RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9969
(75 letters)
>1q55_A EP-cadherin, C-cadherin; trans interaction, desmosome, junction,
adhesion, structural protein; HET: NAG NDG; 30.00A {Mus
musculus} SCOP: i.20.1.1 PDB: 1q5a_A* 1q5b_A* 1q5c_A*
Length = 880
Score = 53.3 bits (128), Expect = 3e-10
Identities = 17/37 (45%), Positives = 26/37 (70%)
Query: 25 SPSTVTDEGDLNFDYLSNFGPRFRKLADMYGEDPSDE 61
S ++ + +++YLS++G RFRKLADMYG D +E
Sbjct: 844 SLNSSNSNDEHDYNYLSDWGSRFRKLADMYGGDDDEE 880
>1i7w_B E-cadherin, epithelial-cadherin; cell adhesion, beta-catenin,
protein-protein complex, extended interface, armadillo
repeat, phosphoserin; HET: SEP; 2.00A {Mus musculus}
SCOP: j.71.1.1 PDB: 1i7x_B 3ifq_C*
Length = 151
Score = 49.3 bits (117), Expect = 3e-09
Identities = 16/36 (44%), Positives = 24/36 (66%)
Query: 25 SPSTVTDEGDLNFDYLSNFGPRFRKLADMYGEDPSD 60
S ++ + D ++DYL+ +G RF+KLADMYG D
Sbjct: 116 SLNSSESDQDQDYDYLNEWGNRFKKLADMYGGGEDD 151
>2dy3_A Alanine racemase; alpha/beta barrel, isomerase; HET: PLP; 2.10A
{Corynebacterium glutamicum}
Length = 361
Score = 27.4 bits (62), Expect = 0.32
Identities = 5/17 (29%), Positives = 8/17 (47%)
Query: 53 MYGEDPSDEEDENYQPA 69
YG +P + +PA
Sbjct: 219 FYGLEPVAGLEHGLKPA 235
>3kw3_A Alanine racemase; niaid, ssgcid, seattle structural genomics center
for infect disease, iodide SOAK, LLP, CAT-scratch DI
isomerase; HET: LLP; 2.04A {Bartonella henselae}
Length = 376
Score = 26.7 bits (60), Expect = 0.70
Identities = 4/19 (21%), Positives = 7/19 (36%)
Query: 53 MYGEDPSDEEDENYQPAAS 71
+YG DP + +
Sbjct: 235 LYGVDPHGKHPTPLKAVVK 253
>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 = 0.88
Identities = 12/42 (28%), Positives = 15/42 (35%), Gaps = 3/42 (7%)
Query: 9 FPFLKISRHTTNRKPRSPSTVTDEGDLNFDYLSNFGPRFRKL 50
+ FL T + R PS +T D L N F K
Sbjct: 91 YKFLMSPIKT---EQRQPSMMTRMYIEQRDRLYNDNQVFAKY 129
>2ygr_A Uvrabc system protein A; hydrolase, nucleotide excision repair;
3.40A {Mycobacterium tuberculosis} PDB: 3zqj_A
Length = 993
Score = 26.0 bits (58), Expect = 1.3
Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 5/32 (15%)
Query: 10 PFLKISRHTTNRKPRS-PSTVTDEGDLNFDYL 40
P + I + +TNR PRS T+T+ +DYL
Sbjct: 103 PAVSIDQKSTNRNPRSTVGTITEV----YDYL 130
>1gjw_A Maltodextrin glycosyltransferase; alpha-amylase,
maltosyltransferase; HET: MAL GLC; 2.1A {Thermotoga
maritima} SCOP: b.71.1.1 c.1.8.1 PDB: 1gju_A*
Length = 637
Score = 25.6 bits (55), Expect = 2.0
Identities = 11/55 (20%), Positives = 22/55 (40%), Gaps = 4/55 (7%)
Query: 1 MKINKIYTFPFLKISRHTTNRKPR--SPSTVTDEGDLNFDYLSNFGPRFRKLADM 53
+ + IY P ++S +K SP +V + +L+ Y F+ +
Sbjct: 132 LGADAIYLLPVSRMS--DLFKKGDAPSPYSVKNPMELDERYHDPLLEPFKVDEEF 184
