RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy866
(132 letters)
>2qma_A Diaminobutyrate-pyruvate transaminase and L-2,4- diaminobutyrate
decarboxylase; structural genomics, APC91511.1,
glutamate decarboxylase; HET: MSE; 1.81A {Vibrio
parahaemolyticus}
Length = 497
Score = 75.0 bits (185), Expect = 5e-17
Identities = 10/46 (21%), Positives = 19/46 (41%)
Query: 15 LFHFLSHQVTHWQHPRFHAYFPSGNSYPSVLADMLSDAIGCIGFSW 60
+ ++ QHP A+ + P+V A+ + A+ SW
Sbjct: 87 VAELVAKNAIFTQHPDCIAHLHTPPLMPAVAAEAMIAALNQSMDSW 132
>2okj_A Glutamate decarboxylase 1; PLP-dependent decarboxylase, lyase; HET:
LLP PLZ; 2.30A {Homo sapiens} PDB: 2okk_A*
Length = 504
Score = 72.8 bits (179), Expect = 3e-16
Identities = 9/42 (21%), Positives = 16/42 (38%), Gaps = 1/42 (2%)
Query: 19 LSHQVTHWQHPRFHAYFPSGNSYPSVLADMLSDAIGCIGFSW 60
L + V HPRF +G + + L+ F++
Sbjct: 84 LKYGVRTG-HPRFFNQLSTGLDIIGLAGEWLTSTANTNMFTY 124
>1js3_A DDC;, DOPA decarboxylase; carbidopa, parkinson'S disease, vitamin;
HET: PLP 142; 2.25A {Sus scrofa} SCOP: c.67.1.6 PDB:
1js6_A* 3rch_A* 3rbl_A 3rbf_A*
Length = 486
Score = 71.7 bits (176), Expect = 6e-16
Identities = 27/50 (54%), Positives = 35/50 (70%)
Query: 11 LIILLFHFLSHQVTHWQHPRFHAYFPSGNSYPSVLADMLSDAIGCIGFSW 60
++ + + VTHW P F AYFP+ +SYP++LADML AIGCIGFSW
Sbjct: 56 ILQDVEKIIMPGVTHWHSPYFFAYFPTASSYPAMLADMLCGAIGCIGFSW 105
>2jis_A Cysteine sulfinic acid decarboxylase; pyridoxal phosphate,
alternative splicing, pyridoxal phosphate (PLP),
structural genomics consortium (SGC); HET: PLP; 1.6A
{Homo sapiens}
Length = 515
Score = 71.6 bits (176), Expect = 6e-16
Identities = 7/42 (16%), Positives = 20/42 (47%), Gaps = 1/42 (2%)
Query: 19 LSHQVTHWQHPRFHAYFPSGNSYPSVLADMLSDAIGCIGFSW 60
+ + V HPRF SG ++ ++++++ +++
Sbjct: 100 IRYSVKTG-HPRFFNQLFSGLDPHALAGRIITESLNTSQYTY 140
>4e1o_A HDC, histidine decarboxylase; lyase; HET: PLP PVH; 1.80A {Homo
sapiens}
Length = 481
Score = 71.7 bits (176), Expect = 7e-16
Identities = 23/50 (46%), Positives = 33/50 (66%)
Query: 11 LIILLFHFLSHQVTHWQHPRFHAYFPSGNSYPSVLADMLSDAIGCIGFSW 60
+ + + V HWQ P HAY+P+ S+PS+L DML+DAI C+GF+W
Sbjct: 61 IFGDIERIIMPGVVHWQSPHMHAYYPALTSWPSLLGDMLADAINCLGFTW 110
>3k40_A Aromatic-L-amino-acid decarboxylase; PLP dependent protein, alpha
beta protein, alternative splicing, catecholamine
biosynthesis, lyase; HET: LLP; 1.75A {Drosophila
melanogaster}
Length = 475
Score = 70.1 bits (172), Expect = 2e-15
Identities = 27/50 (54%), Positives = 37/50 (74%)
Query: 11 LIILLFHFLSHQVTHWQHPRFHAYFPSGNSYPSVLADMLSDAIGCIGFSW 60
++ + + VTHW P+FHAYFP+ NSYP+++ADMLS AI CIGF+W
Sbjct: 56 VMQDIERVIMPGVTHWHSPKFHAYFPTANSYPAIVADMLSGAIACIGFTW 105
>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 = 31.6 bits (71), Expect = 0.077
Identities = 16/122 (13%), Positives = 36/122 (29%), Gaps = 40/122 (32%)
Query: 10 SLIILLFHFLSHQVTHWQHP---------------RFHAYFPSGNSYPSVLADMLSDAIG 54
+ L+ FL + V+ P F + GN ++ A +L +
Sbjct: 56 TPAELVGKFLGY-VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQEN-- 112
Query: 55 CIGFSWVFELQERKRKDDLAYKRSFFVRMVSDPKIYNPKIAVATPTSRR-PTCLASSAEE 113
+ K K+ + +++ +I P ++ + L + E
Sbjct: 113 --------DTTLVKTKELI---KNY----------ITARIMAKRPFDKKSNSALFRAVGE 151
Query: 114 DE 115
Sbjct: 152 GN 153
Score = 29.2 bits (65), Expect = 0.44
Identities = 14/70 (20%), Positives = 25/70 (35%), Gaps = 25/70 (35%)
