RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4919
(96 letters)
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins,
transcription-activato; 2.27A {Mus musculus}
Length = 387
Score = 68.1 bits (166), Expect = 3e-15
Identities = 46/107 (42%), Positives = 59/107 (55%), Gaps = 18/107 (16%)
Query: 8 TGNTSTDGTYKPSFLTDQELKHLILEAADGFLFVVACDTGRV------VVTGLGLPCSD- 60
N T+ YKP+FL+D ELKHLIL AADGFLFVV CD G++ V L +D
Sbjct: 68 ATNPYTEANYKPTFLSDDELKHLILRAADGFLFVVGCDRGKILFVSESVFKILNYSQNDL 127
Query: 61 ---SV-------DIEKVREQLSTQEPQNAGRILDLKTG-TVKKEGHQ 96
S+ DI KV+EQLS+ + R++D KTG VK +
Sbjct: 128 IGQSLFDYLHPKDIAKVKEQLSSSDTAPRERLIDAKTGLPVKTDITP 174
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS,
circadian rhythm proteins, transcription-activato; 2.27A
{Mus musculus}
Length = 361
Score = 56.9 bits (137), Expect = 3e-11
Identities = 24/94 (25%), Positives = 44/94 (46%), Gaps = 18/94 (19%)
Query: 2 RESQERTGNTSTDGTYKPSFLTDQELKHLILEAADGFLFVVACDTGRV------VVTGLG 55
+E+ ++ + +KP+FL+++E L+LEA DGF + D G + V + L
Sbjct: 62 KETTAQSDASEIRQDWKPTFLSNEEFTQLMLEALDGFFLAIMTD-GSIIYVSESVTSLLE 120
Query: 56 LPCSD----SV-------DIEKVREQLSTQEPQN 78
SD S+ + +V + LST ++
Sbjct: 121 HLPSDLVDQSIFNFIPEGEHSEVYKILSTHLLES 154
>3gdi_A Period circadian protein homolog 2; tandem PAS domains,
biological rhythms, cytoplasm, nucleus, phosphoprotein,
transcription; 2.40A {Mus musculus}
Length = 309
Score = 55.8 bits (134), Expect = 7e-11
Identities = 9/79 (11%), Positives = 21/79 (26%), Gaps = 21/79 (26%)
Query: 19 PSFLT----DQELKHLILEAADGFLFVVACDTGRV------VVTGLGLPCSD----SV-- 62
S + + I++ AD F V+ +G++ V +
Sbjct: 4 GSSYSMEQVEGITSEYIVKNADMFAVAVSLVSGKILYISNQVASIFHCKKDAFSDAKFVE 63
Query: 63 -----DIEKVREQLSTQEP 76
D+ + +
Sbjct: 64 FLAPHDVSVFHSYTTPYKL 82
>4dj2_A Period circadian protein homolog 1; PAS domains, circadian clock
protein, protein binding; 2.75A {Mus musculus}
Length = 320
Score = 52.7 bits (126), Expect = 1e-09
Identities = 20/99 (20%), Positives = 29/99 (29%), Gaps = 27/99 (27%)
Query: 19 PSFLTDQELKHLI----LEAADGFLFVVACDTGRVV-----VTG-LGLPCSD----SV-- 62
S T +EL+H+ L D F V+ TGR+V L
Sbjct: 15 MSTYTLEELEHITSEYTLRNQDTFSVAVSFLTGRIVYISEQAGVLLRCKRDVFRGARFSE 74
Query: 63 -----DIEKVREQLSTQEPQNAGRILDLKTGTVKKEGHQ 96
D+ + R+ TGT G +
