RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5779
(83 letters)
>1xcg_A PDZ-rhogef, RHO guanine nucleotide exchange factor 11; X-RAY
crystallography, regulation of RHOA GTPase, protein
complex; 2.50A {Homo sapiens} SCOP: a.87.1.1 b.55.1.1
PDB: 3kz1_A*
Length = 368
Score = 76.4 bits (188), Expect = 2e-18
Identities = 18/83 (21%), Positives = 39/83 (46%), Gaps = 2/83 (2%)
Query: 1 TLDAGERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTA 60
L E QE EL +EAS+ ++L VL+ F + N++ + + LF N+
Sbjct: 14 GLTQREIDRQEVINELFVTEASHLRTLRVLDLIFYQR--MKKENLMPREELARLFPNLPE 71
Query: 61 VRKCSERLLAALEQCWQDSILLQ 83
+ + A+++ ++ +++
Sbjct: 72 LIEIHNSWCEAMKKLREEGPIIK 94
>3odw_A RHO guanine nucleotide exchange factor 1; regulation of RHOA
GTPase, rhogef, DH, PH, signaling PR; 3.20A {Homo
sapiens} PDB: 3odx_A
Length = 536
Score = 76.3 bits (187), Expect = 3e-18
Identities = 17/79 (21%), Positives = 36/79 (45%), Gaps = 2/79 (2%)
Query: 1 TLDAGERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTA 60
+L + K QE EL+ +EA++ + L VL F + + + +++F ++
Sbjct: 173 SLPKSQVKRQEVISELLVTEAAHVRMLRVLHDLFFQP--MAECLFFPLEELQNIFPSLDE 230
Query: 61 VRKCSERLLAALEQCWQDS 79
+ + L L + Q+S
Sbjct: 231 LIEVHSLFLDRLMKRRQES 249
>3t06_A PDZ-rhogef, RHO guanine nucleotide exchange factor 11; DH-PH RHOA
complex, pdzrhogef, guanine nucleotide exchange F RHOA,
signaling protein; 2.84A {Homo sapiens}
Length = 418
Score = 75.3 bits (185), Expect = 5e-18
Identities = 18/83 (21%), Positives = 39/83 (46%), Gaps = 2/83 (2%)
Query: 1 TLDAGERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTA 60
L E QE EL +EAS+ ++L VL+ F + N++ + + LF N+
Sbjct: 56 GLTQREIDRQEVINELFVTEASHLRTLRVLDLIFYQR--MKKENLMPREELARLFPNLPE 113
Query: 61 VRKCSERLLAALEQCWQDSILLQ 83
+ + A+++ ++ +++
Sbjct: 114 LIEIHNSWCEAMKKLREEGPIIK 136
>3p6a_A RHO guanine nucleotide exchange factor 1; regulation of RHOA
GTPase, rhogef, DH, PH, signaling PR; 2.50A {Homo
sapiens} PDB: 3odo_A
Length = 377
Score = 73.8 bits (181), Expect = 2e-17
Identities = 17/79 (21%), Positives = 36/79 (45%), Gaps = 2/79 (2%)
Query: 1 TLDAGERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTA 60
+L + K QE EL+ +EA++ + L VL F + + + +++F ++
Sbjct: 20 SLPKSQVKRQEVISELLVTEAAHVRMLRVLHDLFFQP--MAECLFFPLEELQNIFPSLDE 77
Query: 61 VRKCSERLLAALEQCWQDS 79
+ + L L + Q+S
Sbjct: 78 LIEVHSLFLDRLMKRRQES 96
>1txd_A RHO guanine nucleotide exchange factor 12; helical bundle (DH),
beta sandwich (PH), signaling protein; 2.13A {Homo
sapiens} SCOP: a.87.1.1 b.55.1.1 PDB: 1x86_A
Length = 385
Score = 72.6 bits (178), Expect = 5e-17
Identities = 18/79 (22%), Positives = 37/79 (46%), Gaps = 2/79 (2%)
Query: 1 TLDAGERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTA 60
L E K QE EL +E ++ ++L VL++ F + ILS ++ + +F N+
Sbjct: 17 GLKPCEIKRQEVINELFYTERAHVRTLKVLDQVFYQR--VSREGILSPSELRKIFSNLED 74
