RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16019
(121 letters)
>3ott_A Two-component system sensor histidine kinase; beta-propeller,
beta-sandwich, transcription; HET: TBR; 2.30A
{Bacteroides thetaiotaomicron}
Length = 758
Score = 32.3 bits (74), Expect = 0.024
Identities = 17/116 (14%), Positives = 33/116 (28%), Gaps = 6/116 (5%)
Query: 7 TMWLGSQNGSVFVHSAVSQWRRCLHSIQLKDSVLNIVHV----QGRVVCALADGSVAIF- 61
+WLG+ G + + I + +G A+G +
Sbjct: 291 NIWLGTDYGISLSRYNSALQFIPISQITGTGDGNQFYSLFRDSKGFYWFGGANGLIRFTD 350
Query: 62 RRGPDGQWDLSKYHTVTLGLPHHSVRSLAAVY-NKVWCGYKNKIHVVDPKSLDVIR 116
G + T L H+ +R + ++W I+ D + I
Sbjct: 351 PAGERHDAIWYRMGDKTYPLSHNRIRHIYEDKEQQLWIATDGSINRYDYATRQFIH 406
Score = 28.1 bits (63), Expect = 0.71
Identities = 17/106 (16%), Positives = 42/106 (39%), Gaps = 7/106 (6%)
Query: 7 TMWLGSQNGSVFVHSAVSQWRRCLHSIQLKDSVLNIVHVQGRVVCALADGSVAIFRRGPD 66
+++G+ NG + V++ R V + + +G ++
Sbjct: 75 YLYMGTDNG-ILVYNY-RADRYEQPETDFPTDVRTMALQGDTLWLGALNG---LYTYQLQ 129
Query: 67 GQWDLSKYHTVTLGLPHHSVRSLAAVY-NKVWCGYKNKIHVVDPKS 111
+ L+ + T GLP++++ S+ N+++ G N + P +
Sbjct: 130 SR-KLTSFDTRRNGLPNNTIYSIIRTKDNQIYVGTYNGLCRYIPSN 174
>3nol_A Glutamine cyclotransferase; beta-propeller, glutaminyl cyclase,
pyrogl transferase; 1.70A {Zymomonas mobilis} PDB:
3nom_A
Length = 262
Score = 29.1 bits (64), Expect = 0.28
Identities = 12/64 (18%), Positives = 24/64 (37%), Gaps = 2/64 (3%)
Query: 54 ADGSVAIFRRGPDGQWDLSKYHTVTLGLPHHSVRSLAAVYNKVWCG--YKNKIHVVDPKS 111
+DG+ + P+ + G + L V +++ NKI +DP++
Sbjct: 142 SDGTPVLRFLDPESLTPVRTITVTAHGEELPELNELEWVDGEIFANVWQTNKIVRIDPET 201
Query: 112 LDVI 115
V
Sbjct: 202 GKVT 205
>3d9r_A Ketosteroid isomerase-like protein; YP_049581.1, structural joint
center for structural genomics, JCSG, protein structu
initiative; HET: MSE; 2.40A {Pectobacterium
atrosepticum} SCOP: d.17.4.27
Length = 135
Score = 28.6 bits (63), Expect = 0.39
Identities = 8/39 (20%), Positives = 15/39 (38%)
Query: 38 SVLNIVHVQGRVVCALADGSVAIFRRGPDGQWDLSKYHT 76
+ + VV A + + R+ G W ++Y T
Sbjct: 92 TEGTETNKATGVVTPAAYQELFLLRKSATGSWQTARYCT 130
>3rob_A Uncharacterized conserved protein; structural genomics,
PSI-biology, protein structure initiati midwest center
for structural genomics; 1.48A {Planctomyces
limnophilus}
Length = 139
Score = 27.8 bits (61), Expect = 0.74
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 47 GRVVCALADGSVAIFRRGPDGQWDLSKYH 75
G V LA +++IFRR G+W L++
Sbjct: 105 GGAVRELAGHAMSIFRRSMFGEWQLARDA 133
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 27.9 bits (62), Expect = 1.1
Identities = 6/26 (23%), Positives = 13/26 (50%), Gaps = 1/26 (3%)
Query: 87 RSLAAVYNKVWCGYKNKIHVVDPKSL 112
+++ G+ N ++V+D K L
Sbjct: 941 KTVIDAMAIF-DGHANVVYVIDTKVL 965
>2jo6_A Nitrite reductase [NAD(P)H] small subunit; all beta, ISP domain,
rieske iron-sulfur protein, 3-layer sandwich,
structural genomics, PSI-2; NMR {Escherichia coli}
SCOP: b.33.1.3
Length = 113
Score = 25.8 bits (57), Expect = 2.4
Identities = 10/26 (38%), Positives = 11/26 (42%), Gaps = 1/26 (3%)
Query: 45 VQGRVVCALADG-SVAIFRRGPDGQW 69
+ VCAL VAIFR Q
Sbjct: 17 LPETGVCALLGDEQVAIFRPYHSDQV 42
>2jza_A Nitrite reductase [NAD(P)H] small subunit; ISP domain, rieske
