BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy3760
(306 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1AL3|A Chain A, Cofactor Binding Fragment Of Cysb From Klebsiella
Aerogenes
Length = 324
Score = 259 bits (663), Expect = 9e-70, Method: Compositional matrix adjust.
Identities = 121/301 (40%), Positives = 183/301 (60%)
Query: 1 MNLHQFRFVREAVRQNFNLTEAAKALYTSQPGVSKAXXXXXXXXXXXXXXRHGKRIRGLT 60
M L Q R++ E V N N++ A+ LYTSQPG+SK R GK + +T
Sbjct: 1 MKLQQLRYIVEVVNHNLNVSSTAEGLYTSQPGISKQVRMLEDELGIQIFARSGKHLTQVT 60
Query: 61 KPGQAILRSIEIIMQEIEGLKKIGKEFSAYDTGNLTIATTHTQARYALPKIIKEFTIQFP 120
GQ I+R ++ +++ +K + E + D G+L +ATTHTQARYALP +IK F ++P
Sbjct: 61 PAGQEIIRIAREVLSKVDAIKSVAGEHTWPDKGSLYVATTHTQARYALPGVIKGFIERYP 120
Query: 121 KVKLSLLQGNPKQITEMIRNDQADIAIVTEILSPSDKLISIPCYQWEYVIIVPLDHPLLL 180
+V L + QG+P QI E + AD AI TE L D L+ +PCY W I+V +HPL
Sbjct: 121 RVSLHMHQGSPTQIAEAVSKGNADFAIATEALHLYDDLVMLPCYHWNRSIVVTPEHPLAT 180
Query: 181 LNSISLKEISNYPLITYDLSFSGRIKLDREFSLQKLTPYIVLETINSDIIKTYVELRMGI 240
S+S++E++ YPL+TY F+GR +LD F+ LTP IV ++D+IKTYV L +G+
Sbjct: 181 KGSVSIEELAQYPLVTYTFGFTGRSELDTAFNRAGLTPRIVFTATDADVIKTYVRLGLGV 240
Query: 241 GIIASIAFDSNRDKNLRSISASHLFGTTISRVIIKQGTYLRSYVYSFIKLLSPKLNRKFI 300
G+IAS+A D D +L + A+ +F + +++ ++ T+LRSY+Y FI+ +P L R +
Sbjct: 241 GVIASMAVDPVSDPDLVKLDANGIFSHSTTKIGFRRSTFLRSYMYDFIQRFAPHLTRDVV 300
Query: 301 N 301
+
Sbjct: 301 D 301
>pdb|2FYI|A Chain A, Crystal Structure Of The Cofactor-binding Domain Of The
Cbl Transcriptional Regulator
pdb|2FYI|B Chain B, Crystal Structure Of The Cofactor-binding Domain Of The
Cbl Transcriptional Regulator
pdb|2FYI|C Chain C, Crystal Structure Of The Cofactor-binding Domain Of The
Cbl Transcriptional Regulator
pdb|2FYI|D Chain D, Crystal Structure Of The Cofactor-binding Domain Of The
Cbl Transcriptional Regulator
Length = 228
Score = 178 bits (451), Expect = 4e-45, Method: Compositional matrix adjust.