Sbjct: 75 LLAPQDVGVFYGSTTP------SRLPTWGTGTSAGSGLK 107
>4dj3_A Period circadian protein homolog 3; PAS domain, circadian rhythm,
protein binding; 2.50A {Mus musculus}
Length = 317
Score = 43.9 bits (103), Expect = 1e-06
Identities = 9/76 (11%), Positives = 19/76 (25%), Gaps = 21/76 (27%)
Query: 19 PSFLTDQELKHL----ILEAADGFLFVVACDTGRV------VVTGLGLPCSD-------- 60
+ + ++L L + D F V + +GR+ L
Sbjct: 15 VTVYSLEDLTALASEHTSKNTDTFAAVFSFLSGRLVHISEQAALILNSKRGFLKSVHFVD 74
Query: 61 ---SVDIEKVREQLST 73
D+ +
Sbjct: 75 LLAPQDVRAFYAHTAP 90
>3rty_A Period circadian protein; PAS domain, signalling, timeless,
circadian clock protein; 2.85A {Drosophila
melanogaster} PDB: 1wa9_A 3gec_A
Length = 339
Score = 36.9 bits (85), Expect = 3e-04
Identities = 12/60 (20%), Positives = 17/60 (28%), Gaps = 17/60 (28%)
Query: 35 ADGFLFVVACDTGRV------VVTGLGLPCSD-----------SVDIEKVREQLSTQEPQ 77
D F V++ G V + LG P D Q++T P
Sbjct: 2 EDSFCCVISMHDGIVLYTTPSITDVLGYPRDMWLGRSFIDFVHLKDRATFASQITTGIPI 61
>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 = 28.5 bits (63), Expect = 0.33
Identities = 10/73 (13%), Positives = 28/73 (38%), Gaps = 22/73 (30%)
Query: 22 LTDQELKHL---ILEAADGFLFVVA--CDTGRVVVTG--------------LGLPCSDSV 62
+ + L+++ + + + +V + + V G + L +
Sbjct: 1821 FSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQ---KI 1877
Query: 63 DIEKVREQLSTQE 75
DI ++++ LS +E
Sbjct: 1878 DIIELQKSLSLEE 1890
>1geq_A Tryptophan synthase alpha-subunit; hyperthermophIle, pyrococ
furiosus, X-RAY analysis, stability, calorimetry, lyase;
2.00A {Pyrococcus furiosus} SCOP: c.1.2.4 PDB: 1wdw_A*
2dzu_A 2dzp_A 2e09_A 2dzw_A 2dzs_A 2dzv_A 2dzt_A 2dzx_A
Length = 248
Score = 27.9 bits (63), Expect = 0.43
Identities = 9/50 (18%), Positives = 19/50 (38%), Gaps = 6/50 (12%)
Query: 23 TDQELKHLILEAADGFLFVVACDTGRVVVTGLGLPCSDSVD--IEKVREQ 70
T E +I + GF+++V+ G TG + + + +
Sbjct: 144 TPDERLKVIDDMTTGFVYLVSL-YG---TTGAREEIPKTAYDLLRRAKRI 189
>1qop_A Tryptophan synthase alpha chain; lyase, carbon-oxygen lyase,
tryptophan biosynthesis, pyridoxal phosphate; HET: IPL
PLP; 1.4A {Salmonella typhimurium} SCOP: c.1.2.4 PDB:
1k8x_A* 1wbj_A* 2clk_A* 2j9z_A* 3cep_A* 1k8y_A* 1a5s_A*
1a50_A* 1c29_A* 1c8v_A* 1c9d_A* 1bks_A* 1cx9_A* 1fuy_A*
1cw2_A* 1k7e_A* 1k7f_A* 1k7x_A* 1k3u_A* 1k8z_A* ...
