RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10002
(145 letters)
>2d2a_A SUFA protein; iron-sulfur cluster, iron, ISCA, YADR, metal
transport; 2.70A {Escherichia coli}
Length = 145
Score = 137 bits (347), Expect = 8e-43
Identities = 33/98 (33%), Positives = 50/98 (51%), Gaps = 15/98 (15%)
Query: 48 GLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFHVSGVRIFIDRKAQ 107
G+++GV+Q GC G Y L+ + +K D D G ++F+ +A
Sbjct: 63 GVRLGVKQTGCAGFGYVLDSVSEPDKDDLLFEHD---------------GAKLFVPLQAM 107
Query: 108 LTLLGTEMDYVENKLSSEFVFNNPNIKGTCGCGESFSV 145
+ GTE+D+V L+ F F+NP + CGCGESF V
Sbjct: 108 PFIDGTEVDFVREGLNQIFKFHNPKAQNECGCGESFGV 145
>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 = 132 bits (335), Expect = 3e-41
Identities = 33/98 (33%), Positives = 52/98 (53%), Gaps = 15/98 (15%)
Query: 48 GLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFHVSGVRIFIDRKAQ 107
GL++GV+ GC+G++Y L + + D GV++ +D K+
Sbjct: 25 GLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDK---------------GVKVVVDGKSL 69
Query: 108 LTLLGTEMDYVENKLSSEFVFNNPNIKGTCGCGESFSV 145
L GT++D+V+ L+ F F NPN+K CGCGESF +
Sbjct: 70 QFLDGTQLDFVKEGLNEGFKFTNPNVKDECGCGESFKL 107
>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 = 116 bits (293), Expect = 6e-35
Identities = 29/99 (29%), Positives = 40/99 (40%), Gaps = 15/99 (15%)
Query: 47 AGLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFHVSGVRIFIDRKA 106
A L++ VQ C Y L + + D G I I +A
Sbjct: 26 AILRIQVQPSECGDWRYDLALVAEPKPTDLLTQSQ---------------GWTIAIAAEA 70
Query: 107 QLTLLGTEMDYVENKLSSEFVFNNPNIKGTCGCGESFSV 145
L G +DY+E+ + F F+NPN TCGCG +F V
Sbjct: 71 AELLRGLRVDYIEDLMGGAFRFHNPNASQTCGCGMAFRV 109
>2apn_A Protein HI1723; HI1723 solution structure, structural genomics,
structure 2 function project, S2F, unknown function; NMR
{Haemophilus influenzae}
Length = 114
Score = 100 bits (252), Expect = 9e-29
Identities = 32/130 (24%), Positives = 53/130 (40%), Gaps = 23/130 (17%)
Query: 17 TGINLSDD-RTQIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNGLSYTLNYAKDKEKMD 75
+ +D ++ L+ + ++ L+V + GC+G Y + + D
Sbjct: 7 VPLTFTDAAANKVKSLISEEE-------NTDLKLRVYITGGGCSGFQYGFTFDEKVNDGD 59
Query: 76 EEVIQDVKYWALILTCFFHVSGVRIFIDRKAQLTLLGTEMDYVENKLSSEFVFNNPNIKG 135
+ + GV++ ID + L+G +DY E S F NNPN
Sbjct: 60 LTIEKS---------------GVQLVIDPMSLQYLIGGTVDYTEGLEGSRFTVNNPNATS 104
Query: 136 TCGCGESFSV 145
TCGCG SFS+
Sbjct: 105 TCGCGSSFSI 114
>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 = 95.4 bits (238), Expect = 2e-26
Identities = 33/130 (25%), Positives = 52/130 (40%), Gaps = 23/130 (17%)
Query: 17 TGINLSDD-RTQIHGLLKINKIHCIIFISSQAGLKVGVQQRGCNGLSYTLNYAKDKEKMD 75
++D +I + + N L++ V GC+G Y + + E+ D
Sbjct: 8 FIFKVTDKAVEEIKKVAQENN-------IENPILRIRVVPGGCSGFQYAMGFDDTVEEGD 60
Query: 76 EEVIQDVKYWALILTCFFHVSGVRIFIDRKAQLTLLGTEMDYVENKLSSEFVFNNPNIKG 135
