RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1263
(115 letters)
>1w63_A Adapter-related protein complex 1 gamma 1 subunit; endocytosis,
clathrin adaptor, transport, coated PITS; 4.0A {Mus
musculus} SCOP: i.23.1.1
Length = 618
Score = 109 bits (274), Expect = 2e-29
Identities = 87/107 (81%), Positives = 98/107 (91%)
Query: 1 MCENSIDTLHHFKKIVPNLVRNLKNLILAGYSPEHDVSGVSDPFLQVKILKLLRILGKND 60
MCE S D L HF+K+VP LVR LKNLI++GYSPEHDVSG+SDPFLQV+IL+LLRILG+ND
Sbjct: 206 MCERSPDMLAHFRKLVPQLVRILKNLIMSGYSPEHDVSGISDPFLQVRILRLLRILGRND 265
Query: 61 VEASEAMNDILAQVATNTETSKNVGNTILYETVLSIMDIKSESGLRS 107
++SEAMNDILAQVATNTETSKNVGN ILYETVL+IMDIKSESGLR
Sbjct: 266 DDSSEAMNDILAQVATNTETSKNVGNAILYETVLTIMDIKSESGLRV 312
>2vgl_A Adaptor protein complex AP-2, alpha 2 subunit; cytoplasmic vesicle,
alternative splicing, endocytosis, lipid-binding, golgi
apparatus, adaptor, membrane, transport; HET: IHP; 2.59A
{Rattus norvegicus} PDB: 2xa7_A 2jkr_A 2jkt_A
Length = 621
Score = 77.3 bits (190), Expect = 4e-18
Identities = 23/118 (19%), Positives = 44/118 (37%), Gaps = 14/118 (11%)
Query: 1 MCENSIDTLHHFKKIVPNLVRNLKNLILAGYS--PEHDVSGVSDPFLQVKILKLLRILGK 58
+ + + + FK V V L ++ + + ++ V P+L VK+L+LL+
Sbjct: 214 LAQKNPE---EFKTSVSLAVSRLSRIVTSASTDLQDYTYYFVPAPWLSVKLLRLLQCYPP 270
Query: 59 NDVEA---------SEAMNDILAQVATNTETSKNVGNTILYETVLSIMDIKSESGLRS 107
+ A +N + N N +L+E + I+ SE L
Sbjct: 271 PEDPAVRGRLTECLETILNKAQEPPKSKKVQHSNAKNAVLFEAISLIIHHDSEPNLLV 328
>2vgl_B AP-2 complex subunit beta-1; cytoplasmic vesicle, alternative
splicing, endocytosis, lipid-binding, golgi apparatus,
adaptor, membrane, transport; HET: IHP; 2.59A {Homo
sapiens} SCOP: i.23.1.1 PDB: 2jkt_B 2jkr_B* 2xa7_B
1w63_B
Length = 591
Score = 51.7 bits (124), Expect = 4e-09
Identities = 10/82 (12%), Positives = 29/82 (35%)
Query: 22 NLKNLILAGYSPEHDVSGVSDPFLQVKILKLLRILGKNDVEASEAMNDILAQVATNTETS 81
NL +L + + Q+ IL L D ++++ + + ++ ++
Sbjct: 195 NLLDLNPQNINKLLTALNECTEWGQIFILDCLSNYNPKDDREAQSICERVTPRLSHANSA 254
Query: 82 KNVGNTILYETVLSIMDIKSES 103
+ + L ++ S+
Sbjct: 255 VVLSAVKVLMKFLELLPKDSDY 276
>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 = 32.5 bits (73), Expect = 0.022
Identities = 15/108 (13%), Positives = 31/108 (28%), Gaps = 24/108 (22%)
Query: 10 HHFKKIVPNLVRNL-KNL-----------ILAGYSPEHD-VSGVSDPFLQV-KILKLLRI 55
+ +K I+ N IL+ E D + D ++ L
Sbjct: 16 YQYKDILSVFEDAFVDNFDCKDVQDMPKSILS--KEEIDHIIMSKDAVSGTLRLFWTLLS 73
Query: 56 LGKNDVEASEAMNDILAQ------VATNTETSKNVGNTILYETVLSIM 97
+ V+ + + ++L TE + T +Y +
Sbjct: 74 KQEEMVQ--KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL 119
>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 = 26.9 bits (59), Expect = 1.8
Identities = 18/72 (25%), Positives = 27/72 (37%), Gaps = 13/72 (18%)
Query: 37 VSGVSDPFLQVKILKLLRILGKND-VEASEAMNDILAQVATNTETSKNV-GNTI-LYETV 93