Query: 61 VRKCSERLLAALEQCWQDS 79
+ + L ++ + +
Sbjct: 75 ILQLHIGLNEQMKAVRKRN 93
>3jzy_A Intersectin 2; C2 domain, structural genomics consortium (SGC),
endocytosis; 1.56A {Homo sapiens} PDB: 3qbv_B* 1ki1_B
Length = 510
Score = 70.8 bits (173), Expect = 2e-16
Identities = 19/79 (24%), Positives = 34/79 (43%), Gaps = 2/79 (2%)
Query: 1 TLDAGERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTA 60
T+ ERK Q ELI +E Y L ++ + F + + L++ + +F N
Sbjct: 20 TMQPIERKRQGYIHELIQTEERYMADLQLVVEVFQKR--MAESGFLTEGEMALIFVNWKE 77
Query: 61 VRKCSERLLAALEQCWQDS 79
+ + +LL AL +
Sbjct: 78 LIMSNTKLLKALRVRKKTG 96
>3jv3_A Intersectin-1; SH3 domain, DH domain, guanine nucleotide exchange
factor, autoinhibition, domain-swapped, cell junction,
cell project endocytosis; 2.40A {Mus musculus} PDB:
3gf9_A
Length = 283
Score = 67.9 bits (166), Expect = 2e-15
Identities = 22/79 (27%), Positives = 37/79 (46%), Gaps = 2/79 (2%)
Query: 1 TLDAGERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTA 60
L ERK Q ELI +E +Y L ++ + F L + +L++ + +F N
Sbjct: 75 MLTPTERKRQGYIHELIVTEENYVNDLQLVTEIFQKP--LTESELLTEKEVAMIFVNWKE 132
Query: 61 VRKCSERLLAALEQCWQDS 79
+ C+ +LL AL + S
Sbjct: 133 LIMCNIKLLKALRVRKKMS 151
>2z0q_A XPLN, RHO guanine nucleotide exchange factor 3; DH-PH domain,
alternative splicing, cytoplasm, guanine- nucleotide
releasing factor; 1.79A {Mus musculus} PDB: 3eo2_A
Length = 346
Score = 67.9 bits (166), Expect = 2e-15
Identities = 20/83 (24%), Positives = 38/83 (45%), Gaps = 2/83 (2%)
Query: 1 TLDAGERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTA 60
L A E K QEA FEL E + L + +K + + ++I+++ + +FG + +
Sbjct: 12 VLTAKEIKRQEAIFELSQGEEDLIEDLKLAKKAYHDP--MLKLSIMTEQELNQIFGTLDS 69
Query: 61 VRKCSERLLAALEQCWQDSILLQ 83
+ E LL+ L + +
Sbjct: 70 LIPLHEELLSQLRDVRKPDGSTE 92
>2pz1_A RHO guanine nucleotide exchange factor 4; helical bundle, beta
barrel, beta sandwich, signaling protei; 2.25A {Homo
sapiens} PDB: 2dx1_A 3nmz_D 3nmx_D
Length = 466
Score = 57.3 bits (138), Expect = 1e-11
Identities = 14/79 (17%), Positives = 36/79 (45%), Gaps = 1/79 (1%)
Query: 1 TLDAGERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTA 60
+ ++ E++++E Y K L + + ++ ++ S+ + +FGN+
Sbjct: 111 AQSSKDQMRTNVINEILSTERDYIKHLRDICEGYVR-QCRKRADMFSEEQLRTIFGNIED 169
Query: 61 VRKCSERLLAALEQCWQDS 79
+ +C + + ALEQ +
Sbjct: 170 IYRCQKAFVKALEQRFNRE 188
>2dfk_A Collybistin II; DH domain, PH domain, cell cycle; 2.15A {Rattus
norvegicus} SCOP: a.87.1.1 b.55.1.1
Length = 402
Score = 56.8 bits (137), Expect = 2e-11
Identities = 13/78 (16%), Positives = 33/78 (42%), Gaps = 1/78 (1%)
Query: 2 LDAGERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTAV 61
L ++ E++++E Y K L + + ++ ++ S K +FGN+ +
Sbjct: 35 LQNRDQMRANVINEIMSTERHYIKHLKDICEGYLK-QCRKRRDMFSDEQLKVIFGNIEDI 93
