RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15696
(68 letters)
>2ije_S Guanine nucleotide-releasing protein; rasgrf1, CDC25 domain, RAS
guanine nucleotide releasing FACT specific nucleotide
exchange factor; 2.20A {Mus musculus}
Length = 240
Score = 70.0 bits (172), Expect = 7e-17
Identities = 19/49 (38%), Positives = 27/49 (55%)
Query: 20 LPNVSNGTIPYLGTFLTDLTMIDTAIPDTLPDGLINFDKKRKEFEVLAQ 68
L N +PYLG +LTDL I+ P+ DGL+NF K R ++ +
Sbjct: 146 LRNCDPPCVPYLGMYLTDLVFIEEGTPNYTEDGLVNFSKMRMISHIIRE 194
>3qxl_A RAS-specific guanine nucleotide-releasing factor; CDC25 domain
homology, guanine-nucleotide exchange factor, S GTPase
RAL subfamily; 2.24A {Homo sapiens}
Length = 271
Score = 64.7 bits (158), Expect = 1e-14
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 26 GTIPYLGTFLTDLTMIDTAIPDTLPDGLINFDKKRKEFEVLAQ 68
+IPYLG +L DL ID+A P + + N + + +L
Sbjct: 180 PSIPYLGIYLLDLIYIDSAYPAS-GSIMENEQRSNQMNNILRI 221
>3ksy_A SOS-1, SON of sevenless homolog 1; RAS, RAS activator, disease
mutation, guanine-nucleotide releasing factor, signaling
protein; 3.18A {Homo sapiens} PDB: 1xd4_A 1xdv_A 1q9c_A
Length = 1049
Score = 62.1 bits (150), Expect = 1e-13
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 20 LPNVSNGTIPYLGTFLTDLTMIDTAIPDTLP---DGLINFDKKRKEFEVLAQ 68
L +++ +P+ G +LT++ + P+ L LINF K+RK E+ +
Sbjct: 919 LRSINPPCVPFFGIYLTNILKTEEGNPEVLKRHGKELINFSKRRKVAEITGE 970
>2ii0_A SOS-1, SON of sevenless homolog 1; signaling protein; 2.02A {Homo
sapiens} SCOP: a.117.1.1 PDB: 1xd2_C* 1nvv_S* 1nvu_S*
1nvw_S* 1nvx_S* 1bkd_S
Length = 490
Score = 59.7 bits (144), Expect = 1e-12
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 20 LPNVSNGTIPYLGTFLTDLTMIDTAIPDTLP---DGLINFDKKRKEFEVLAQ 68
L +++ +P+ G +LT++ + P+ L LINF K+RK E+ +
Sbjct: 360 LRSINPPCVPFFGIYLTNILKTEEGNPEVLKRHGKELINFSKRRKVAEITGE 411
>2byv_E RAP guanine nucleotide exchange factor 4; EPAC2, CAMP-GEF2, CAMP,
cyclic nucleotide, regulation, auto-inhibition, CDC25
homology domain; 2.7A {Mus musculus}
Length = 999
Score = 55.6 bits (133), Expect = 3e-11
Identities = 10/49 (20%), Positives = 18/49 (36%), Gaps = 1/49 (2%)
Query: 20 LPNVSNGTIPYLGTFLTDLTMIDTAIPDTLPDGLINFDKKRKEFEVLAQ 68
+ IP++ + D+T + D L+NF+K R
Sbjct: 901 AAKLEPPLIPFMPLLIKDMTFTHEGNKTFI-DNLVNFEKMRMIANTART 948
>3cf6_E RAP guanine nucleotide exchange factor (GEF) 4; EPAC, rapgef4,
CAMP, SP-camps, GEF, gunanine nucleotide exchange
factor, G-protein, GTP-binding, nucleotide-binding; HET:
SP1; 2.20A {Mus musculus}
Length = 694
Score = 54.8 bits (131), Expect = 5e-11
Identities = 10/49 (20%), Positives = 18/49 (36%), Gaps = 1/49 (2%)
Query: 20 LPNVSNGTIPYLGTFLTDLTMIDTAIPDTLPDGLINFDKKRKEFEVLAQ 68
+ IP++ + D+T + D L+NF+K R
Sbjct: 596 AAKLEPPLIPFMPLLIKDMTFTHEGNKTFI-DNLVNFEKMRMIANTART 643
>3t6a_A Breast cancer anti-estrogen resistance protein 3; CDC25-homology