Query: 12 IILLFHFLSHQVTHWQHPRFHAYFPSGNSYPSVLAD-----------MLSDAIGCIGFSW 60
I +LF + R + +P+ + PS+L D MLS +
Sbjct: 300 ITVLF---------FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLS----ISNLTQ 346
Query: 61 VFELQERKRK 70
++Q+ K
Sbjct: 347 E-QVQDYVNK 355
>2apn_A Protein HI1723; HI1723 solution structure, structural genomics,
structure 2 function project, S2F, unknown function;
NMR {Haemophilus influenzae}
Length = 114
Score = 29.1 bits (66), Expect = 0.18
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 54 GCIGFSWVFELQERKRKDDLAYKRSFFVRMVSDPK 88
GC GF + F E+ DL ++S V++V DP
Sbjct: 41 GCSGFQYGFTFDEKVNDGDLTIEKS-GVQLVIDPM 74
>1nwb_A Hypothetical protein AQ_1857; QR6, structural genomics, protein
structure initiative, NESG, reduced dimensionality PSI;
NMR {Aquifex aeolicus} SCOP: b.124.1.1
Length = 124
Score = 29.2 bits (66), Expect = 0.19
Identities = 9/35 (25%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 54 GCIGFSWVFELQERKRKDDLAYKRSFFVRMVSDPK 88
GC GF + + + D ++ V++V DP
Sbjct: 42 GCSGFQYAMGFDDTVEEGDHVFEYD-GVKVVIDPF 75
>1x0g_A ISCA; [2Fe-2S], biosynthesis, cyanobacteria, domain swapping, Fe-
S cluster, iron, iron-sulfur cluster protein, scaffold,
sulfur; 2.50A {Thermosynechococcus elongatus}
Length = 112
Score = 28.3 bits (64), Expect = 0.32
Identities = 5/35 (14%), Positives = 11/35 (31%), Gaps = 1/35 (2%)
Query: 54 GCIGFSWVFELQERKRKDDLAYKRSFFVRMVSDPK 88
C + + L + DL + S + +
Sbjct: 36 ECGDWRYDLALVAEPKPTDLLTQ-SQGWTIAIAAE 69
>2d2a_A SUFA protein; iron-sulfur cluster, iron, ISCA, YADR, metal
transport; 2.70A {Escherichia coli}
Length = 145
Score = 27.7 bits (62), Expect = 0.82
Identities = 9/35 (25%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 54 GCIGFSWVFELQERKRKDDLAYKRSFFVRMVSDPK 88
GC GF +V + KDDL ++ ++ +
Sbjct: 72 GCAGFGYVLDSVSEPDKDDLLFEHD-GAKLFVPLQ 105
>1r94_A Protein YFHF; tetrameric, beta barrel, iron-sulfur cluster
protein, pseudo-symmetric motifs, metal transport;
2.30A {Escherichia coli} SCOP: b.124.1.1 PDB: 1r95_A
1s98_A
Length = 118
Score = 26.8 bits (60), Expect = 1.4
Identities = 10/35 (28%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 54 GCIGFSWVFELQERKRKDDLAYKRSFFVRMVSDPK 88
GC G ++V E + +D+ ++ V++V D K
Sbjct: 34 GCSGMAYVLEFVDEPTPEDIVFE-DKGVKVVVDGK 67
>1i5h_W Rnedd4, ubiquitin ligase NEDD4; NEDD4, WW domains, ENAC, PY
motif, liddle syndrome, proline-rich, ligase; NMR
{Rattus norvegicus} SCOP: b.72.1.1 PDB: 1yiu_A 2jo9_A
2joc_A*
Length = 50
Score = 24.5 bits (54), Expect = 3.1
Identities = 7/23 (30%), Positives = 12/23 (52%), Gaps = 2/23 (8%)
Query: 18 FLSH--QVTHWQHPRFHAYFPSG 38
F++H + T W+ PR +G
Sbjct: 28 FINHNIKKTQWEDPRMQNVAITG 50
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 26.3 bits (57), Expect = 3.1
Identities = 7/64 (10%), Positives = 21/64 (32%), Gaps = 23/64 (35%)
Query: 63 ELQERKRKD-DLAYKRSFFVRMVSDPKIYNPKIAVATPTSRRPTCLASSAEEDEEAESDE 121
E +E+ +KD + +R + ++ +R ++A +
Sbjct: 111 EWREKAKKDLEEWNQR------------QSEQVEKNKINNR----------IADKAFYQQ 148
Query: 122 RSSE 125
++
Sbjct: 149 PDAD 152
>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance
regulator, residues 1193-1427...; CFTR, ABC transporter,
nucleotide binding domain, NBD; HET: B44; 2.70A {Homo
sapiens}
Length = 390