Identities = 86/219 (39%), Positives = 141/219 (64%)
Query: 84 GKEFSAYDTGNLTIATTHTQARYALPKIIKEFTIQFPKVKLSLLQGNPKQITEMIRNDQA 143
G + +G LTIATTHTQARY+LP++IK F FP+V+L L+QG P++I +++N +A
Sbjct: 5 GSHMTNDTSGVLTIATTHTQARYSLPEVIKAFRELFPEVRLELIQGTPQEIATLLQNGEA 64
Query: 144 DIAIVTEILSPSDKLISIPCYQWEYVIIVPLDHPLLLLNSISLKEISNYPLITYDLSFSG 203
DI I +E LS +L++ P ++W + ++VP DHPL ++ ++L+ I+ +PLITY +G
Sbjct: 65 DIGIASERLSNDPQLVAFPWFRWHHSLLVPHDHPLTQISPLTLESIAKWPLITYRQGITG 124
Query: 204 RIKLDREFSLQKLTPYIVLETINSDIIKTYVELRMGIGIIASIAFDSNRDKNLRSISASH 263
R ++D F+ + L IVL +SD+IKTYV L +GIG++A + ++NL + H
Sbjct: 125 RSRIDDAFARKGLLADIVLSAQDSDVIKTYVALGLGIGLVAEQSSGEQEEENLIRLDTRH 184
Query: 264 LFGTTISRVIIKQGTYLRSYVYSFIKLLSPKLNRKFINK 302
LF + +K+G R+YV+ F++L + L+ + I +
Sbjct: 185 LFDANTVWLGLKRGQLQRNYVWRFLELCNAGLSVEDIKR 223
>pdb|2HXR|A Chain A, Structure Of The Ligand Binding Domain Of E. Coli Cynr, A
Transcriptional Regulator Controlling Cyanate Metabolism
pdb|2HXR|B Chain B, Structure Of The Ligand Binding Domain Of E. Coli Cynr, A
Transcriptional Regulator Controlling Cyanate Metabolism
pdb|3HFU|A Chain A, Crystal Structure Of The Ligand Binding Domain Of E. Coli
Cynr With Its Specific Effector Azide
pdb|3HFU|B Chain B, Crystal Structure Of The Ligand Binding Domain Of E. Coli
Cynr With Its Specific Effector Azide
pdb|3HFU|C Chain C, Crystal Structure Of The Ligand Binding Domain Of E. Coli
Cynr With Its Specific Effector Azide
pdb|3HFU|D Chain D, Crystal Structure Of The Ligand Binding Domain Of E. Coli
Cynr With Its Specific Effector Azide
Length = 238
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 45/190 (23%), Positives = 89/190 (46%), Gaps = 9/190 (4%)
Query: 74 MQEIEGLKKIGKEFSAYDTGNLTIATTHTQARYALPKIIKEFTIQFPKVKLSLLQGNPKQ 133
+QE+ K+ + + G+L IA T T Y + + +F ++P + L L + + ++
Sbjct: 11 LQELGAGKRAIHDVADLTRGSLRIAVTPTFTSYFIGPLXADFYARYPSITLQLQEXSQEK 70
Query: 134 ITEMIRNDQADIAIV-TEILSPSDKLISIPCYQWEYVIIVPLDHPLLLLNSISLKEISNY 192
I + + D+ D+ I + SP +L +IP ++V HPL + ++L + +
Sbjct: 71 IEDXLCRDELDVGIAFAPVHSP--ELEAIPLLTESLALVVAQHHPLAVHEQVALSRLHDE 128
Query: 193 PLITYDLSFSGRIKLDREFSLQKLTPYIVLETINSDIIKTYVEL--RMGIGIIASIAFDS 250
L+ F+ R ++D L P +V+E ++ I +EL R + + A +
Sbjct: 129 KLVLLSAEFATREQIDHYCEKAGLHPQVVIE---ANSISAVLELIRRTSLSTLLPAAIAT 185
Query: 251 NRDKNLRSIS 260
D L++IS
Sbjct: 186 QHD-GLKAIS 194
>pdb|3FZV|A Chain A, Crystal Structure Of Pa01 Protein, Putative Lysr Family
Transcriptional Regulator From Pseudomonas Aeruginosa
pdb|3FZV|B Chain B, Crystal Structure Of Pa01 Protein, Putative Lysr Family
Transcriptional Regulator From Pseudomonas Aeruginosa
pdb|3FZV|C Chain C, Crystal Structure Of Pa01 Protein, Putative Lysr Family
Transcriptional Regulator From Pseudomonas Aeruginosa
pdb|3FZV|D Chain D, Crystal Structure Of Pa01 Protein, Putative Lysr Family