Length = 268
Score = 27.9 bits (63), Expect = 0.45
Identities = 11/50 (22%), Positives = 23/50 (46%), Gaps = 6/50 (12%)
Query: 23 TDQELKHLILEAADGFLFVVACDTGRVVVTGLGLPCSDSVD--IEKVREQ 70
D +L + G+ ++++ +G VTG + + IEK++E
Sbjct: 158 ADDDLLRQVASYGRGYTYLLSR-SG---VTGAENRGALPLHHLIEKLKEY 203
>2xhz_A KDSD, YRBH, arabinose 5-phosphate isomerase; lipopolysaccharide
biogenesis; 2.60A {Escherichia coli}
Length = 183
Score = 27.5 bits (62), Expect = 0.54
Identities = 9/21 (42%), Positives = 13/21 (61%), Gaps = 5/21 (23%)
Query: 40 FVVACD-----TGRVVVTGLG 55
F +AC+ G+VVV G+G
Sbjct: 38 FTLACEKMFWCKGKVVVMGMG 58
>3nav_A Tryptophan synthase alpha chain; alpha subunit, structural
genomics, CSG center for structural genomics of
infectious diseases; 2.10A {Vibrio cholerae o1 biovar el
tor}
Length = 271
Score = 27.5 bits (62), Expect = 0.54
Identities = 8/50 (16%), Positives = 21/50 (42%), Gaps = 6/50 (12%)
Query: 23 TDQELKHLILEAADGFLFVVACDTGRVVVTGLGLPCSDSVD--IEKVREQ 70
E + + G+ ++++ G VTG + V +E++++
Sbjct: 161 ASDETLRAVAQLGKGYTYLLSR-AG---VTGAETKANMPVHALLERLQQF 206
>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 = 0.70
Identities = 13/94 (13%), Positives = 28/94 (29%), Gaps = 17/94 (18%)
Query: 14 DGTYKPSF----LTDQELKHLILEAADGFL---FVVACDTGRVVVTGLGLPCSDSV---- 62
D Y S L + E + FL F+ ++ S S+
Sbjct: 470 DQ-YFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQ----KIRHDSTAWNASGSILNTL 524
Query: 63 -DIEKVREQLSTQEPQNAGRILDLKTGTVKKEGH 95
++ + + +P+ + + K E +
Sbjct: 525 QQLKFYKPYICDNDPKYERLVNAILDFLPKIEEN 558
Score = 26.7 bits (58), Expect = 1.2
Identities = 9/37 (24%), Positives = 15/37 (40%), Gaps = 6/37 (16%)
Query: 20 SFLTDQELKHLILEAADG-----FLFVVACDTGRVVV 51
S L+ +E+ H I+ + D LF +V
Sbjct: 44 SILSKEEIDH-IIMSKDAVSGTLRLFWTLLSKQEEMV 79
>2ix4_A 3-oxoacyl-[acyl-carrier-protein] synthase; beta-ketoacyl-(acyl
carrier protein) synthase, lipid metabol condensing
enzyme; 1.95A {Arabidopsis thaliana} SCOP: c.95.1.1
c.95.1.1 PDB: 1w0i_A
Length = 431
Score = 27.2 bits (61), Expect = 0.82
Identities = 8/9 (88%), Positives = 9/9 (100%)
Query: 48 RVVVTGLGL 56
RVVVTGLG+
Sbjct: 2 RVVVTGLGM 10
>3te4_A GH12636P, dopamine N acetyltransferase, isoform A; dopamine/acetyl
COA, N-acetyltransferase domain; HET: ACO; 1.46A
{Drosophila melanogaster}
Length = 215
Score = 27.0 bits (59), Expect = 0.97
Identities = 10/63 (15%), Positives = 20/63 (31%), Gaps = 1/63 (1%)
Query: 24 DQELKHLILEA-ADGFLFVVACDTGRVVVTGLGLPCSDSVDIEKVREQLSTQEPQNAGRI 82
+EL+ L+ D + G ++ L + + + E +I
Sbjct: 43 CKELEKYSLKPLPDNCSYKAVNKKGEIIGVFLNGLMRRPSPDDVPEKAADSCEHPKFKKI 102
Query: 83 LDL 85
L L
Sbjct: 103 LSL 105
>3tha_A Tryptophan synthase alpha chain; structural genomics, center for
structural genomics of infec diseases, csgid, lyase;
2.37A {Campylobacter jejuni}
Length = 252
Score = 26.8 bits (60), Expect = 1.00
Identities = 10/50 (20%), Positives = 24/50 (48%), Gaps = 6/50 (12%)
Query: 23 TDQELKHLILEAADGFLFVVACDTGRVVVTGLGLPCSDSVD--IEKVREQ 70
T +E +++ A GF++++A G +TG + ++++R
