RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy3760
(306 letters)
>d1al3a_ c.94.1.1 (A:) Cofactor-binding fragment of LysR-type
protein CysB {Klebsiella aerogenes [TaxId: 28451]}
Length = 237
Score = 122 bits (306), Expect = 5e-34
Identities = 93/214 (43%), Positives = 139/214 (64%)
Query: 91 DTGNLTIATTHTQARYALPKIIKEFTIQFPKVKLSLLQGNPKQITEMIRNDQADIAIVTE 150
D G+L +ATTHTQARYALP +IK F ++P+V L + QG+P QI E + AD AI TE
Sbjct: 4 DKGSLYVATTHTQARYALPGVIKGFIERYPRVSLHMHQGSPTQIAEAVSKGNADFAIATE 63
Query: 151 ILSPSDKLISIPCYQWEYVIIVPLDHPLLLLNSISLKEISNYPLITYDLSFSGRIKLDRE 210
L D L+ +PCY W I+V +HPL S+S++E++ YPL+TY F+GR +LD
Sbjct: 64 ALHLYDDLVMLPCYHWNRSIVVTPEHPLATKGSVSIEELAQYPLVTYTFGFTGRSELDTA 123
Query: 211 FSLQKLTPYIVLETINSDIIKTYVELRMGIGIIASIAFDSNRDKNLRSISASHLFGTTIS 270
F+ LTP IV ++D+IKTYV L +G+G+IAS+A D D +L + A+ +F + +
Sbjct: 124 FNRAGLTPRIVFTATDADVIKTYVRLGLGVGVIASMAVDPVSDPDLVKLDANGIFSHSTT 183
Query: 271 RVIIKQGTYLRSYVYSFIKLLSPKLNRKFINKIL 304
++ ++ T+LRSY+Y FI+ +P L R ++ +
Sbjct: 184 KIGFRRSTFLRSYMYDFIQRFAPHLTRDVVDTAV 217
>d2fyia1 c.94.1.1 (A:88-307) LysR-type regulatory protein Cbl
{Escherichia coli [TaxId: 562]}
Length = 220
Score = 95.6 bits (236), Expect = 4e-24
Identities = 85/211 (40%), Positives = 139/211 (65%)
Query: 92 TGNLTIATTHTQARYALPKIIKEFTIQFPKVKLSLLQGNPKQITEMIRNDQADIAIVTEI 151
+G LTIATTHTQARY+LP++IK F FP+V+L L+QG P++I +++N +ADI I +E
Sbjct: 5 SGVLTIATTHTQARYSLPEVIKAFRELFPEVRLELIQGTPQEIATLLQNGEADIGIASER 64
Query: 152 LSPSDKLISIPCYQWEYVIIVPLDHPLLLLNSISLKEISNYPLITYDLSFSGRIKLDREF 211
LS +L++ P ++W + ++VP DHPL ++ ++L+ I+ +PLITY +GR ++D F
Sbjct: 65 LSNDPQLVAFPWFRWHHSLLVPHDHPLTQISPLTLESIAKWPLITYRQGITGRSRIDDAF 124
Query: 212 SLQKLTPYIVLETINSDIIKTYVELRMGIGIIASIAFDSNRDKNLRSISASHLFGTTISR 271
+ + L IVL +SD+IKTYV L +GIG++A + ++NL + HLF
Sbjct: 125 ARKGLLADIVLSAQDSDVIKTYVALGLGIGLVAEQSSGEQEEENLIRLDTRHLFDANTVW 184
Query: 272 VIIKQGTYLRSYVYSFIKLLSPKLNRKFINK 302
+ +K+G R+YV+ F++L + L+ + I +
Sbjct: 185 LGLKRGQLQRNYVWRFLELCNAGLSVEDIKR 215
>d1i6aa_ c.94.1.1 (A:) Hydrogen peroxide-inducible genes LysR-type
activator OxyR, regulatory domain {Escherichia coli
[TaxId: 562]}
Length = 212
Score = 72.1 bits (175), Expect = 1e-15