iron-sulfur protein, 3-layer beta- sandwich; NMR
{Pectobacterium atrosepticum SCRI1043} SCOP: b.33.1.3
Length = 130
Score = 25.9 bits (57), Expect = 2.8
Identities = 10/26 (38%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 45 VQGRVVCALADG-SVAIFRRGPDGQW 69
+ G VCAL + +A+FR D Q
Sbjct: 14 LPGTGVCALVEQQQIAVFRPRNDEQV 39
>2gxf_A Hypothetical protein YYBH; alpha-beta protein., structural
genomics, PSI, protein structure initiative; HET: MES;
3.10A {Bacillus subtilis} SCOP: d.17.4.22
Length = 142
Score = 25.9 bits (56), Expect = 2.8
Identities = 3/13 (23%), Positives = 8/13 (61%)
Query: 57 SVAIFRRGPDGQW 69
+ +F++ G+W
Sbjct: 102 ATYVFKKNAQGEW 114
>3bnk_A Flavoredoxin; protein-FMN complex, electron transport; HET: FMN;
2.05A {Methanosarcina acetivorans}
Length = 196
Score = 25.7 bits (57), Expect = 3.6
Identities = 9/57 (15%), Positives = 24/57 (42%), Gaps = 9/57 (15%)
Query: 28 RCLHSIQLKDSVLNIVHVQGRVVCALADGSVAIFRRGPDGQWDLSKYHTVTLGLPHH 84
R + +++ + + G ++ A ++ I G+ D+ K + L +P +
Sbjct: 120 RVVETLEFPTNYFFV----GEIIAAYSEEQYLI-----QGKPDIKKMDPLLLTMPDN 167
>2dpn_A Glycerol kinase; thermus thermophilus HB8, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; 2.80A {Thermus thermophilus}
Length = 495
Score = 26.0 bits (58), Expect = 3.9
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 15 GSVFVHSAVSQWRRCLHSIQ 34
GS+FV A W + + I+
Sbjct: 301 GSLFVAGAAVGWLKEVGLIR 320
>2d5m_A Flavoredoxin; flavoprotein, FMN binding, electron transport; HET:
FMN MES; 1.05A {Desulfovibrio vulgaris str}
Length = 190
Score = 25.3 bits (56), Expect = 4.9
Identities = 11/58 (18%), Positives = 19/58 (32%), Gaps = 8/58 (13%)
Query: 28 RCLHSIQLKDSVLNIVHVQGRVVCALADGSVAIFRRGPDGQWDLSKYHTVTLGLPHHS 85
+ +H I++ I G ++ D S DG D++K V
Sbjct: 121 KLIHQIEIGLHTQFI----GEIMDVKVDESCL----RDDGLPDINKVDPVIFAPVSRE 170
>3efe_A THIJ/PFPI family protein; structural GEN csgid, center for
structural genomics of infectious disease chaperone;
2.30A {Bacillus anthracis}
Length = 212
Score = 25.0 bits (55), Expect = 6.3
Identities = 6/49 (12%), Positives = 16/49 (32%), Gaps = 8/49 (16%)
Query: 48 RVVCALADGS--------VAIFRRGPDGQWDLSKYHTVTLGLPHHSVRS 88
+ + + +A G + DL+ +T+G + +
Sbjct: 7 KAFLYVFNTMSDWEYGYLIAELNSGRYFKKDLAPLKVITVGANKEMITT 55
>3hx8_A MLR2180 protein, putative ketosteroid isomerase; structural
genomics, joint center for structural genomics, JCSG,
protein structure initiative; HET: MSE UNL PG4; 1.45A
{Mesorhizobium loti}
Length = 129
Score = 24.2 bits (52), Expect = 9.4
Identities = 6/12 (50%), Positives = 9/12 (75%)
Query: 58 VAIFRRGPDGQW 69
V ++R+G DG W
Sbjct: 105 VVVWRKGQDGGW 116
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
0.324 0.136 0.439
Gapped
Lambda K H
0.267 0.0796 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,936,313
Number of extensions: 102682
Number of successful extensions: 370
Number of sequences better than 10.0: 1
Number of HSP's gapped: 370
Number of HSP's successfully gapped: 27
Length of query: 121
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 39
Effective length of database: 4,412,271
Effective search space: 172078569
Effective search space used: 172078569
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.3 bits)