Transcriptional Regulator From Pseudomonas Aeruginosa
Length = 306
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 48/238 (20%), Positives = 93/238 (39%), Gaps = 21/238 (8%)
Query: 18 NLTEAAKALYTSQPGVSKAXXXXXXXXXXXXXXRHGKRIRGLTKPGQAILRSIEIIMQEI 77
++ EA++ LY +QP +S A RH + LT G R + +++
Sbjct: 20 SVAEASRKLYIAQPSISTAVKGLEESFGVQLFIRHHAQGVSLTPAGARFYRKAQELLRXA 79
Query: 78 EGLKKIGKEFSAYDTGNLTIATTHTQARYALPKIIKEFTIQFPKVKLSLLQGNPKQITEM 137
++ + G + I T A LP +I F +P V++ + G +++ +
Sbjct: 80 HEFEQNALADNDVIAGQIDIGCFETVAPLYLPGLIAGFRQAYPGVEIRIRDGEQQELVQG 139
Query: 138 IRNDQADIA----------IVTEILSPSDKLISIPCYQWEYVIIVPLDHPLLLLNSISLK 187
+ + + D+A I TE L P + + ++P H +SL+
Sbjct: 140 LTSGRFDLAFLYEHDLDSTIETEPLXPPQRPHA----------LLPEGHRFAGQAQVSLR 189
Query: 188 EISNYPLITYDLSFSGRIKLDREFSLQKLTPYIVLETINSDIIKTYVELRMGIGIIAS 245
++ P I D+ S R F LTP I + + + ++ V G ++ +
Sbjct: 190 DLCLEPXILLDVQPS-RTYFVSLFEELGLTPNIAFSSPSIEXVRGXVGQGFGFSLLVT 246
>pdb|4AB6|A Chain A, Regulatory Domain Structure Of Nmb2055 (Metr), C103s C106s
Mutant, A Lysr Family Regulator From N. Meningitidis
pdb|4AB6|B Chain B, Regulatory Domain Structure Of Nmb2055 (Metr), C103s C106s
Mutant, A Lysr Family Regulator From N. Meningitidis
Length = 222
Score = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 34/111 (30%), Positives = 56/111 (50%), Gaps = 9/111 (8%)
Query: 91 DTGNLTIAT-THTQARYALPKIIKEFTIQFPKVKLSLLQGNPKQITEMIRNDQADIAIVT 149
+ G L IA +HT + +P + EF +P+V+L ++ G ++ +AD+AIV+
Sbjct: 6 EAGELRIAVESHTSFDWLMPAM-GEFRPMWPQVELDIVSGFQADPVGLLLQHRADLAIVS 64
Query: 150 EILSPSDKLISI---PCYQWEYVIIVPLDHPLLLLNSISLKEISNYPLITY 197
E ++K I P + +E V I DHPL N + ++ LITY
Sbjct: 65 E----AEKQNGISFQPLFAYEMVGICAPDHPLAAKNVWTAEDFIGETLITY 111
>pdb|3JV9|A Chain A, The Structure Of A Reduced Form Of Oxyr From N.
Meningitidis
pdb|3JV9|B Chain B, The Structure Of A Reduced Form Of Oxyr From N.
Meningitidis
Length = 219
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 50/199 (25%), Positives = 83/199 (41%), Gaps = 15/199 (7%)
Query: 93 GNLTIATTHTQARYALPKIIKEFTIQFPKVKLSLLQGNPKQITEMIRNDQADIAIVTEIL 152
G + T A Y LPK+I PK L L + +TE ++ D IV E
Sbjct: 4 GAFKLGLIFTVAPYLLPKLIVSLRRTAPKXPLXLEENYTHTLTESLKRGDVDAIIVAEPF 63
Query: 153 SPSDKLISIPCYQWEYVIIVPLDHPLLLLNSISLKEISNYPLI-------TYDLSFSGRI 205
+++ P Y + +IVP H L+++S + + ++ D S
Sbjct: 64 Q-EPGIVTEPLYDEPFFVIVPKGHSFEELDAVSPRXLGEEQVLLLTEGNCXRDQVLSSCS 122
Query: 206 KLDREFSLQKLTPYIVLETINSDIIKTYVELRMGIGIIASIAFDSNRDKNLRSISASHLF 265
+L + +Q LT + +IN+ I+ V + I ++ + A N D L SI
Sbjct: 123 ELAAKQRIQGLTNTLQGSSINT--IRHXVASGLAISVLPATALTEN-DHXLFSIIPFE-- 177
Query: 266 GTTISRVIIKQGTYLRSYV 284
GT SR ++ Y R++V
Sbjct: 178 GTPPSRRVVL--AYRRNFV 194
>pdb|4AB5|A Chain A, Regulatory Domain Structure Of Nmb2055 (Metr) A Lysr
Family Regulator From N. Meningitidis
pdb|4AB5|B Chain B, Regulatory Domain Structure Of Nmb2055 (Metr) A Lysr