Query: 62 RKCSERLLAALEQCWQDS 79
+ + LE+ + +
Sbjct: 94 YRFQMGFVRDLEKQYNND 111
>1foe_A T-lymphoma invasion and metastasis inducing protein 1; DBL
homology domain, pleckstrin homology domain, GTPase,
guanine nucleotide exchange factor; 2.80A {Mus
musculus} SCOP: a.87.1.1 b.55.1.1
Length = 377
Score = 51.9 bits (124), Expect = 1e-09
Identities = 20/78 (25%), Positives = 37/78 (47%), Gaps = 2/78 (2%)
Query: 6 ERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTAVRKCS 65
KL++ EL+ +E +Y K L L + ++ L L++++ LFGN+T + +
Sbjct: 9 ADKLRKVICELLETERTYVKDLNCLMERYLKP--LQKETFLTQDELDVLFGNLTEMVEFQ 66
Query: 66 ERLLAALEQCWQDSILLQ 83
L LE + L+
Sbjct: 67 VEFLKTLEDGVRLVPDLE 84
>1dbh_A Protein (human SOS 1); guanine nucleotide exchange factor, gene
regulation; 2.30A {Homo sapiens} SCOP: a.87.1.1
b.55.1.1 PDB: 1pms_A 1awe_A
Length = 354
Score = 51.1 bits (122), Expect = 2e-09
Identities = 14/70 (20%), Positives = 31/70 (44%), Gaps = 1/70 (1%)
Query: 6 ERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTAVRKCS 65
E+ + + Y + L ++ K F P + + + S ND +++F + + + S
Sbjct: 1 EQTYYDLVKAFMAEIRQYIRELNLIIKVFR-EPFVSNSKLFSANDVENIFSRIVDIHELS 59
Query: 66 ERLLAALEQC 75
+LL +E
Sbjct: 60 VKLLGHIEDT 69
>1by1_A Protein (PIX); RHO-GTPase exchange factor, transport protein; NMR
{Homo sapiens} SCOP: a.87.1.1
Length = 209
Score = 48.8 bits (117), Expect = 8e-09
Identities = 16/83 (19%), Positives = 32/83 (38%), Gaps = 2/83 (2%)
Query: 1 TLDAGERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTA 60
T + ++ +E Y K L + ++ L LS + +L GN+
Sbjct: 6 TTAINKSYYNVVLQNILETENEYSKELQTVLSTYLRP--LQTSEKLSSANISYLMGNLEE 63
Query: 61 VRKCSERLLAALEQCWQDSILLQ 83
+ + L+ +LE+C + Q
Sbjct: 64 ICSFQQMLVQSLEECTKLPEAQQ 86
>3mpx_A FYVE, rhogef and PH domain-containing protein 5; structural
genomics consortium, DH domain, SGC, L binding protein;
2.80A {Homo sapiens}
Length = 434
Score = 49.2 bits (117), Expect = 9e-09
Identities = 14/83 (16%), Positives = 32/83 (38%), Gaps = 7/83 (8%)
Query: 3 DAGERKLQEAKFELITSEASYFKSLTVLEKHFIA-------SPLLDDVNILSKNDRKHLF 55
G+ + EL++SE +Y + L L F + + L++ + +
Sbjct: 17 QGGQSRALVIAQELLSSEKAYVEMLQHLNLDFHGAVMRALDDMDHEGRDTLAREELRQGL 76
Query: 56 GNVTAVRKCSERLLAALEQCWQD 78
+ A+ + +L LE+ +
Sbjct: 77 SELPAIHDLHQGILEELEERLSN 99
>3ky9_A Proto-oncogene VAV; calponin homology domain, DBL homology domain,
pleckst homology domain, C1 domain, guanine-nucleotide
releasing FA metal-binding; 2.73A {Homo sapiens} PDB:
2d86_A
Length = 587
Score = 47.0 bits (111), Expect = 6e-08
Identities = 14/74 (18%), Positives = 29/74 (39%), Gaps = 4/74 (5%)
Query: 6 ERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTAVRKCS 65
K E+ +E Y +L +++HF+ PL L D + +F N+ + +
Sbjct: 195 YDKRCCCLREIQQTEEKYTDTLGSIQQHFLK-PLQ---RFLKPQDIEIIFINIEDLLRVH 250
Query: 66 ERLLAALEQCWQDS 79