Sbjct: 152 TPKERVKKLVKHAKGFIYLLAS-IG---ITGTKSVEEAILQDKVKEIRSF 197
>2iwz_A 3-oxoacyl-[acyl-carrier-protein] synthase; mitochondria,
mitochondrion, lipid synthesis, fatty acid SYN fatty
acid biosynthesis; 1.65A {Homo sapiens} PDB: 2iwy_A
2c9h_A
Length = 438
Score = 26.7 bits (60), Expect = 1.0
Identities = 7/9 (77%), Positives = 9/9 (100%)
Query: 48 RVVVTGLGL 56
RVV+TG+GL
Sbjct: 22 RVVITGIGL 30
>3kzu_A 3-oxoacyl-(acyl-carrier-protein) synthase II; seattle structural
genomics center for infectious disease, ssgcid,
acyltransferase; 1.75A {Brucella melitensis} PDB:
3e60_A
Length = 428
Score = 26.7 bits (60), Expect = 1.1
Identities = 8/9 (88%), Positives = 9/9 (100%)
Query: 48 RVVVTGLGL 56
RVV+TGLGL
Sbjct: 11 RVVITGLGL 19
>4ddo_A 3-oxoacyl-[acyl-carrier-protein] synthase 2; ssgcid, struct
genomics, seattle structural genomics center for
infectious transferase; 1.90A {Burkholderia
vietnamiensis} PDB: 4f32_A*
Length = 451
Score = 26.8 bits (60), Expect = 1.1
Identities = 7/9 (77%), Positives = 9/9 (100%)
Query: 48 RVVVTGLGL 56
RVVVTG+G+
Sbjct: 25 RVVVTGIGI 33
>1rd5_A Tryptophan synthase alpha chain, chloroplast; hydroxamic acid,
diboa, dimboa, indole, indole-glycerol-PHOS lyase; 2.02A
{Zea mays} SCOP: c.1.2.4 PDB: 1tjr_A
Length = 262
Score = 26.4 bits (59), Expect = 1.3
Identities = 12/50 (24%), Positives = 27/50 (54%), Gaps = 6/50 (12%)
Query: 23 TDQELKHLILEAADGFLFVVACDTGRVVVTGLGLPCSDSVD--IEKVREQ 70
++ I +A++GF+++V+ G VTG + V+ I++V++
Sbjct: 154 IPEDRMKEITKASEGFVYLVSV-NG---VTGPRANVNPRVESLIQEVKKV 199
>3ho9_A 3-oxoacyl-[acyl-carrier-protein] synthase 2; FABF, platensimycin,
platencin A1, KAS2, acyltransferase, fatty acid
biosynthesis; HET: N3A; 1.90A {Escherichia coli} PDB:
3hnz_A* 3ho2_A* 3i8p_A* 3g11_A* 2gfx_A* 3g0y_A* 2gfv_A*
2gfw_A 2gfy_A* 1kas_A 1b3n_A
Length = 427
Score = 26.7 bits (60), Expect = 1.3
Identities = 8/9 (88%), Positives = 9/9 (100%)
Query: 48 RVVVTGLGL 56
RVVVTGLG+
Sbjct: 19 RVVVTGLGM 27
>1j3n_A 3-oxoacyl-(acyl-carrier protein) synthase II; condensing enzymes,
fatty acid elongation, acyl-carrier protein (ACP); HET:
CIT; 2.00A {Thermus thermophilus} SCOP: c.95.1.1
c.95.1.1
Length = 408
Score = 26.7 bits (60), Expect = 1.3
Identities = 8/9 (88%), Positives = 8/9 (88%)
Query: 48 RVVVTGLGL 56
RVVVTGLG
Sbjct: 3 RVVVTGLGA 11
>3fxa_A SIS domain protein; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; HET: MSE; 1.60A {Listeria monocytogenes str}
Length = 201
Score = 26.4 bits (59), Expect = 1.3
Identities = 7/21 (33%), Positives = 10/21 (47%), Gaps = 5/21 (23%)
Query: 40 FVVACD-----TGRVVVTGLG 55
V + TG++VV G G
Sbjct: 34 LVKTVEKIAECTGKIVVAGCG 54
>2vba_A 3-oxoacyl-[acyl-carrier-protein] synthase 1; cytoplasm,
antibiotic, transferase, amino-thiazole,
acyltransferase, lipid synthesis; HET: P4T; 1.36A
{Escherichia coli} SCOP: c.95.1.1 c.95.1.1 PDB: 1fj4_A*
1g5x_A 2aq7_A* 1fj8_A* 2aqb_A 2bui_A 2buh_A 2vb7_A*
2vb8_A 2vb9_A* 1h4f_A 1dd8_A 2cdh_A 2bz4_A 2byz_A
2bz3_A* 2byy_A* 1f91_A* 2cf2_A 2byw_A ...