Family Regulator From N. Meningitidis
Length = 222
Score = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 34/111 (30%), Positives = 53/111 (47%), Gaps = 9/111 (8%)
Query: 91 DTGNLTIAT-THTQARYALPKIIKEFTIQFPKVKLSLLQGNPKQITEMIRNDQADIAIVT 149
+ G L IA HT + P EF +P+V+L ++ G ++ +AD+AIV+
Sbjct: 6 EAGELRIAVECHTCFDWLXPAX-GEFRPXWPQVELDIVSGFQADPVGLLLQHRADLAIVS 64
Query: 150 EILSPSDKLISI---PCYQWEYVIIVPLDHPLLLLNSISLKEISNYPLITY 197
E ++K I P + +E V I DHPL N + ++ LITY
Sbjct: 65 E----AEKQNGISFQPLFAYEXVGICAPDHPLAAKNVWTAEDFIGETLITY 111
>pdb|2QL3|A Chain A, Crystal Structure Of The C-Terminal Domain Of A Probable
Lysr Family Transcriptional Regulator From Rhodococcus
Sp. Rha1
pdb|2QL3|B Chain B, Crystal Structure Of The C-Terminal Domain Of A Probable
Lysr Family Transcriptional Regulator From Rhodococcus
Sp. Rha1
pdb|2QL3|C Chain C, Crystal Structure Of The C-Terminal Domain Of A Probable
Lysr Family Transcriptional Regulator From Rhodococcus
Sp. Rha1
pdb|2QL3|D Chain D, Crystal Structure Of The C-Terminal Domain Of A Probable
Lysr Family Transcriptional Regulator From Rhodococcus
Sp. Rha1
pdb|2QL3|E Chain E, Crystal Structure Of The C-Terminal Domain Of A Probable
Lysr Family Transcriptional Regulator From Rhodococcus
Sp. Rha1
pdb|2QL3|F Chain F, Crystal Structure Of The C-Terminal Domain Of A Probable
Lysr Family Transcriptional Regulator From Rhodococcus
Sp. Rha1
pdb|2QL3|G Chain G, Crystal Structure Of The C-Terminal Domain Of A Probable
Lysr Family Transcriptional Regulator From Rhodococcus
Sp. Rha1
pdb|2QL3|H Chain H, Crystal Structure Of The C-Terminal Domain Of A Probable
Lysr Family Transcriptional Regulator From Rhodococcus
Sp. Rha1
pdb|2QL3|I Chain I, Crystal Structure Of The C-Terminal Domain Of A Probable
Lysr Family Transcriptional Regulator From Rhodococcus
Sp. Rha1
pdb|2QL3|J Chain J, Crystal Structure Of The C-Terminal Domain Of A Probable
Lysr Family Transcriptional Regulator From Rhodococcus
Sp. Rha1
pdb|2QL3|K Chain K, Crystal Structure Of The C-Terminal Domain Of A Probable
Lysr Family Transcriptional Regulator From Rhodococcus
Sp. Rha1
pdb|2QL3|L Chain L, Crystal Structure Of The C-Terminal Domain Of A Probable
Lysr Family Transcriptional Regulator From Rhodococcus
Sp. Rha1
Length = 209
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 29/136 (21%), Positives = 62/136 (45%), Gaps = 9/136 (6%)
Query: 108 LPKIIKEFTIQFPKVKLSLLQGNPKQITEMIRNDQADIAIVTEI-LSPSDKLISIPCYQW 166
LP + FT ++P+ + + ++ + + D+AIV ++ LSP + ++P
Sbjct: 20 LPSXLYAFTAEYPRASVEFREDTQNRLRTQLEGGELDVAIVYDLDLSPEWQ--TVPLXTR 77
Query: 167 EYVIIVPLDHPLLLLNS-ISLKEISNYPLITYDLSFSGRIKLD--REFSLQKLTPYIVLE 223
E +++ +HPL ++ + L +++ +P + D S D RE P +
Sbjct: 78 EPXVVLGAEHPLAGVDGPVRLADLAEHPXVLLDAPPSTNHAXDVCRE---AGFAPRVAYR 134
Query: 224 TINSDIIKTYVELRMG 239