L +++
Sbjct: 251 THFLKEMKEALGTP 264
>2vrw_B P95VAV, VAV1, proto-oncogene VAV; lipoprotein, GTP-binding,
metal-binding, phosphoprotein, exchange factor, RAC,
GTPase, membrane domain; 1.85A {Mus musculus} PDB:
3bji_A 1f5x_A
Length = 406
Score = 46.8 bits (111), Expect = 7e-08
Identities = 15/74 (20%), Positives = 27/74 (36%), Gaps = 4/74 (5%)
Query: 6 ERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTAVRKCS 65
K E+ +E Y +L +++HF+ PL L D + +F N+ +
Sbjct: 23 YDKRCCCLREIQQTEEKYTDTLGSIQQHFMK-PLQ---RFLKPQDMETIFVNIEELFSVH 78
Query: 66 ERLLAALEQCWQDS 79
L L+
Sbjct: 79 THFLKELKDALAGP 92
>2rgn_B RHOA/RAC/CDC42 exchange factor; heterotrimeric G-protein, small
molecular weight G-protein, complex, protein-protein
complex, rhogef, galphaq; HET: GDP; 3.50A {Homo
sapiens}
Length = 354
Score = 41.0 bits (96), Expect = 8e-06
Identities = 14/73 (19%), Positives = 31/73 (42%), Gaps = 1/73 (1%)
Query: 7 RKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTAVRKCSE 66
+ EL+ +E Y L + + ++A+ V + + +FGN+ + +
Sbjct: 11 ERSMYVLSELVETEKMYVDDLGQIVEGYMATMAAQGVPESLRGRDRIVFGNIQQIYEWHR 70
Query: 67 R-LLAALEQCWQD 78
L L++C +D
Sbjct: 71 DYFLQELQRCLKD 83
>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 = 38.2 bits (88), Expect = 7e-05
Identities = 15/71 (21%), Positives = 32/71 (45%), Gaps = 1/71 (1%)
Query: 5 GERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTAVRKC 64
GE+ + + Y + L ++ K F P + + + S ND +++F + + +
Sbjct: 197 GEQTYYDLVKAFMAEIRQYIRELNLIIKVFRE-PFVSNSKLFSANDVENIFSRIVDIHEL 255
Query: 65 SERLLAALEQC 75
S +LL +E
Sbjct: 256 SVKLLGHIEDT 266
>1nty_A Triple functional domain protein; DBL, pleckstrin, GEF, RHO,
GTPase, guanine-nucleotide releas factor,
phosphorylation, signaling protein; 1.70A {Homo
sapiens} SCOP: a.87.1.1 b.55.1.1 PDB: 2nz8_B 2kr9_A
Length = 311
Score = 37.5 bits (87), Expect = 1e-04
Identities = 16/78 (20%), Positives = 31/78 (39%), Gaps = 5/78 (6%)
Query: 5 GERKLQEAKFELITSEASYFKSLTVLEKHFIASPLLDDVNILS---KNDRKHLFGNVTAV 61
R+ + ELI +E +Y + L ++ + V + N +FGN+ +
Sbjct: 6 SARRKEFIMAELIQTEKAYVRDLRECMDTYLW-EMTSGVEEIPPGIVNKELIIFGNMQEI 64
Query: 62 RK-CSERLLAALEQCWQD 78
+ + L LE+ Q
Sbjct: 65 YEFHNNIFLKELEKYEQL 82
>1kz7_A Guanine nucleotide exchange factor DBS; guanine nucleotide
exchange factor (GEF), small G-protein, signaling
protein; 2.40A {Mus musculus} SCOP: a.87.1.1 b.55.1.1
PDB: 1lb1_A 1kzg_A 1rj2_A
Length = 353
Score = 35.3 bits (81), Expect = 7e-04
Identities = 15/78 (19%), Positives = 31/78 (39%), Gaps = 5/78 (6%)
Query: 6 ERKLQEAKFELITSEASYFKSLTVLEKHFIA----SPLLDDVNILSKNDRKHLFGNVTAV 61
+ EL+ +E +Y + L + + + A + ++ +N + LFGN+ +
Sbjct: 9 AILRRHVMNELLDTERAYVEELLCVLEGYAAEMDNPLMAHLISTGLQNKKNILFGNMEEI 68
Query: 62 RKC-SERLLAALEQCWQD 78
+ L LE C
Sbjct: 69 YHFHNRIFLRELESCIDC 86