Identities = 33/211 (15%), Positives = 74/211 (35%), Gaps = 6/211 (2%)
Query: 92 TGNLTIATTHTQARYALPKIIKEFTIQFPKVKLSLLQGNPKQITEMIRNDQADIAIVTEI 151
+G L I T Y LP II FPK+++ L + + A++ +
Sbjct: 4 SGPLHIGLIPTVGPYLLPHIIPMLHQTFPKLEMYLHEAQT-HQLLAQLDSGKLDAVILAL 62
Query: 152 LSPSDKLISIPCYQWEYVIIVPLDHPLLLLNSISLKEISNYPLITYDLSFSGRIKLDREF 211
+ S+ I +P + ++ + DHP ++ + +++ L+ + R +
Sbjct: 63 VKESEAFIEVPLFDEPMLLAIYEDHPWANREAVPMADLAGEKLLMLEDGHCLRDQAMGFC 122
Query: 212 SLQKLTPYIVLETINSDIIKTYVELRMGIGIIASIAFDSNRDKNLRSISASHLFGTTISR 271
+ + ++ V G GI A ++ + R
Sbjct: 123 FEAGADEDTHFRATSLETLRNMV--AAGSGITLLPALAVPPERKRDGVVYLPAIKPEPRR 180
Query: 272 ---VIIKQGTYLRSYVYSFIKLLSPKLNRKF 299
++ + G+ LRS + + +++ F
Sbjct: 181 TIGLVYRPGSPLRSRYEQLAEAIRARMDGHF 211
>d2esna1 a.4.5.37 (A:3-91) Probable LysR-type transcriptional
regulator PA0477 {Pseudomonas aeruginosa [TaxId: 287]}
Length = 89
Score = 56.4 bits (136), Expect = 4e-11
Identities = 16/78 (20%), Positives = 35/78 (44%), Gaps = 2/78 (2%)
Query: 1 MNLHQFRFVREAVRQNFNLTEAAKALYTSQPGVSKAIIELEEELSIDIFIRHGKRIRGLT 60
++L+ R N+ AA L S S A+ L + L ++F+R G R++ T
Sbjct: 6 LDLNLLLVFDALYRHR-NVGTAASELAISASAFSHALGRLRQGLDDELFLRQGNRMQ-PT 63
Query: 61 KPGQAILRSIEIIMQEIE 78
+ + + ++ ++ +
Sbjct: 64 QRAEHLAAAVAAALRALG 81
>d2esna2 c.94.1.1 (A:92-303) Probable LysR-type transcriptional
regulator PA0477 {Pseudomonas aeruginosa [TaxId: 287]}
Length = 212
Score = 57.8 bits (138), Expect = 1e-10
Identities = 23/173 (13%), Positives = 45/173 (26%), Gaps = 2/173 (1%)
Query: 89 AYDTGNLTIATTHTQARYALPKIIKEFTIQFPKVKLSLLQGNPKQITEMIRNDQADIAI- 147
A T A LP ++ P V+L L+ K E + + + D A+
Sbjct: 4 GQSQRTFVFAATDYTAFALLPPLMNRLQHSAPGVRLRLVNAERKLSVEALASGRIDFALG 63
Query: 148 VTEILSPSDKLISIPCYQWEYVIIVPLDHPLLLLNSISLKEISNYPLITYDLSFSGRIKL 207
E + I + + ++V L + +L+ +
Sbjct: 64 YDEEHERLPEGIQAHDWFADRYVVVARRDHPRLAGAPTLEGYLAERHAVVTPWNEDSGVI 123
Query: 208 DREFSLQKLTPYIVLETINSDIIKTYVELRMGIGII-ASIAFDSNRDKNLRSI 259
DR + L + ++ + A L
Sbjct: 124 DRLLARSGLRREVAVQLPTVLAALFLAGSTDFLLTAPRHAARALAEAAGLALY 176
>d1utha_ c.94.1.1 (A:) LysR-type regulatory protein DntR
{Burkholderia sp. [TaxId: 36773]}
Length = 219
Score = 56.7 bits (135), Expect = 4e-10
Identities = 24/172 (13%), Positives = 55/172 (31%), Gaps = 3/172 (1%)