+S ++ +Q + K L VE S L N + V G LY
Sbjct: 341 ISNLTQEQVQDYVNKTNSHLPAGKQVEIS------L----VNGAKNLVVSGPPQSLYGLN 390
Query: 94 LSIMDIKSESGL 105
L++ K+ SGL
Sbjct: 391 LTLRKAKAPSGL 402
>1e4e_A Vancomycin/teicoplanin A-type resistance protein; ligase, cell
WALL, antibiotic resistance, membrane, peptidog
synthesis; HET: ADP PHY; 2.5A {Enterococcus faecium}
SCOP: c.30.1.2 d.142.1.1 PDB: 1e4e_B*
Length = 343
Score = 26.0 bits (58), Expect = 3.1
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 26 LILAGYSPEHDVSGVS 41
++ G S EHDVS S
Sbjct: 8 ILFGGCSEEHDVSVKS 23
>2pvp_A D-alanine-D-alanine ligase; 2.40A {Helicobacter pylori}
Length = 367
Score = 25.7 bits (57), Expect = 4.1
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 30 GYSPEHDVSGVS 41
G S EH++S VS
Sbjct: 29 GASFEHEISIVS 40
>3se7_A VANA; alpha-beta structure, D-alanine-D-lactate ligase, ligase;
HET: ATP; 3.07A {}
Length = 346
Score = 25.6 bits (57), Expect = 4.2
Identities = 8/16 (50%), Positives = 10/16 (62%)
Query: 26 LILAGYSPEHDVSGVS 41
+I G S EHD+S S
Sbjct: 8 IIFGGVSEEHDISVKS 23
>3pfq_A PKC-B, PKC-beta, protein kinase C beta type; phosphorylation,
transferase; HET: TPO SEP ANP; 4.00A {Rattus norvegicus}
PDB: 1tbn_A 1tbo_A 2e73_A
Length = 674
Score = 25.4 bits (55), Expect = 5.6
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 47 VKILKLLRILGKNDVEASEAMNDILAQVA 75
VKILK ++ +DVE + +LA
Sbjct: 371 VKILKKDVVIQDDDVECTMVEKRVLALPG 399
>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay,
ribosomal protein,hydrolase; 9.50A {Saccharomyces
cerevisiae}
Length = 611
Score = 25.1 bits (55), Expect = 6.2
Identities = 6/40 (15%), Positives = 14/40 (35%), Gaps = 3/40 (7%)
Query: 19 LVRNLKNLILAGYSPEHDVSGVSDPFLQVKILKLLRILGK 58
++ +L G + P +I +L+ + K
Sbjct: 511 TTFDMNRPLLPGTPFILFIGVKEQP---ARIKRLISFIDK 547
>3i12_A D-alanine-D-alanine ligase A; D-alanyl-alanine synthetase A, ADP
binding protein, csgid, A binding, cell shape; HET:
ADP; 2.20A {Salmonella typhimurium} PDB: 3q1k_A*
Length = 364
Score = 24.9 bits (55), Expect = 7.3
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 26 LILAGYSPEHDVSGVS 41
++ G S EH+VS S
Sbjct: 8 IVFGGKSAEHEVSLQS 23
>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain,
beta-barrel, translational GTPase, D structural
genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*
Length = 483
Score = 24.9 bits (55), Expect = 7.4
Identities = 6/40 (15%), Positives = 14/40 (35%), Gaps = 3/40 (7%)
Query: 19 LVRNLKNLILAGYSPEHDVSGVSDPFLQVKILKLLRILGK 58
++ +L G + P +I +L+ + K
Sbjct: 377 TTFDMNRPLLPGTPFILFIGVKEQP---ARIKRLISFIDK 413
>2i7t_A Cleavage and polyadenylation specificity factor 73 kDa subunit;
metallo-B-lactamase, PRE-mRNA processing, artemis, V(D)J
recombination; 2.10A {Homo sapiens} SCOP: d.157.1.10
PDB: 2i7v_A
Length = 459
Score = 24.9 bits (55), Expect = 8.0