>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 = 32.1 bits (72), Expect = 0.011
Identities = 19/66 (28%), Positives = 28/66 (42%), Gaps = 6/66 (9%)
Query: 14 FELITSEASYFKSLTVLEKHFIASPLLDDV-----NILSKNDRKHLFGNVTAVRKCSERL 68
FE + Y L+V E F+ + DV +ILSK + H+ + AV + RL
Sbjct: 9 FETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSG-TLRL 67
Query: 69 LAALEQ 74
L
Sbjct: 68 FWTLLS 73
Score = 24.8 bits (53), Expect = 4.3
Identities = 9/58 (15%), Positives = 13/58 (22%), Gaps = 31/58 (53%)
Query: 23 YFKSLTVLEKHFIASPLLDDVNILSKNDRKHLFGNVTAVRKCSERLLAALEQCWQDSI 80
F L+V +I LL+ + W D I
Sbjct: 374 MFDRLSVFP---------PSAHI-------------------PTILLSLI---WFDVI 400
>2vaw_A FTSZ, cell division protein FTSZ; bacterial cell division protein,
tubulin homolog, nucleotide-binding, GTPase, septation,
cytoplasm; HET: GDP; 2.90A {Pseudomonas aeruginosa}
SCOP: c.32.1.1 d.79.2.1
Length = 394
Score = 26.9 bits (60), Expect = 0.70
Identities = 7/11 (63%), Positives = 10/11 (90%)
Query: 35 IASPLLDDVNI 45
I +PLL+DVN+
Sbjct: 245 IRNPLLEDVNL 255
>1ofu_A FTSZ, cell division protein FTSZ; bacterial cell division
inhibitor, SULA protein; HET: GDP; 2.1A {Pseudomonas
aeruginosa} SCOP: c.32.1.1 d.79.2.1
Length = 320
Score = 26.7 bits (60), Expect = 0.81
Identities = 7/11 (63%), Positives = 10/11 (90%)
Query: 35 IASPLLDDVNI 45
I +PLL+DVN+
Sbjct: 245 IRNPLLEDVNL 255
>2r75_1 Cell division protein FTSZ; GTPase, tubulin-like, inhibitor, cell
cycle; HET: 01G; 1.40A {Aquifex aeolicus} PDB: 2r6r_1*
Length = 338
Score = 26.4 bits (59), Expect = 1.0
Identities = 5/11 (45%), Positives = 7/11 (63%)
Query: 35 IASPLLDDVNI 45
+ SPLL+ I
Sbjct: 241 VTSPLLEGNTI 251
>1rv3_A Serine hydroxymethyltransferase, cytosolic; one-carbon
metabolism; HET: GLY PLP; 2.40A {Oryctolagus cuniculus}
SCOP: c.67.1.4 PDB: 1rv4_A* 1rvu_A* 1rvy_A* 1ls3_A*
1cj0_A* 1bj4_A* 1eji_A*
Length = 483
Score = 25.3 bits (56), Expect = 2.5
Identities = 12/26 (46%), Positives = 12/26 (46%), Gaps = 2/26 (7%)
Query: 6 ERKLQEAKFELITSEASYFKSLTVLE 31
E Q ELI SE F S VLE
Sbjct: 39 ESNRQRVGLELIASEN--FASRAVLE 62
>3h7f_A Serine hydroxymethyltransferase 1; cytoplasm, one-carbon
metabolism, pyridoxal phosphate, structural genomics;
HET: LLP; 1.50A {Mycobacterium tuberculosis}
Length = 447
Score = 25.3 bits (56), Expect = 2.7
Identities = 10/28 (35%), Positives = 12/28 (42%), Gaps = 2/28 (7%)
Query: 4 AGERKLQEAKFELITSEASYFKSLTVLE 31
A E Q E+I SE F VL+
Sbjct: 38 AKELGRQRDTLEMIASEN--FVPRAVLQ 63
>2vi8_A Serine hydroxymethyltransferase; SHMT, E53Q, FTHF, enzyme memory,
pyridoxal phosphate, one-carbon metabolism,
PLP-dependent enzymes; HET: PLP; 1.67A {Bacillus
stearothermophilus} PDB: 2vi9_A* 2via_A* 2vib_A*
1kkj_A* 1kkp_A* 1kl1_A* 1kl2_A* 1yjs_A* 2w7f_A* 2w7d_A*
2w7e_A* 2w7g_A* 2w7h_A* 1yjz_A* 1yjy_A* 2vgu_A* 2vgs_A*
2vgt_A* 2vgv_A* 2vgw_A* ...
