RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17526
(70 letters)
>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 = 26.5 bits (59), Expect = 0.55
Identities = 5/8 (62%), Positives = 6/8 (75%)
Query: 41 SHGGHLSH 48
GGHL+H
Sbjct: 143 PDGGHLTH 150
>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 = 26.5 bits (59), Expect = 0.57
Identities = 5/8 (62%), Positives = 6/8 (75%)
Query: 41 SHGGHLSH 48
GGHL+H
Sbjct: 153 PDGGHLTH 160
>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus
interaction, receptor, UBL conjugation, UBL conjugation
pathway, acetylation, cytoplasm; 2.60A {Homo sapiens}
SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 1u6g_B 2hye_D* 4a0c_D
4a0l_F* 1ldj_B 1ldk_C 2lgv_A
Length = 106
Score = 25.9 bits (56), Expect = 0.93
Identities = 7/26 (26%), Positives = 9/26 (34%)
Query: 36 WCQGCSHGGHLSHMQEWFMKNNVCPT 61
C+H H + W VCP
Sbjct: 69 AWGVCNHAFHFHCISRWLKTRQVCPL 94
>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 = 26.0 bits (58), Expect = 1.0
Identities = 7/8 (87%), Positives = 8/8 (100%)
Query: 41 SHGGHLSH 48
SHGGHL+H
Sbjct: 118 SHGGHLTH 125
>3n0l_A Serine hydroxymethyltransferase; alpha beta class, 3-layer(ABA)
sandwich, CSGI transferase, structural genomics; HET:
MSE; 1.80A {Campylobacter jejuni}
Length = 417
Score = 25.6 bits (57), Expect = 1.1
Identities = 7/8 (87%), Positives = 8/8 (100%)
Query: 41 SHGGHLSH 48
SHGGHL+H
Sbjct: 120 SHGGHLTH 127
>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 = 25.6 bits (57), Expect = 1.1
Identities = 5/8 (62%), Positives = 7/8 (87%)
Query: 41 SHGGHLSH 48
+ GGHL+H
Sbjct: 125 AQGGHLTH 132
>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 25.2 bits (55), Expect = 1.2
Identities = 9/21 (42%), Positives = 11/21 (52%)
Query: 40 CSHGGHLSHMQEWFMKNNVCP 60
C+H H M W +NN CP
Sbjct: 48 CNHSFHNCCMSLWVKQNNRCP 68
>3h7f_A Serine hydroxymethyltransferase 1; cytoplasm, one-carbon
metabolism, pyridoxal phosphate, structural genomics;
HET: LLP; 1.50A {Mycobacterium tuberculosis}
Length = 447
Score = 25.7 bits (57), Expect = 1.2
Identities = 5/8 (62%), Positives = 8/8 (100%)
Query: 41 SHGGHLSH 48
++GGHL+H
Sbjct: 140 ANGGHLTH 147
>2dkj_A Serine hydroxymethyltransferase; PLP dependent enzyme, structural
genomics; HET: PLP; 1.15A {Thermus thermophilus}
Length = 407
Score = 25.6 bits (57), Expect = 1.3
Identities = 5/8 (62%), Positives = 7/8 (87%)
Query: 41 SHGGHLSH 48
+ GGHL+H
Sbjct: 118 AAGGHLTH 125
>3ecd_A Serine hydroxymethyltransferase 2; ssgcid, decode, bupsa00008A,
one-carbon metabolism, pyridoxa phosphate, structural
genomics; 1.60A {Burkholderia pseudomallei}
Length = 425
Score = 25.3 bits (56), Expect = 1.5
Identities = 5/8 (62%), Positives = 6/8 (75%)
Query: 41 SHGGHLSH 48
GGHL+H
Sbjct: 127 DAGGHLTH 134
>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA
complex, DNA-binding protein- complex; HET: DNA 3DR;
5.93A {Mus musculus}
Length = 117
Score = 25.2 bits (54), Expect = 1.8
Identities = 7/28 (25%), Positives = 9/28 (32%)
Query: 34 YSWCQGCSHGGHLSHMQEWFMKNNVCPT 61
C+H H + W VCP
Sbjct: 78 TVAWGVCNHAFHFHCISRWLKTRQVCPL 105
>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 = 23.7 bits (50), Expect = 7.1
Identities = 3/8 (37%), Positives = 4/8 (50%)
Query: 10 HGLGNFGK 17
G+ GK
Sbjct: 156 DGVLGSGK 163
>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid
herpesvirus 1} SCOP: g.44.1.1
Length = 68
Score = 22.7 bits (49), Expect = 8.5
Identities = 6/21 (28%), Positives = 8/21 (38%)
Query: 40 CSHGGHLSHMQEWFMKNNVCP 60
C H + W +N CP
Sbjct: 24 CLHAFCYVCITRWIRQNPTCP 44
>3ois_A Cysteine protease; alpha and beta, hydrolase; HET: UDP; 1.65A
{Xylella fastidiosa}
Length = 291
Score = 23.3 bits (50), Expect = 9.5
Identities = 6/41 (14%), Positives = 8/41 (19%)
Query: 23 QMLVFCLVSGLYSWCQGCSHGGHLSHMQEWFMKNNVCPTGC 63
L G + + K VCP
Sbjct: 103 SRLFIYYNERKIEGHVNYDSGAMIRDGIKVLHKLGVCPEKE 143
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
0.327 0.140 0.519
Gapped
Lambda K H
0.267 0.0475 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,092,938
Number of extensions: 48273
Number of successful extensions: 199
Number of sequences better than 10.0: 1
Number of HSP's gapped: 199
Number of HSP's successfully gapped: 26
Length of query: 70
Length of database: 6,701,793
Length adjustment: 40
Effective length of query: 30
Effective length of database: 5,584,953
Effective search space: 167548590
Effective search space used: 167548590
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (24.0 bits)