T N + + +V +G
Sbjct: 135 TANFETARAFVGRGLG 150
>pdb|3FXQ|A Chain A, Crystal Structure Of The Lysr-Type Transcriptional
Regulator Tsar
pdb|3FXQ|B Chain B, Crystal Structure Of The Lysr-Type Transcriptional
Regulator Tsar
pdb|3FXR|A Chain A, Crystal Structure Of Tsar In Complex With Sulfate
pdb|3FXR|B Chain B, Crystal Structure Of Tsar In Complex With Sulfate
pdb|3FXU|A Chain A, Crystal Structure Of Tsar In Complex With Its Effector P-
Toluenesulfonate
pdb|3FXU|B Chain B, Crystal Structure Of Tsar In Complex With Its Effector P-
Toluenesulfonate
pdb|3FZJ|A Chain A, Tsar Low Resolution Crystal Structure, Tetragonal Form
pdb|3FZJ|B Chain B, Tsar Low Resolution Crystal Structure, Tetragonal Form
pdb|3FZJ|C Chain C, Tsar Low Resolution Crystal Structure, Tetragonal Form
pdb|3FZJ|D Chain D, Tsar Low Resolution Crystal Structure, Tetragonal Form
pdb|3FZJ|E Chain E, Tsar Low Resolution Crystal Structure, Tetragonal Form
pdb|3FZJ|F Chain F, Tsar Low Resolution Crystal Structure, Tetragonal Form
pdb|3FZJ|G Chain G, Tsar Low Resolution Crystal Structure, Tetragonal Form
pdb|3FZJ|H Chain H, Tsar Low Resolution Crystal Structure, Tetragonal Form
pdb|3FZJ|I Chain I, Tsar Low Resolution Crystal Structure, Tetragonal Form
pdb|3FZJ|J Chain J, Tsar Low Resolution Crystal Structure, Tetragonal Form
Length = 305
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 47/176 (26%), Positives = 79/176 (44%), Gaps = 6/176 (3%)
Query: 18 NLTEAAKALYTSQPGVSKAXXXXXXXXXXXXXXRHGKRIRGLTKPGQAILRSIEIIMQEI 77
+L AA+ L+ SQP +S A R KR LT GQA ++ +I+ E
Sbjct: 18 SLRAAAQLLHLSQPALSAAIQQLEDELKAPLLVR-TKRGVSLTSFGQAFMKHARLIVTES 76
Query: 78 E-GLKKIGKEFSAYDTGNLTIATTHTQARYALPKIIKEFTIQFPKVKLSLLQGNPKQITE 136
++IG+ ++ G++T A + A ALP + F +FP V +++ G ++
Sbjct: 77 RRAQEEIGQLRGRWE-GHITFAASPAIALAALPLALASFAREFPDVTVNVRDGMYPAVSP 135
Query: 137 MIRNDQADIAIVTEILSPSD-KLISIPCYQWEYVIIVPLDHPLLLLNSISLKEISN 191
+R+ D A+ D L + P Y + VI+ HP + N+ L E+
Sbjct: 136 QLRDGTLDFALTAAHKHDIDTDLEAQPLYVSDVVIVGQRQHP--MANATRLAELQE 189
>pdb|1PWE|A Chain A, Rat Liver L-Serine Dehydratase Apo Enzyme
pdb|1PWE|B Chain B, Rat Liver L-Serine Dehydratase Apo Enzyme
pdb|1PWE|C Chain C, Rat Liver L-Serine Dehydratase Apo Enzyme
pdb|1PWE|D Chain D, Rat Liver L-Serine Dehydratase Apo Enzyme
pdb|1PWE|E Chain E, Rat Liver L-Serine Dehydratase Apo Enzyme
pdb|1PWE|F Chain F, Rat Liver L-Serine Dehydratase Apo Enzyme
pdb|1PWH|A Chain A, Rat Liver L-Serine Dehydratase- Complex With Pyridoxyl-(O-
Methyl-Serine)-5-Monophosphate
pdb|1PWH|B Chain B, Rat Liver L-Serine Dehydratase- Complex With Pyridoxyl-(O-
Methyl-Serine)-5-Monophosphate
pdb|1PWH|C Chain C, Rat Liver L-Serine Dehydratase- Complex With Pyridoxyl-(O-
Methyl-Serine)-5-Monophosphate
pdb|1PWH|D Chain D, Rat Liver L-Serine Dehydratase- Complex With Pyridoxyl-(O-