>3ffr_A Phosphoserine aminotransferase SERC; structural genomics, JO center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: LLP MSE P33; 1.75A {Cytophaga hutchinsonii
atcc 33406}
Length = 362
Score = 25.3 bits (56), Expect = 2.0
Identities = 8/39 (20%), Positives = 12/39 (30%), Gaps = 2/39 (5%)
Query: 38 DYLSN--FGPRFRKLADMYGEDPSDEEDENYQPAASESW 74
+ N F RF + A G + EE +
Sbjct: 87 FHCVNGSFSKRFYEFAGELGREAYKEEAAFGKGFYPADI 125
>2r6f_A Excinuclease ABC subunit A; UVRA, nucleotide excision repair, DNA
repair, ABC ATPase, at cassette, DNA damage, DNA
excision; HET: ADP; 3.20A {Geobacillus
stearothermophilus} PDB: 3uwx_A
Length = 972
Score = 25.2 bits (56), Expect = 2.0
Identities = 14/32 (43%), Positives = 19/32 (59%), Gaps = 5/32 (15%)
Query: 10 PFLKISRHTTNRKPRS-PSTVTDEGDLNFDYL 40
P + I + TT+R PRS TVT+ +DYL
Sbjct: 101 PAISIDQKTTSRNPRSTVGTVTEI----YDYL 128
>1v9d_A Diaphanous protein homolog 1; helix bundle, protein binding; 2.60A
{Mus musculus} SCOP: a.207.1.1
Length = 340
Score = 25.1 bits (55), Expect = 2.7
Identities = 4/17 (23%), Positives = 8/17 (47%)
Query: 46 RFRKLADMYGEDPSDEE 62
+++L D + DP
Sbjct: 274 LYKELGDYFVFDPKKLS 290
>1ux5_A BNI1 protein; structural protein, FH2 actin cytoskeleton; 2.5A
{Saccharomyces cerevisiae} SCOP: a.207.1.1 PDB: 1y64_B*
1ux4_A
Length = 411
Score = 24.8 bits (54), Expect = 2.7
Identities = 7/16 (43%), Positives = 8/16 (50%)
Query: 46 RFRKLADMYGEDPSDE 61
F L YGED D+
Sbjct: 359 EFESLMHTYGEDSGDK 374
>2rli_A SCO2 protein homolog, mitochondrial; copper protein, thioredoxin
fold, metal transport, structural genomics,
spine2-complexes; NMR {Homo sapiens}
Length = 171
Score = 24.6 bits (54), Expect = 2.9
Identities = 8/43 (18%), Positives = 15/43 (34%), Gaps = 13/43 (30%)
Query: 38 DYLSNFGPRF----------RKLADMYG---EDPSDEEDENYQ 67
Y+ +F PR + + Y +ED++Y
Sbjct: 84 RYVQDFHPRLLGLTGSTKQVAQASHSYRVYYNAGPKDEDQDYI 126
>3obv_E Protein diaphanous homolog 1; autoinhibition, actin, nucleation,
cytoskeleton, structural; HET: SUC; 2.75A {Mus musculus}
PDB: 3o4x_E 2bap_D
Length = 457
Score = 24.8 bits (54), Expect = 3.4
Identities = 4/17 (23%), Positives = 8/17 (47%)
Query: 46 RFRKLADMYGEDPSDEE 62
+++L D + DP
Sbjct: 345 LYKELGDYFVFDPKKLS 361
>2k6v_A Putative cytochrome C oxidase assembly protein; thioredoxin fold,
electron transfer protein, metal binding protein,
electron transport; NMR {Thermus thermophilus}
Length = 172
Score = 24.2 bits (53), Expect = 4.2
Identities = 8/42 (19%), Positives = 11/42 (26%), Gaps = 13/42 (30%)
Query: 38 DYLSNFGPRF----------RKLADMYG---EDPSDEEDENY 66
Y F P F R+ A +G + Y
Sbjct: 92 RYAKAFHPSFLGLSGSPEAVREAAQTFGVFYQKSQYRGPGEY 133
