 KYF---LGF-------SSNFKLFSK-FGDTKSDGKLLTLSQSDKWMKQAKVI-DG----K 58
+YF +G LF F D +++ + K+ D
Sbjct: 471 QYFYSHIGHHLKNIEHPERMTLFRMVFLD-------------FRFL-EQKIRHDSTAWNA 516
Query: 59 KVTTTDTGIHFKKFKS--------LKIGLSDYQKFIESLAKH 92
+ +T K +K + ++ F+ + ++
Sbjct: 517 SGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEEN 558
>3b7e_A Neuraminidase; 6-bladed beta-propeller, glycosidase, hydrolase,
membrane, transmembrane, virion; HET: NAG FUC ZMR; 1.45A
{Influenza a virus} PDB: 3beq_A* 3cye_A* 2hty_A* 2hu0_A*
2hu4_A* 3cl2_A* 3ckz_A* 3cl0_A* 3ti4_A* 3nss_A* 3ti3_A*
3ti5_A* 3ti6_A* 2htv_A* 2htw_A*
Length = 385
Score = 26.1 bits (57), Expect = 6.9
Identities = 10/37 (27%), Positives = 16/37 (43%)
Query: 101 WASKNSEAQIQNTISRLTDPSRYTGSHKLRFDEAGKG 137
W +S ++ I +TD S Y+GS + G
Sbjct: 298 WTETDSSFSVRQDIVAITDWSGYSGSFVQHPELTGLD 334
>3hsk_A Aspartate-semialdehyde dehydrogenase; candida albicans NADP
complex, amino-acid biosynthesis; HET: NAP; 2.20A
{Candida albicans}
Length = 381
Score = 25.7 bits (57), Expect = 8.8
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 83 QKFIESLAKHKSVPEYDVWASKNS 106
Q+FI L+KH + + AS S
Sbjct: 33 QRFILLLSKHPEFEIHALGASSRS 56
>2ep5_A 350AA long hypothetical aspartate-semialdehyde dehydrogenase;
oxidoreductase, structural genomics, NPPSFA; 2.40A
{Sulfolobus tokodaii}
Length = 350
Score = 25.6 bits (57), Expect = 9.4
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 83 QKFIESLAKHKSVPEYDVWASKNS 106
QK ++ LAKH + V AS +
Sbjct: 18 QKMVKMLAKHPYLELVKVSASPSK 41
>2w37_A Ornithine carbamoyltransferase, catabolic; transcarbamylase, metal
binding-site, hexamer, cytoplasm, arginine metabolism;
2.10A {Lactobacillus hilgardii}
Length = 359
Score = 25.7 bits (57), Expect = 10.0
Identities = 19/54 (35%), Positives = 23/54 (42%), Gaps = 21/54 (38%)
Query: 57 GKKVTTTDT---------GIHFKKFKSLKIGLSDYQKFIESLAKHKSVPEYDVW 101
GKK +T+DT GI F+ FK Q E LA+ VP VW
Sbjct: 107 GKKESTSDTAKVLGSMFDGIEFRGFK---------QSDAEILARDSGVP---VW 148
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
0.316 0.132 0.384
Gapped
Lambda K H
0.267 0.0749 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,416,170
Number of extensions: 127401
Number of successful extensions: 307
Number of sequences better than 10.0: 1
Number of HSP's gapped: 305
Number of HSP's successfully gapped: 19
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: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.2 bits)