Length = 405
Score = 25.2 bits (56), Expect = 2.8
Identities = 15/28 (53%), Positives = 16/28 (57%), Gaps = 2/28 (7%)
Query: 4 AGERKLQEAKFELITSEASYFKSLTVLE 31
ERK Q AK ELI SE F S V+E
Sbjct: 16 EQERKRQHAKIELIASEN--FVSRAVME 41
>2dkj_A Serine hydroxymethyltransferase; PLP dependent enzyme, structural
genomics; HET: PLP; 1.15A {Thermus thermophilus}
Length = 407
Score = 25.2 bits (56), Expect = 2.8
Identities = 13/28 (46%), Positives = 13/28 (46%), Gaps = 2/28 (7%)
Query: 4 AGERKLQEAKFELITSEASYFKSLTVLE 31
A E K Q ELI SE F S V E
Sbjct: 16 ALEEKRQREGLELIASEN--FVSKQVRE 41
>2a7v_A Serine hydroxymethyltransferase; structural genomics, structural
genomics consortium, SGC; 2.04A {Homo sapiens} SCOP:
c.67.1.4 PDB: 3ou5_A
Length = 490
Score = 25.0 bits (55), Expect = 3.0
Identities = 11/26 (42%), Positives = 12/26 (46%), Gaps = 2/26 (7%)
Query: 6 ERKLQEAKFELITSEASYFKSLTVLE 31
E+ Q ELI SE F S LE
Sbjct: 49 EKDRQCRGLELIASEN--FCSRAALE 72
>3ecd_A Serine hydroxymethyltransferase 2; ssgcid, decode, bupsa00008A,
one-carbon metabolism, pyridoxa phosphate, structural
genomics; 1.60A {Burkholderia pseudomallei}
Length = 425
Score = 24.9 bits (55), Expect = 3.1
Identities = 10/28 (35%), Positives = 15/28 (53%), Gaps = 2/28 (7%)
Query: 4 AGERKLQEAKFELITSEASYFKSLTVLE 31
E + Q+++ ELI SE S VL+
Sbjct: 25 LKELERQQSQVELIASEN--IVSRAVLD 50
>3n0l_A Serine hydroxymethyltransferase; alpha beta class, 3-layer(ABA)
sandwich, CSGI transferase, structural genomics; HET:
MSE; 1.80A {Campylobacter jejuni}
Length = 417
Score = 24.9 bits (55), Expect = 3.4
Identities = 9/28 (32%), Positives = 12/28 (42%), Gaps = 2/28 (7%)
Query: 4 AGERKLQEAKFELITSEASYFKSLTVLE 31
E + Q E+I SE F V+E
Sbjct: 18 NKELERQCEGLEMIASEN--FTLPEVME 43
>3gbx_A Serine hydroxymethyltransferase; structural genomics, IDP01011,
serine hydroxymethyltransfera salmonella typhimurium.;
HET: MSE; 1.80A {Salmonella typhimurium} PDB: 1dfo_A*
3g8m_A* 1eqb_A*
Length = 420
Score = 24.9 bits (55), Expect = 3.7
Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 2/28 (7%)
Query: 4 AGERKLQEAKFELITSEASYFKSLTVLE 31
E+ QE ELI SE + S V++
Sbjct: 23 EQEKVRQEEHIELIASEN--YTSPRVMQ 48
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
0.319 0.133 0.374
Gapped
Lambda K H
0.267 0.0593 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,177,210
Number of extensions: 56396
Number of successful extensions: 138
Number of sequences better than 10.0: 1
Number of HSP's gapped: 122
Number of HSP's successfully gapped: 38
Length of query: 83
Length of database: 6,701,793
Length adjustment: 51
Effective length of query: 32
Effective length of database: 5,277,822
Effective search space: 168890304
Effective search space used: 168890304
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 (23.7 bits)