Length = 406
Score = 26.7 bits (60), Expect = 1.4
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 48 RVVVTGLGLPCSDSVDIEKVREQL 71
R V+TGLG+ S + ++V L
Sbjct: 3 RAVITGLGIVSSIGNNQQEVLASL 26
>2gqd_A 3-oxoacyl-[acyl-carrier-protein] synthase 2; duplicated babababb
fold, transferase; 2.30A {Staphylococcus aureus}
Length = 437
Score = 26.4 bits (59), Expect = 1.4
Identities = 6/9 (66%), Positives = 8/9 (88%)
Query: 48 RVVVTGLGL 56
RVV+TG+G
Sbjct: 29 RVVITGMGA 37
>1e5m_A KAS II, beta ketoacyl acyl carrier protein synthase II;
condensing enzyme, biosynthetic role, carbon-carbon
bond formation; 1.54A {Synechocystis SP} SCOP: c.95.1.1
c.95.1.1
Length = 416
Score = 26.3 bits (59), Expect = 1.4
Identities = 8/9 (88%), Positives = 8/9 (88%)
Query: 48 RVVVTGLGL 56
RVVVTGLG
Sbjct: 8 RVVVTGLGA 16
>3o04_A LMO2201 protein, beta-keto-acyl carrier protein synthase II;
csgid, structural genomics; 1.85A {Listeria
monocytogenes}
Length = 413
Score = 26.3 bits (59), Expect = 1.4
Identities = 7/9 (77%), Positives = 8/9 (88%)
Query: 48 RVVVTGLGL 56
RVVVTG+G
Sbjct: 5 RVVVTGIGA 13
>1tqy_B Actinorhodin polyketide putative beta-ketoacyl SY;
alpha-beta-alpha-beta-alpha, heterodimer, transferase;
2.00A {Streptomyces coelicolor} SCOP: c.95.1.1 c.95.1.1
Length = 415
Score = 26.3 bits (59), Expect = 1.5
Identities = 4/9 (44%), Positives = 8/9 (88%)
Query: 48 RVVVTGLGL 56
V++TG+G+
Sbjct: 10 SVLITGVGV 18
>4ewg_A Beta-ketoacyl synthase; ssgcid, structural genomics, seattle
structural genomics CEN infectious disease,
transferase; 2.25A {Burkholderia phymatum}
Length = 412
Score = 26.3 bits (59), Expect = 1.5
Identities = 6/9 (66%), Positives = 8/9 (88%)
Query: 48 RVVVTGLGL 56
RVV+TG+G
Sbjct: 7 RVVITGMGG 15
>2gp6_A 3-oxoacyl-[acyl-carrier-protein] synthase 2; thiolase fold,
structural genomics, PSI, protein structure initiative;
2.40A {Mycobacterium tuberculosis}
Length = 434
Score = 26.3 bits (59), Expect = 1.5
Identities = 5/9 (55%), Positives = 7/9 (77%)
Query: 48 RVVVTGLGL 56
VVVTG+ +
Sbjct: 29 YVVVTGIAM 37
>1ox0_A Beta ketoacyl-acyl carrier protein synthase; transferase; 1.30A
{Streptococcus pneumoniae} SCOP: c.95.1.1 c.95.1.1 PDB:
1oxh_A 2alm_A 2rjt_A
Length = 430
Score = 26.3 bits (59), Expect = 1.6
Identities = 7/9 (77%), Positives = 8/9 (88%)
Query: 48 RVVVTGLGL 56
RVVVTG G+
Sbjct: 24 RVVVTGYGV 32
>3mqd_A Beta-ketoacyl synthase; ssgcid, ALS collaborative
crystallography, beta-ketoacyl SYN brucella melitensis,
fragments of LIFE; HET: 3MQ; 1.25A {Brucella melitensis
biovar abortus} PDB: 3lrf_A* 3u0e_A* 3u0f_A*
Length = 428
Score = 26.3 bits (59), Expect = 1.6
Identities = 7/9 (77%), Positives = 9/9 (100%)
Query: 48 RVVVTGLGL 56
RVVVTG+G+
Sbjct: 24 RVVVTGMGI 32
>2wge_A 3-oxoacyl-[acyl-carrier-protein] synthase 1; beta ketoacyl
synthase I thiolactomycin, cytoplasm, transferase,