domain, GTPase exchange factor, signaling Pro; HET: POG;
2.40A {Homo sapiens}
Length = 333
Score = 30.9 bits (69), Expect = 0.019
Identities = 7/43 (16%), Positives = 18/43 (41%), Gaps = 5/43 (11%)
Query: 24 SNGTIPYLGTFLTDLTMIDTAIPDTLPDGLINFDKKRKEFEVL 66
+N ++P L +T + +G ++K + E++
Sbjct: 203 NNVSVPLLMPLVTLMERQAVTF-----EGTDMWEKNDQSCEIM 240
>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 = 0.75
Identities = 16/58 (27%), Positives = 21/58 (36%), Gaps = 10/58 (17%)
Query: 12 CRDVKLHDLPNVSNGTIPYLGTFLTDLTMIDTAIPDTL--PDGL--INFDKKRKEFEV 65
D + DLP T P L++I +I D L D +N DK E
Sbjct: 310 YLDCRPQDLPREVLTTNPRR------LSIIAESIRDGLATWDNWKHVNCDKLTTIIES 361
Score = 24.0 bits (51), Expect = 5.1
Identities = 14/85 (16%), Positives = 22/85 (25%), Gaps = 23/85 (27%)
Query: 5 VIAYG-----------SVCRDVKLHDLP-------NVSNGTIP-----YLGTFLTDLTMI 41
V+ G VC K+ N+ N P L L +
Sbjct: 153 VLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPN 212
Query: 42 DTAIPDTLPDGLINFDKKRKEFEVL 66
T+ D + + + E L
Sbjct: 213 WTSRSDHSSNIKLRIHSIQAELRRL 237
>3rim_A Transketolase, TK; TPP, transferase; HET: TPP; 2.49A {Mycobacterium
tuberculosis}
Length = 700
Score = 25.2 bits (56), Expect = 1.7
Identities = 6/11 (54%), Positives = 6/11 (54%)
Query: 26 GTIPYLGTFLT 36
T Y GTFL
Sbjct: 456 PTRAYGGTFLQ 466
>1itz_A Transketolase; calvin cycle, cofactor, thiamine pyrophosphate,
plant, transferase; HET: TPP; 2.30A {Zea mays} SCOP:
c.36.1.6 c.36.1.10 c.48.1.1
Length = 675
Score = 25.1 bits (56), Expect = 1.8
Identities = 8/20 (40%), Positives = 9/20 (45%), Gaps = 5/20 (25%)
Query: 17 LHDLPNVSNGTIPYLGTFLT 36
LH S G +PY TF
Sbjct: 435 LH-----SPGFVPYCATFFV 449
>2e6k_A Transketolase; structural genomics, NPPSFA, national project
protein structural and functional analyses; 2.09A
{Thermus thermophilus}
Length = 651
Score = 25.1 bits (56), Expect = 1.9
Identities = 6/11 (54%), Positives = 6/11 (54%)
Query: 26 GTIPYLGTFLT 36
G Y GTFL
Sbjct: 421 GYRAYGGTFLV 431
>3m49_A Transketolase; alpha-beta-alpha sandwich, csgid, transferase,
structural genomics, center for structural genomics of
infectious diseases; HET: MSE TDP PG5 TRS BTB; 2.00A
{Bacillus anthracis} PDB: 3hyl_A*
Length = 690
Score = 24.8 bits (55), Expect = 2.2
Identities = 5/11 (45%), Positives = 5/11 (45%)
Query: 26 GTIPYLGTFLT 36
G Y GTF
Sbjct: 451 GLKTYGGTFFV 461
>3mos_A Transketolase, TK; thiamin diphosphate TPP THDP enzyme catalysis
sugar metaboli transferase; HET: TPP; 1.75A {Homo
sapiens} PDB: 3ooy_A*
Length = 616
Score = 24.8 bits (55), Expect = 2.3
Identities = 4/11 (36%), Positives = 6/11 (54%)
Query: 26 GTIPYLGTFLT 36
T+P+ TF
Sbjct: 379 RTVPFCSTFAA 389
>2r8o_A Transketolase 1, TK 1; reaction intermediate, calcium,
metal-binding, thiamine pyrophosphate, transferase; HET:
T5X; 1.47A {Escherichia coli K12} SCOP: c.36.1.6