Score = 26.2 bits (58), Expect = 4.0
Identities = 10/58 (17%), Positives = 16/58 (27%), Gaps = 2/58 (3%)
Query: 73 LAYKRSFFVRMV--SDPKIYNPKIAVATPTSRRPTCLASSAEEDEEAESDERSSEQGS 128
Y FV S + P AT + L + + R + G+
Sbjct: 241 YHYPADRFVAGFIGSPKMNFLPVKVTATAIDQVQVELPMPNRQQVWLPVESRDVQVGA 298
>2law_A Yorkie homolog; YAP, SMAD1, CDK, signal transduction, signaling
protein-TRAN complex; NMR {Homo sapiens}
Length = 38
Score = 24.0 bits (53), Expect = 4.4
Identities = 5/15 (33%), Positives = 9/15 (60%), Gaps = 2/15 (13%)
Query: 18 FLSH--QVTHWQHPR 30
+++H + T W PR
Sbjct: 23 YINHKNKTTSWLDPR 37
>2djy_A SMAD ubiquitination regulatory factor 2; beta sheet, polyproline
type II helix, PPII, ligase/signaling protein complex;
NMR {Homo sapiens} PDB: 2lb1_A
Length = 42
Score = 23.4 bits (51), Expect = 7.1
Identities = 6/18 (33%), Positives = 9/18 (50%), Gaps = 2/18 (11%)
Query: 18 FLSH--QVTHWQHPRFHA 33
F+ H + T + PR A
Sbjct: 24 FVDHNNRTTQFTDPRLSA 41
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 24.9 bits (53), Expect = 7.2
Identities = 10/49 (20%), Positives = 14/49 (28%), Gaps = 22/49 (44%)
Query: 63 ELQERKRKDDLAYKRSFFVRMVSDPKIYNPKIAVATPTSRRPTCLASSA 111
E Q K+ + + K+Y A P LA A
Sbjct: 18 EKQALKK-------------LQASLKLYADDSA---PA------LAIKA 44
>1wr7_A NEDD4-2; all-beta, ligase; NMR {Mus musculus}
Length = 41
Score = 23.3 bits (51), Expect = 8.3
Identities = 6/16 (37%), Positives = 9/16 (56%), Gaps = 2/16 (12%)
Query: 18 FLSH--QVTHWQHPRF 31
F+ H + T W+ PR
Sbjct: 25 FIDHNTKTTTWEDPRL 40
>2q7s_A N-formylglutamate amidohydrolase; YP_297560.1, structural GE joint
center for structural genomics, JCSG, protein structu
initiative, PSI-2; HET: MSE; 2.00A {Ralstonia eutropha}
SCOP: c.56.5.9
Length = 290
Score = 25.3 bits (54), Expect = 8.9
Identities = 18/93 (19%), Positives = 29/93 (31%), Gaps = 1/93 (1%)
Query: 37 SGNSYPSVLADMLSDAIGCIGFSW-VFELQERKRKDDLAYKRSFFVRMVSDPKIYNPKIA 95
SG YP+ +++ G V L E + + F R+ DP I
Sbjct: 33 SGTFYPADFGAVVAPERLRGGEDTHVDALWEAVPRVGGTLLAATFPRVYIDPNRMLDDID 92
Query: 96 VATPTSRRPTCLASSAEEDEEAESDERSSEQGS 128
A PT LA + + + +
Sbjct: 93 PAQLEGPWPTPLAPGEKTRLGYGLIWSNVDAAT 125
>1tdj_A Biosynthetic threonine deaminase; allostery, cooperative, tetramer,
regulation, pyridoxal PHOS isoleucine biosynthesis; HET:
PLP; 2.80A {Escherichia coli} SCOP: c.79.1.1 d.58.18.2
d.58.18.2
Length = 514
Score = 25.3 bits (56), Expect = 9.0
Identities = 16/71 (22%), Positives = 25/71 (35%), Gaps = 15/71 (21%)
Query: 15 LFHFLSHQVTHWQHPRFHAYFPSGNSYPSVLADM--------LSDAIGCIGFSWVFELQE 66
L FL+ T+W FH Y G Y VLA + +G+ E
Sbjct: 447 LLRFLNTLGTYWNISLFH-YRSHGTDYGRVLAAFELGDHEPDFETRLNELGYDCHDE--- 502
Query: 67 RKRKDDLAYKR 77
++ A++
Sbjct: 503 ---TNNPAFRF 510
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
0.320 0.133 0.403
Gapped
Lambda K H
0.267 0.0679 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,002,421
Number of extensions: 105635
Number of successful extensions: 224
Number of sequences better than 10.0: 1
Number of HSP's gapped: 223
Number of HSP's successfully gapped: 28
Length of query: 132
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 49
Effective length of database: 4,384,350
Effective search space: 214833150
Effective search space used: 214833150
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: 52 (23.9 bits)