acyltransferase; HET: TLM; 1.80A {Mycobacterium
tuberculosis} PDB: 2wgd_A* 2wgg_A* 2wgf_A*
Length = 416
Score = 26.3 bits (59), Expect = 1.7
Identities = 4/9 (44%), Positives = 5/9 (55%)
Query: 48 RVVVTGLGL 56
VVVT +
Sbjct: 13 SVVVTAVTA 21
>2cia_A Cytoplasmic protein NCK2; SH2-domain, SH3 domain,
phosphorylation, binding specificity; HET: PTR MPD;
1.45A {Homo sapiens} PDB: 1z3k_A 2ci9_A* 2ci8_A*
Length = 102
Score = 25.6 bits (57), Expect = 1.8
Identities = 7/40 (17%), Positives = 15/40 (37%), Gaps = 6/40 (15%)
Query: 2 RESQERTGNTSTDGTYKPSFLTDQELKHLILEAADGFLFV 41
R+S+ S+ + S + KH ++ D +
Sbjct: 33 RDSE------SSPSDFSVSLKASGKNKHFKVQLVDNVYCI 66
>1tqy_A Beta-ketoacyl synthase/acyl transferase;
alpha-beta-alpha-beta-alpha, heterodimer, transferase;
2.00A {Streptomyces coelicolor} SCOP: c.95.1.1 c.95.1.1
Length = 424
Score = 25.9 bits (58), Expect = 2.3
Identities = 6/9 (66%), Positives = 9/9 (100%)
Query: 48 RVVVTGLGL 56
RVV+TG+G+
Sbjct: 4 RVVITGVGV 12
>3hj4_A Minor editosome-associated tutase; nucleotidyltransferase, RNA
UTP-binding, transferase; 1.56A {Trypanosoma brucei}
PDB: 3hiy_A 3hj1_A*
Length = 384
Score = 25.8 bits (56), Expect = 2.5
Identities = 8/38 (21%), Positives = 12/38 (31%), Gaps = 3/38 (7%)
Query: 51 VTGLGLPCSD---SVDIEKVREQLSTQEPQNAGRILDL 85
V+G P SD S+ L E + +
Sbjct: 55 VSGFCTPHSDADISLTYRNFSPWLQGMERVDEQNNKRM 92
>3ld2_A SMU.2055, putative acetyltransferase; HET: COA; 2.50A
{Streptococcus mutans}
Length = 197
Score = 25.6 bits (56), Expect = 2.8
Identities = 8/41 (19%), Positives = 14/41 (34%)
Query: 10 NTSTDGTYKPSFLTDQELKHLILEAADGFLFVVACDTGRVV 50
N + P L +I + F+VA ++V
Sbjct: 53 NKTWSEQNTPVPLPVASKDQIIQKFESNTHFLVAKIKDKIV 93
>3etn_A Putative phosphosugar isomerase involved in capsu formation;
YP_209877.1; HET: MSE CMK; 1.70A {Bacteroides fragilis
nctc 9343}
Length = 220
Score = 25.3 bits (56), Expect = 3.4
Identities = 5/34 (14%), Positives = 16/34 (47%)
Query: 22 LTDQELKHLILEAADGFLFVVACDTGRVVVTGLG 55
+ + + +A + + + G++V +G+G
Sbjct: 35 VLNIPVTDAYEKAVELIVEQIHRKKGKLVTSGMG 68
>2cy2_A TTHA1209, probable acetyltransferase; structural genomics,
unknown function, NPPSFA; HET: ACO; 2.00A {Thermus
thermophilus} SCOP: d.108.1.1 PDB: 1wk4_A*
Length = 174
Score = 25.1 bits (55), Expect = 4.4
Identities = 12/48 (25%), Positives = 18/48 (37%), Gaps = 14/48 (29%)
Query: 16 TYKPSFLTDQELKHLILEA-------------ADGFLFVVACDTGRVV 50
TY+ + + L+ L E G LFV ++G VV
Sbjct: 25 TYRG-VVPEAFLEGLSYEGQAERWAQRLKTPTWPGRLFVAESESGEVV 71
>2kk6_A Proto-oncogene tyrosine-protein kinase FER; methods development,
SH2, NESG, ATP-binding, cytoplasm, nucleotide-binding,
nucleus, phosphoprotein; NMR {Homo sapiens}
Length = 116
Score = 24.6 bits (54), Expect = 4.5
Identities = 10/40 (25%), Positives = 15/40 (37%), Gaps = 6/40 (15%)
Query: 2 RESQERTGNTSTDGTYKPSFLTDQELKHLILEAADGFLFV 41
RES G Y S +D + +H I++ D
Sbjct: 42 RESH------GKPGEYVLSVYSDGQRRHFIIQYVDNMYRF 75