D GV++ ID + + G E+DYV + + F NPN G
Sbjct: 61 HVFEYD---------------GVKVVIDPFSMPYVNGAELDYVVDFMGGGFTIRNPNATG 105
Query: 136 TCGCGESFSV 145
+CGCG SFS
Sbjct: 106 SCGCGSSFSC 115
>2k4z_A DSRR; ISCA/SUFA/HESB like fold, structural genomics, PSI-2, protein
structure initiative, northeast structural genomics
consortium, NESG; NMR {Allochromatium vinosum}
Length = 125
Score = 78.5 bits (194), Expect = 6e-20
Identities = 18/88 (20%), Positives = 28/88 (31%), Gaps = 17/88 (19%)
Query: 48 GLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDVKYWALILTCFFHVSGVRIFIDRKAQ 107
L++ + + Y + + D D+ + GV I I
Sbjct: 46 CLRLAAGRNPDGSIDYRMGF--DDLTEDDIRLTS--------------EGVEIVIAPDYV 89
Query: 108 LTLLGTEMDYVEN-KLSSEFVFNNPNIK 134
L T +DYVE F+F NP
Sbjct: 90 SLLDQTTLDYVELEPGQFHFIFLNPRDP 117
>1ghh_A DINI, DNA-damage-inducible protein I; bicelle, dipolar coupling,
liquid crystal, PF1, RECA, protein binding; NMR
{Escherichia coli} SCOP: d.57.1.1
Length = 81
Score = 25.1 bits (55), Expect = 4.3
Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 1/36 (2%)
Query: 47 AGLKVGVQQRGCNGLSYTLNYAKDKEKMDEEVIQDV 82
V V+ N LS +DK+++ E++Q+
Sbjct: 36 NEGHVSVRYAAANNLSVIGATKEDKQRI-SEILQET 70
>3r1i_A Short-chain type dehydrogenase/reductase; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid; 1.95A {Mycobacterium marinum}
Length = 276
Score = 25.6 bits (57), Expect = 6.4
Identities = 5/20 (25%), Positives = 11/20 (55%)
Query: 40 IIFISSQAGLKVGVQQRGCN 59
II +S +G + + Q+ +
Sbjct: 164 IITTASMSGHIINIPQQVSH 183
>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 = 25.4 bits (55), Expect = 9.3
Identities = 7/30 (23%), Positives = 12/30 (40%), Gaps = 4/30 (13%)
Query: 12 IYHLYTGINLSDDRTQIHGLLKINKIHCII 41
+Y + G +L I + + CII
Sbjct: 459 VYDTFDGSDLRVLSGSISERI----VDCII 484
>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA
translocation, nucleotide-binding, DNA-binding; 3.00A
{Bovine papillomavirus type 1} PDB: 2gxa_A*
Length = 305
Score = 25.2 bits (55), Expect = 9.3
Identities = 9/56 (16%), Positives = 16/56 (28%)
Query: 3 MAFSTPTAFIYHLYTGINLSDDRTQIHGLLKINKIHCIIFISSQAGLKVGVQQRGC 58
+ A+I I I I FI++ G+ ++ C
Sbjct: 73 TQALSMPAYIKARCKLATGEGSWKSILTFFNYQNIELITFINALKLWLKGIPKKNC 128
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 0.139 0.422
Gapped
Lambda K H
0.267 0.0811 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,126,113
Number of extensions: 110992
Number of successful extensions: 194
Number of sequences better than 10.0: 1
Number of HSP's gapped: 187
Number of HSP's successfully gapped: 11
Length of query: 145
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 60
Effective length of database: 4,328,508
Effective search space: 259710480
Effective search space used: 259710480
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: 41 (22.0 bits)
S2: 52 (23.7 bits)