c.36.1.10 c.48.1.1 PDB: 2r5n_A* 2r8p_A* 1qgd_A*
Length = 669
Score = 24.7 bits (55), Expect = 2.9
Identities = 6/11 (54%), Positives = 7/11 (63%)
Query: 26 GTIPYLGTFLT 36
G +PY TFL
Sbjct: 426 GFLPYTSTFLM 436
>1r9j_A Transketolase; domains, EACH of the alpha/beta type, thiamine
diphosphate binding domain, transferase; HET: TPP; 2.22A
{Leishmania mexicana mexicana} SCOP: c.36.1.6 c.36.1.10
c.48.1.1
Length = 673
Score = 24.4 bits (54), Expect = 3.3
Identities = 7/11 (63%), Positives = 8/11 (72%)
Query: 26 GTIPYLGTFLT 36
G IP+ GTFL
Sbjct: 426 GIIPFGGTFLN 436
>3uk1_A Transketolase; structural genomics, seattle structural genomics
center for infectious disease, ssgcid, thiamine
pyrophosphate; 2.15A {Burkholderia thailandensis} PDB:
3upt_A*
Length = 711
Score = 24.4 bits (54), Expect = 3.4
Identities = 7/11 (63%), Positives = 8/11 (72%)
Query: 26 GTIPYLGTFLT 36
G P+ GTFLT
Sbjct: 472 GYKPFGGTFLT 482
>3l84_A Transketolase; TKT, structural genomics, center for structur
genomics of infectious diseases, csgid, transferase;
HET: MSE; 1.36A {Campylobacter jejuni} PDB: 3m6l_A*
3m34_A* 3m7i_A*
Length = 632
Score = 24.3 bits (54), Expect = 3.6
Identities = 3/11 (27%), Positives = 5/11 (45%)
Query: 26 GTIPYLGTFLT 36
+P+ TF
Sbjct: 406 IFLPFSATFFI 416
>3kom_A Transketolase; rossmann fold, csgid, transferase, structural
genomics, center for structural genomics of infectious
DISE; HET: MSE; 1.60A {Francisella tularensis subsp}
Length = 663
Score = 24.4 bits (54), Expect = 3.6
Identities = 7/11 (63%), Positives = 7/11 (63%)
Query: 26 GTIPYLGTFLT 36
G PY GTFL
Sbjct: 427 GIKPYGGTFLV 437
>3ru6_A Orotidine 5'-phosphate decarboxylase; structural genomics, center
for structural genomics of infec diseases (csgid),
TIM-barrel; 1.80A {Campylobacter jejuni subsp}
Length = 303
Score = 23.8 bits (52), Expect = 5.1
Identities = 6/9 (66%), Positives = 8/9 (88%)
Query: 14 DVKLHDLPN 22
D+K HD+PN
Sbjct: 82 DLKFHDIPN 90
>3tfx_A Orotidine 5'-phosphate decarboxylase; PSI-biology, nysgrc,
000529, structural genomics, NEW YORK S genomics
research consortium; 2.19A {Lactobacillus acidophilus}
Length = 259
Score = 23.7 bits (52), Expect = 5.5
Identities = 6/9 (66%), Positives = 9/9 (100%)
Query: 14 DVKLHDLPN 22
D+K+HD+PN
Sbjct: 62 DLKMHDIPN 70
>2yyu_A Orotidine 5'-phosphate decarboxylase; TIM barrel, structural
genomics, NPPSFA, national project on structural and
functional analyses; HET: C5P; 2.20A {Geobacillus
kaustophilus} PDB: 2yyt_A*
Length = 246
Score = 23.7 bits (52), Expect = 6.4
Identities = 7/9 (77%), Positives = 9/9 (100%)
Query: 14 DVKLHDLPN 22
D+KLHD+PN
Sbjct: 61 DLKLHDIPN 69
>1dbt_A Orotidine 5'-phosphate decarboxylase; UMP, TIM barrel, lyase;
HET: U5P; 2.40A {Bacillus subtilis} SCOP: c.1.2.3
Length = 239
Score = 23.3 bits (51), Expect = 6.6
Identities = 6/9 (66%), Positives = 8/9 (88%)