Methyl-Serine)-5-Monophosphate
Length = 327
Score = 34.7 bits (78), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 44/107 (41%), Gaps = 13/107 (12%)
Query: 81 KKIGKEFSAYDTGNLTIATTHTQARYALPKIIKEFTIQFPKVKLSLLQGNPKQITEMIRN 140
K+ K F GN +AT + R LP TI P P E ++N
Sbjct: 54 KQGCKHFVCSSAGNAGMATAYAARRLGLPA-----TIVVPST-------TPALTIERLKN 101
Query: 141 DQADIAIVTEILSPSDKLI-SIPCYQWEYVIIVPLDHPLLLLNSISL 186
+ A + +V E+L + +L ++ +V I P D PL+ SL
Sbjct: 102 EGATVEVVGEMLDEAIQLAKALEKNNPGWVYISPFDDPLIWEGHTSL 148
>pdb|3AT7|A Chain A, Crystal Structure Of Bacterial Cell-Surface
Alginate-Binding Protein Algp7
pdb|3AT7|B Chain B, Crystal Structure Of Bacterial Cell-Surface
Alginate-Binding Protein Algp7
Length = 283
Score = 30.8 bits (68), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 54 KRIRGLTKPGQAILRSIEIIMQEIEGLKKIGKE 86
KRIRGLT P + ++ ++M+E+ K G+E
Sbjct: 147 KRIRGLTFPPEKVVGGAAVLMEEVAATKISGEE 179
>pdb|3IYD|C Chain C, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
pdb|4IGC|C Chain C, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|H Chain H, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
Length = 1342
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 40/79 (50%), Gaps = 5/79 (6%)
Query: 197 YDLSFSGRIKLDREFSLQKLTPYIVLETIN-SDIIKTYVELRMGIGIIASIAFDSNRDKN 255
YDLS GR+K +R +++ +L + D++K +++R G G + I NR
Sbjct: 395 YDLSAVGRMKFNRSLLREEIEGSGILSKDDIIDVMKKLIDIRNGKGEVDDIDHLGNR--R 452
Query: 256 LRSIS--ASHLFGTTISRV 272
+RS+ A + F + RV
Sbjct: 453 IRSVGEMAENQFRVGLVRV 471
>pdb|3LU0|C Chain C, Molecular Model Of Escherichia Coli Core Rna Polymerase
Length = 1342
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 40/79 (50%), Gaps = 5/79 (6%)
Query: 197 YDLSFSGRIKLDREFSLQKLTPYIVLETIN-SDIIKTYVELRMGIGIIASIAFDSNRDKN 255
YDLS GR+K +R +++ +L + D++K +++R G G + I NR
Sbjct: 395 YDLSAVGRMKFNRSLLREEIEGSGILSKDDIIDVMKKLIDIRNGKGEVDDIDHLGNR--R 452
Query: 256 LRSIS--ASHLFGTTISRV 272
+RS+ A + F + RV
Sbjct: 453 IRSVGEMAENQFRVGLVRV 471
>pdb|2YWX|A Chain A, Crystal Structure Of Phosphoribosylaminoimidazole
Carboxylase Catalytic Subunit From Methanocaldococcus
Jannaschii
Length = 157
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 42/74 (56%), Gaps = 2/74 (2%)
Query: 111 IIKEFTIQFPKVKLSLLQGNPKQITEMIRNDQADIAIVTEILSPSDKLISIPCYQWEYVI 170
I+KEF ++F +V+++ P+ + E+++N +AD+ I L+ + + + VI
Sbjct: 21 ILKEFGVEF-EVRVASAHRTPELVEEIVKNSKADVFIAIAGLAAHLPGV-VASLTTKPVI 78
Query: 171 IVPLDHPLLLLNSI 184
VP+D L L+++
Sbjct: 79 AVPVDAKLDGLDAL 92
>pdb|1OH3|A Chain A, E78r Mutant Of A Carbohydrate Binding Module Family 29
pdb|1OH3|B Chain B, E78r Mutant Of A Carbohydrate Binding Module Family 29
Length = 144
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 7/67 (10%)
Query: 112 IKEFTIQFPKVKLSLLQGNPKQITEMIRNDQADIAIVTEILSPSDKLISIPCYQWEYVII 171
+K + F L N ++ ++RN +AD E +SPSD+ ++ Y++