>2iug_A Phosphatidylinositol 3-kinase regulatory alpha subunit;
transferase, polymorphism, UBL conjugation,
phosphorylation, SH2, PI3K, SH2 domain; 1.89A {Homo
sapiens} PDB: 2iuh_A* 2iui_A* 1fu5_A* 1fu6_A 1oo3_A
1oo4_A* 2pna_A 2pnb_A
Length = 120
Score = 24.6 bits (54), Expect = 4.8
Identities = 7/40 (17%), Positives = 12/40 (30%), Gaps = 5/40 (12%)
Query: 2 RESQERTGNTSTDGTYKPSFLTDQELKHLILEAADGFLFV 41
R++ T G Y + K + + DG
Sbjct: 38 RDAS-----TKMHGDYTLTLRKGGNNKLIKIFHRDGKYGF 72
>1z4e_A Transcriptional regulator; nysgxrc target T2017, GNAT fold,
structural genomics, PSI, P structure initiative; 2.00A
{Bacillus halodurans} SCOP: d.108.1.1
Length = 153
Score = 24.7 bits (54), Expect = 4.9
Identities = 11/65 (16%), Positives = 17/65 (26%), Gaps = 7/65 (10%)
Query: 11 TSTDGTYKPSFLTDQELKHLILEAADGFLFVVACDTGRVV-------VTGLGLPCSDSVD 63
Y+ ++ +VAC+ +V L S
Sbjct: 28 GRKRERYEKPLPVSYVRAFKEIKKDKNNELIVACNGEEIVGMLQVTFTPYLTYQGSWRAT 87
Query: 64 IEKVR 68
IE VR
Sbjct: 88 IEGVR 92
>2gsb_A RAS GTPase-activating protein 1; GAP, RAS P21 protein activator,
P120GAP, rasgap, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 119
Score = 24.6 bits (54), Expect = 5.6
Identities = 8/41 (19%), Positives = 16/41 (39%), Gaps = 6/41 (14%)
Query: 2 RESQERTGNTSTDGTYKPSFLTDQELKHLILEAADGFLFVV 42
R S +T G Y F T++ ++ + F++
Sbjct: 44 RPSD------NTPGDYSLYFRTNENIQRFKICPTPNNQFMM 78
>3tkz_A Tyrosine-protein phosphatase non-receptor type 11; SH2 domain,
protein protein interactions, PTR residues, HYDR
peptide complex; HET: PTR; 1.80A {Homo sapiens} PDB:
3tl0_A* 1aya_A* 1ayb_A* 1ayc_A* 1ayd_A
Length = 109
Score = 24.2 bits (53), Expect = 6.0
Identities = 6/40 (15%), Positives = 15/40 (37%), Gaps = 6/40 (15%)
Query: 2 RESQERTGNTSTDGTYKPSFLTDQELKHLILEAADGFLFV 41
R S+ S G + S + + H+ ++ + +
Sbjct: 35 RPSK------SNPGDFTLSVRRNGAVTHIKIQNTGDYYDL 68
>1mil_A SHC adaptor protein; SH2 domain, phosphorylation, collagen,
growth regulation, transforming protein, alternative
initiation; 2.70A {Homo sapiens} SCOP: d.93.1.1 PDB:
1tce_A*
Length = 104
Score = 24.1 bits (53), Expect = 6.1
Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 6/40 (15%)
Query: 2 RESQERTGNTSTDGTYKPSFLTDQELKHLILEAADGFLFV 41
RES +T G Y + L + KHL+L +G +
Sbjct: 32 REST------TTPGQYVLTGLQSGQPKHLLLVDPEGVVRT 65
>3hhm_B NISH2 P85alpha; PI3KCA, PI3K, PIK3R1, phosphatidilynositol 3,4,5-
triphosphate, wortmannin, H1047R, ATP-binding, disease
mutation, kinase; HET: KWT; 2.80A {Homo sapiens} PDB:
3hiz_B 2rd0_B 4a55_B* 3mtt_A
Length = 373
Score = 24.8 bits (53), Expect = 6.6
Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 8/41 (19%)
Query: 2 RESQERTGNTSTDGTYKPSFLTDQELKH-LILEAADGFLFV 41
RES S G Y S + D E+KH +I + A G+ F
Sbjct: 328 RES-------SKQGCYACSVVVDGEVKHCVINKTATGYGFA 361
>3hnr_A Probable methyltransferase BT9727_4108; structural genomics,