Query: 14 DVKLHDLPN 22
D+KLHD+P
Sbjct: 60 DLKLHDIPT 68
>3ldv_A Orotidine 5'-phosphate decarboxylase; structural genomics,
infectious diseases; 1.77A {Vibrio cholerae o1 biovar
el tor} PDB: 3uwq_A*
Length = 255
Score = 23.3 bits (51), Expect = 6.7
Identities = 6/9 (66%), Positives = 8/9 (88%)
Query: 14 DVKLHDLPN 22
D+K HD+PN
Sbjct: 84 DLKFHDIPN 92
>1eix_A Orotidine 5'-monophosphate decarboxylase; alpha-beta-barrel,
protein-inhibitor complex, homodimer, lyase; HET: BMQ;
2.50A {Escherichia coli} SCOP: c.1.2.3 PDB: 1jjk_A*
1l2u_A
Length = 245
Score = 23.3 bits (51), Expect = 6.9
Identities = 6/9 (66%), Positives = 8/9 (88%)
Query: 14 DVKLHDLPN 22
D+K HD+PN
Sbjct: 71 DLKFHDIPN 79
>3tr2_A Orotidine 5'-phosphate decarboxylase; purines, pyrimidines,
nucleosides, nucleotides, lyase; 2.00A {Coxiella
burnetii}
Length = 239
Score = 23.3 bits (51), Expect = 7.0
Identities = 4/9 (44%), Positives = 7/9 (77%)
Query: 14 DVKLHDLPN 22
D+K +D+P
Sbjct: 65 DLKFYDIPQ 73
>1vqt_A Orotidine 5'-phosphate decarboxylase; TM0332, structural GEN
joint center for structural genomics, JCSG, protein
structu initiative, PSI; 2.00A {Thermotoga maritima}
SCOP: c.1.2.3
Length = 213
Score = 23.3 bits (51), Expect = 7.8
Identities = 4/9 (44%), Positives = 7/9 (77%)
Query: 14 DVKLHDLPN 22
D+K D+P+
Sbjct: 64 DLKFCDIPS 72
>2x5n_A SPRPN10, 26S proteasome regulatory subunit RPN10; nuclear protein,
nucleus, ubiquitin; 1.30A {Schizosaccharomyces pombe}
Length = 192
Score = 23.4 bits (50), Expect = 8.1
Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 7/44 (15%)
Query: 4 DVIAYGSVCRDVKLHDLPNVSNG-------TIPYLGTFLTDLTM 40
D+I G + + L + +N +IP L+DL
Sbjct: 139 DIIHIGELQNESALQHFIDAANSSDSCHLVSIPPSPQLLSDLVN 182
>3m47_A Orotidine 5'-phosphate decarboxylase; orotidine 5'-monophosphate
decarboxylase, mutant I218A, LYAS; 1.20A
{Methanothermobacter thermautotrophicusdelta H} PDB:
3li1_A 3m5z_A 3lty_A 3ltp_A* 3g18_A* 3g1d_A* 3g1f_A*
3g1h_A* 3g1a_A* 3lv6_A* 1klz_A* 3g1y_A 3g22_A* 3g24_A*
3p5z_A* 3siz_A* 3sy5_A* 1loq_A* 1lor_A* 1kly_A* ...
Length = 228
Score = 23.4 bits (51), Expect = 8.4
Identities = 4/15 (26%), Positives = 7/15 (46%)
Query: 14 DVKLHDLPNVSNGTI 28
D K+ D+P +
Sbjct: 70 DFKVADIPETNEKIC 84
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
0.321 0.142 0.420
Gapped
Lambda K H
0.267 0.0815 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,097,012
Number of extensions: 50493
Number of successful extensions: 108
Number of sequences better than 10.0: 1
Number of HSP's gapped: 102
Number of HSP's successfully gapped: 30
Length of query: 68
Length of database: 6,701,793
Length adjustment: 38
Effective length of query: 30
Effective length of database: 5,640,795
Effective search space: 169223850
Effective search space used: 169223850
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (23.3 bits)