>2ggt_A SCO1 protein homolog, mitochondrial; copper chaperone, Cu-binding
protein, mitochondrial assembly factor, redox, nickel,
disuplhide, mitochondrion; 2.40A {Homo sapiens} SCOP:
c.47.1.10 PDB: 2gqk_A 2gql_A 2gqm_A 2gt5_A 2gt6_A 2gvp_A
2hrf_A 2hrn_A 1wp0_A
Length = 164
Score = 24.2 bits (53), Expect = 4.6
Identities = 9/43 (20%), Positives = 16/43 (37%), Gaps = 13/43 (30%)
Query: 38 DYLSNFGPRF----------RKLADMYG---EDPSDEEDENYQ 67
+Y+ F P+ ++A Y +EDE+Y
Sbjct: 81 NYVKEFSPKLVGLTGTREEVDQVARAYRVYYSPGPKDEDEDYI 123
>2b7k_A SCO1 protein; metallochaperone, cytochrome C oxidase, metal binding
protein; 1.80A {Saccharomyces cerevisiae} SCOP:
c.47.1.10 PDB: 2b7j_A
Length = 200
Score = 23.9 bits (52), Expect = 5.2
Identities = 8/44 (18%), Positives = 15/44 (34%), Gaps = 14/44 (31%)
Query: 38 DYLSNFGPRF----------RKLADMYG----EDPSDEEDENYQ 67
+YLS+F P + Y P+ + ++Y
Sbjct: 98 EYLSDFHPSILGLTGTFDEVKNACKKYRVYFSTPPNVKPGQDYL 141
>3f5f_A Maltose-binding periplasmic protein, heparan sulfate
2-O-sulfotransferase 1; maltose binding protein, fusion,
heparan sulfate biosynthesis; HET: GLC A3P; 2.65A
{Escherichia coli k-12}
Length = 658
Score = 23.8 bits (51), Expect = 6.8
Identities = 6/26 (23%), Positives = 12/26 (46%)
Query: 5 KIYTFPFLKISRHTTNRKPRSPSTVT 30
++Y R TT +K + +T+
Sbjct: 579 ELYRTGKKSHLRKTTEKKLPTAATIA 604
>2zxt_A Maltose-binding periplasmic protein, linker, MITO intermembrane
space import AND...; disulfide bond, alpha helix,
fusion, sugar transport; HET: MAL; 3.00A {Escherichia
coli}
Length = 465
Score = 23.6 bits (51), Expect = 7.3
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 47 FRKLADMYGEDPSDEEDE 64
FRK + Y E + D+
Sbjct: 441 FRKYPEHYAEQLKETSDD 458
>2j1d_G DAAM1, disheveled-associated activator of morphogenesis; actin
assembly, protein binding; 2.55A {Homo sapiens} PDB:
2z6e_A
Length = 483
Score = 23.7 bits (51), Expect = 8.3
Identities = 4/17 (23%), Positives = 7/17 (41%)
Query: 46 RFRKLADMYGEDPSDEE 62
F K +GE+ +
Sbjct: 357 LFTKAVKHFGEEAGKIQ 373
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
0.315 0.133 0.409
Gapped
Lambda K H
0.267 0.0649 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,146,188
Number of extensions: 52910
Number of successful extensions: 149
Number of sequences better than 10.0: 1
Number of HSP's gapped: 149
Number of HSP's successfully gapped: 23
Length of query: 75
Length of database: 6,701,793
Length adjustment: 44
Effective length of query: 31
Effective length of database: 5,473,269
Effective search space: 169671339
Effective search space used: 169671339
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: 42 (22.0 bits)
S2: 51 (23.6 bits)