Query: 89 AYDTGNLTIATTHTQARYALPKIIKEFTIQFPKVKLSLLQGNPKQITEMIRNDQADIAIV 148
T +A T Y +P +++ + P +++S L+ N + E + + D+A+
Sbjct: 8 FASTRTFNLAMTDIGEMYFMPPLMEALAQRAPHIQISTLRPNAGNLKEDMESGAVDLAL- 66
Query: 149 TEILSPSDKLISIPCYQWEYVIIVPLDHPLLLLNSISLKEISNYPLITYDLSFSGRIKLD 208
+L + + + +SLK+ S + +G ++D
Sbjct: 67 -GLLPELQTGFFQRRLFRHRYVCMFRKDHPSAKSPMSLKQFSELEHVGVVALNTGHGEVD 125
Query: 209 REFSLQKLTPYIVLETINSDIIKTYVELRMGIGII-ASIAFDSNRDKNLRSI 259
+ + L + I + I + A L +
Sbjct: 126 GLLERAGIKRRMRLVVPHFIAIGPILHSTDLIATVPQRFAVRCEVPFGLTTS 177
>d1ixca1 a.4.5.37 (A:1-89) LysR-type regulatory protein CbnR
{Ralstonia eutropha [TaxId: 106590]}
Length = 89
Score = 50.0 bits (119), Expect = 7e-09
Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 2/78 (2%)
Query: 1 MNLHQFRFVREAVRQNFNLTEAAKALYTSQPGVSKAIIELEEELSIDIFIRHGKRIRGLT 60
M Q ++ N+ AAK L+ SQP +++ + LE +L + + R + I LT
Sbjct: 1 MEFRQLKYFIAVAEAG-NMAAAAKRLHVSQPPITRQMQALEADLGVVLLERSHRGIE-LT 58
Query: 61 KPGQAILRSIEIIMQEIE 78
G A L I++
Sbjct: 59 AAGHAFLEDARRILELAG 76
>d1ixca2 c.94.1.1 (A:90-294) LysR-type regulatory protein CbnR
{Ralstonia eutropha [TaxId: 106590]}
Length = 205
Score = 45.6 bits (106), Expect = 2e-06
Identities = 11/50 (22%), Positives = 20/50 (40%)
Query: 93 GNLTIATTHTQARYALPKIIKEFTIQFPKVKLSLLQGNPKQITEMIRNDQ 142
G L++A T +LP +++ F P +SL + E +
Sbjct: 2 GELSVAYFGTPIYRSLPLLLRAFLTSTPTATVSLTHMTKDEQVEGLLAGT 51
>d1b9ma1 a.4.5.8 (A:-1-126) N-terminal domain of molybdate-dependent
transcriptional regulator ModE {Escherichia coli [TaxId:
562]}
Length = 127
Score = 40.2 bits (93), Expect = 5e-05
Identities = 14/109 (12%), Positives = 39/109 (35%), Gaps = 5/109 (4%)
Query: 1 MNLHQFRFVREAVRQNFNLTEAAKALYTSQPGVSKAIIELEEELSIDIFIRHGKRIRGLT 60
+ + ++ + + ++++ AK S AI E+ + + R G
Sbjct: 18 ADPRRISLLK-HIALSGSISQGAKDAGISYKSAWDAINEMNQLSEHILVERATGGKGGGG 76
Query: 61 KP----GQAILRSIEIIMQEIEGLKKIGKEFSAYDTGNLTIATTHTQAR 105
GQ +++ +++ Q + + + A +L A + +
Sbjct: 77 AVLTRYGQRLIQLYDLLAQIQQKAFDVLSDDDALPLNSLLAAISRFSLQ 125
>d1jjcb4 d.58.13.1 (B:682-785) Phenylalanyl-tRNA synthetase {Thermus
thermophilus [TaxId: 274]}
Length = 104
Score = 28.2 bits (63), Expect = 0.49
Identities = 12/86 (13%), Positives = 24/86 (27%), Gaps = 18/86 (20%)