Sbjct: 51 LKRNSGSFRGGSLRFDMKNEGKVKILVRNSEADEKFEVETISPSDEYVT-------YILD 103
Query: 172 VPLDHPL 178
V D P
Sbjct: 104 VDFDLPF 110
>pdb|1W8Z|A Chain A, Cbm29-2 Mutant K85a: Probing The Mechanism Of Ligand
Recognition By Family 29 Carbohydrate Binding Modules
pdb|1W8Z|B Chain B, Cbm29-2 Mutant K85a: Probing The Mechanism Of Ligand
Recognition By Family 29 Carbohydrate Binding Modules
Length = 149
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 7/67 (10%)
Query: 112 IKEFTIQFPKVKLSLLQGNPKQITEMIRNDQADIAIVTEILSPSDKLISIPCYQWEYVII 171
+K + F L N ++ ++ N +AD A E +SPSD+ ++ Y++
Sbjct: 51 LKRNSGSFRGGSLRFDMKNEGKVKILVENSEADEAFEVETISPSDEYVT-------YILD 103
Query: 172 VPLDHPL 178
V D P
Sbjct: 104 VDFDLPF 110
>pdb|1IZ1|A Chain A, Crystal Structure Of Cbnr, A Lysr Family Transcriptional
Regulator
pdb|1IZ1|B Chain B, Crystal Structure Of Cbnr, A Lysr Family Transcriptional
Regulator
pdb|1IZ1|P Chain P, Crystal Structure Of Cbnr, A Lysr Family Transcriptional
Regulator
pdb|1IZ1|Q Chain Q, Crystal Structure Of Cbnr, A Lysr Family Transcriptional
Regulator
Length = 294
Score = 28.1 bits (61), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 27/121 (22%), Positives = 47/121 (38%), Gaps = 9/121 (7%)
Query: 24 KALYTSQPGVSKAXXXXXXXXXXXXXXRHGKRIRGLTKPGQAILRSIEIIMQEIEGLKKI 83
K L+ SQP +++ R + I LT G A L I++
Sbjct: 23 KRLHVSQPPITRQMQALEADLGVVLLERSHRGIE-LTAAGHAFLEDARRILELAGRSGDR 81
Query: 84 GKEFSAYDTGNLTIATTHTQARYALPKIIKEFTIQFPKVKLSLLQGNPKQITEMIRNDQA 143
+ + D G L++A T +LP +++ F P +SL T M +++Q
Sbjct: 82 SRAAARGDVGELSVAYFGTPIYRSLPLLLRAFLTSTPTATVSL--------THMTKDEQV 133
Query: 144 D 144
+
Sbjct: 134 E 134
>pdb|3ONM|A Chain A, Effector Binding Domain Of Lysr-Type Transcription Factor
Rovm From Y. Pseudotuberculosis
pdb|3ONM|B Chain B, Effector Binding Domain Of Lysr-Type Transcription Factor
Rovm From Y. Pseudotuberculosis
Length = 238
Score = 27.7 bits (60), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 31/71 (43%)
Query: 79 GLKKIGKEFSAYDTGNLTIATTHTQARYALPKIIKEFTIQFPKVKLSLLQGNPKQITEMI 138
GL G + G+L I + A LP ++ +P++ + + I +M+
Sbjct: 13 GLVPRGSHMYSNMEGSLIIGASDDTADTLLPFLLNRVATLYPRLAIDVRVKRSPFIADML 72
Query: 139 RNDQADIAIVT 149
+ + D+AI T
Sbjct: 73 SSGEVDLAITT 83
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.138 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,644,105
Number of Sequences: 62578
Number of extensions: 280698
Number of successful extensions: 773
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 756
Number of HSP's gapped (non-prelim): 25
length of query: 306
length of database: 14,973,337
effective HSP length: 98
effective length of query: 208
effective length of database: 8,840,693
effective search space: 1838864144
effective search space used: 1838864144
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)