Identities = 8/26 (30%), Positives = 12/26 (46%), Gaps = 3/26 (11%)
Query: 9 LHHFKKIVPNLVRNLKNLILAGYSPE 34
F+ + RN +I+AGY E
Sbjct: 338 RELFESWCTD-KRNG--VIIAGYCVE 360
>3tqt_A D-alanine--D-alanine ligase; cell envelope; 1.88A {Coxiella
burnetii}
Length = 372
Score = 24.9 bits (55), Expect = 8.5
Identities = 6/12 (50%), Positives = 8/12 (66%)
Query: 30 GYSPEHDVSGVS 41
G S EH++S S
Sbjct: 13 GQSTEHEISIQS 24
>3c4z_A Rhodopsin kinase; Ser/Thr kinase, RGS homology domain, G protein
coupled recep kinase, GRK, GRK1, P-loop, autophosphoryl
ADP, ATP-binding; HET: ADP; 1.84A {Bos taurus} PDB:
3c4x_A* 3c4y_A 3c4w_A* 3c50_A* 3c51_A* 3qc9_A* 2i94_B
Length = 543
Score = 24.7 bits (54), Expect = 8.6
Identities = 7/28 (25%), Positives = 12/28 (42%)
Query: 47 VKILKLLRILGKNDVEASEAMNDILAQV 74
K L R+ + + + ILA+V
Sbjct: 215 CKKLNKKRLKKRKGYQGAMVEKKILAKV 242
>2acx_A G protein-coupled receptor kinase 6; GRK, G transferase; HET: ANP;
2.60A {Homo sapiens} PDB: 3nyn_A* 3nyo_A*
Length = 576
Score = 24.8 bits (54), Expect = 8.6
Identities = 7/28 (25%), Positives = 11/28 (39%)
Query: 47 VKILKLLRILGKNDVEASEAMNDILAQV 74
K L+ RI + + IL +V
Sbjct: 214 CKKLEKKRIKKRKGEAMALNEKQILEKV 241
>1ehi_A LMDDL2, D-alanine:D-lactate ligase; ATP-binding. grAsp motif for
ATP.; HET: ADP PHY; 2.38A {Leuconostoc mesenteroides}
SCOP: c.30.1.2 d.142.1.1
Length = 377
Score = 24.5 bits (54), Expect = 9.1
Identities = 10/16 (62%), Positives = 10/16 (62%)
Query: 26 LILAGYSPEHDVSGVS 41
LI G S EHDVS S
Sbjct: 8 LIFGGNSSEHDVSKRS 23
>4ejn_A RAC-alpha serine/threonine-protein kinase; AKT1, autoinhibition,
allosteric inhibitor, kinase inhibitor hydrophobic
collapase, ATPase; HET: 0R4; 2.19A {Homo sapiens} PDB:
3o96_A*
Length = 446
Score = 24.7 bits (54), Expect = 9.2
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 47 VKILKLLRILGKNDVEASEAMNDILAQV 74
+KILK I+ K++V + N +L
Sbjct: 178 MKILKKEVIVAKDEVAHTLTENRVLQNS 205
>2i87_A D-alanine-D-alanine ligase; APO; 2.00A {Staphylococcus aureus
subsp} PDB: 2i8c_A* 3n8d_A* 2i80_A*
Length = 364
Score = 24.5 bits (54), Expect = 9.7
Identities = 6/16 (37%), Positives = 11/16 (68%)
Query: 26 LILAGYSPEHDVSGVS 41
++ G S EH+VS ++
Sbjct: 8 IVFGGKSAEHEVSILT 23
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
0.317 0.133 0.361
Gapped
Lambda K H
0.267 0.0674 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,607,369
Number of extensions: 82627
Number of successful extensions: 167
Number of sequences better than 10.0: 1
Number of HSP's gapped: 166
Number of HSP's successfully gapped: 46
Length of query: 115
Length of database: 6,701,793
Length adjustment: 78
Effective length of query: 37
Effective length of database: 4,523,955
Effective search space: 167386335
Effective search space used: 167386335
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 (23.5 bits)