Query: 184 ISLKEISNYPLITYDLSFSGRIKLDREFSLQKLTPYIVLETINSDIIKTYVELRMGIGII 243
++ ++ S +P DL+ +V ++ V G +
Sbjct: 1 LAFQDPSRHPAAFRDLAV------------------VVPAPTPYGEVEALVREAAGPYLE 42
Query: 244 ASIAFDSNRDKNLRSISASHLFGTTI 269
+ FD + L S F
Sbjct: 43 SLALFDLYQGPPLPEGHKSLAFHLRF 68
>d1z91a1 a.4.5.28 (A:8-144) Organic hydroperoxide resistance
transcriptional regulator OhrR {Bacillus subtilis
[TaxId: 1423]}
Length = 137
Score = 28.4 bits (63), Expect = 0.58
Identities = 14/73 (19%), Positives = 25/73 (34%), Gaps = 5/73 (6%)
Query: 18 NLTEAAKALYTSQPGVSKAIIELEEELSIDIFI----RHGKRIRGLTKPGQAILRSIEII 73
+ + + LY ++ + +E++ I I LT+ G + I
Sbjct: 49 TVKKMGEQLYLDSGTLTPMLKRMEQQGLITRKRSEEDERSVLIS-LTEDGALLKEKAVDI 107
Query: 74 MQEIEGLKKIGKE 86
I GL K E
Sbjct: 108 PGTILGLSKQSGE 120
>d2onsa1 c.94.1.1 (A:32-342) Molybdate-binding protein, ModA
{Archaeoglobus fulgidus [TaxId: 2234]}
Length = 311
Score = 29.0 bits (63), Expect = 0.78
Identities = 5/45 (11%), Positives = 13/45 (28%), Gaps = 2/45 (4%)
Query: 105 RYALPKIIKEFTIQFPKVKLSLLQGNPKQITEMIR--NDQADIAI 147
+ + F + P V++ + +AD+
Sbjct: 13 TEPMKAFKRAFEEKHPNVEVQTEAAGSAATIRKVTELGRKADVIA 57
>d1laxa_ c.94.1.1 (A:) D-maltodextrin-binding protein, MBP
{Escherichia coli [TaxId: 562]}
Length = 369
Score = 28.6 bits (62), Expect = 0.93
Identities = 12/58 (20%), Positives = 21/58 (36%), Gaps = 2/58 (3%)
Query: 93 GNLTIATTHTQARYALPKIIKEFTIQF-PKVKLSLLQGNPKQITEMIR-NDQADIAIV 148
G L I + L ++ K+F PKV + ++ ++ D DI
Sbjct: 5 GKLVIWINGDKGYNGLAEVGKKFEKDTDPKVTVEHPDKLEEKFPQVAATGDGPDIIFW 62
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.322 0.138 0.383
Gapped
Lambda K H
0.267 0.0686 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,134,986
Number of extensions: 55282
Number of successful extensions: 146
Number of sequences better than 10.0: 1
Number of HSP's gapped: 144
Number of HSP's successfully gapped: 20
Length of query: 306
Length of database: 2,407,596
Length adjustment: 85
Effective length of query: 221
Effective length of database: 1,240,546
Effective search space: 274160666
Effective search space used: 274160666
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 (21.9 bits)
S2: 53 (24.3 bits)