PSI-2, protein structure initiative; 2.80A {Bacillus
thuringiensis serovarkonkukian}
Length = 220
Score = 24.4 bits (53), Expect = 6.8
Identities = 5/25 (20%), Positives = 10/25 (40%)
Query: 65 EKVREQLSTQEPQNAGRILDLKTGT 89
+ L ++ G +L+ GT
Sbjct: 32 AHYEDILEDVVNKSFGNVLEFGVGT 56
>2crh_A VAV proto-oncogene; oncoprotein, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens} PDB: 2ror_A* 2lct_A*
Length = 138
Score = 24.3 bits (53), Expect = 6.9
Identities = 7/40 (17%), Positives = 15/40 (37%), Gaps = 6/40 (15%)
Query: 2 RESQERTGNTSTDGTYKPSFLTDQELKHLILEAADGFLFV 41
R+ + S + E+KH+ + A+G +
Sbjct: 53 RQR------VKDAAEFAISIKYNVEVKHIKIMTAEGLYRI 86
>2hdv_A SH2-B PH domain containing signaling mediator 1 gamma isoform;
adapter protein, signaling protein; 2.00A {Mus
musculus} PDB: 2hdx_A* 1rpy_A 1rqq_C*
Length = 111
Score = 23.8 bits (52), Expect = 9.4
Identities = 10/41 (24%), Positives = 16/41 (39%), Gaps = 7/41 (17%)
Query: 2 RESQERTGNTSTDGTYKPSFLTDQELKHL-ILEAADGFLFV 41
R+S+ + G +F + KHL + A G V
Sbjct: 39 RQSE------TRRGECVLTFNFQGKAKHLRLSLNAAGQCRV 73
>1vkc_A Putative acetyl transferase; structural genomics, pyrococcus
furiosus southeast collaboratory for structural
genomics, secsg; 1.89A {Pyrococcus furiosus} SCOP:
d.108.1.1
Length = 158
Score = 23.9 bits (52), Expect = 9.4
Identities = 6/37 (16%), Positives = 14/37 (37%)
Query: 14 DGTYKPSFLTDQELKHLILEAADGFLFVVACDTGRVV 50
+Y+ +EL +L + FV + ++
Sbjct: 38 PISYEEYEERHEELFESLLSQGEHKFFVALNERSELL 74
>1kap_P Alkaline protease; calcium binding protein, zinc metalloprotease;
1.64A {Pseudomonas aeruginosa} SCOP: b.80.7.1 d.92.1.6
PDB: 1jiw_P 1akl_A
Length = 479
Score = 24.2 bits (51), Expect = 9.4
Identities = 7/26 (26%), Positives = 13/26 (50%), Gaps = 2/26 (7%)
Query: 6 ERTGNTSTDGTYKPSFLTDQELKHLI 31
R G+ +G PS+ DQ + ++
Sbjct: 26 ARGGDELVNG--HPSYTVDQAAEQIL 49
>2b3t_A Protein methyltransferase HEMK; translation termination,
methylation, conformational changes; HET: SAH; 3.10A
{Escherichia coli} SCOP: c.66.1.30 PDB: 1t43_A*
Length = 276
Score = 24.0 bits (53), Expect = 9.7
Identities = 11/26 (42%), Positives = 15/26 (57%), Gaps = 4/26 (15%)
Query: 64 IEKVREQLSTQEPQNAGRILDLKTGT 89
+E+ +L P+ RILDL TGT
Sbjct: 99 VEQALARL----PEQPCRILDLGTGT 120
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
0.313 0.132 0.371
Gapped
Lambda K H
0.267 0.0557 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,422,325
Number of extensions: 76267
Number of successful extensions: 257
Number of sequences better than 10.0: 1
Number of HSP's gapped: 257
Number of HSP's successfully gapped: 60
Length of query: 96
Length of database: 6,701,793
Length adjustment: 62
Effective length of query: 34
Effective length of database: 4,970,691
Effective search space: 169003494
Effective search space used: 169003494
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 (23.8 bits)