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= 009549
(532 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WGP|A Chain A, Solution Structure Of The Cnmp-Binding Domain From
Arabidopsis Thaliana Cyclic Nucleotide-Regulated Ion
Channel
Length = 137
Score = 106 bits (265), Expect = 3e-23, Method: Composition-based stats.
Identities = 58/142 (40%), Positives = 85/142 (59%), Gaps = 13/142 (9%)
Query: 347 GELGTELLRNVKEFERWGEKELVDLSDCLNPVFFTDRTRIFREGDPIDEMVFVLEGKLWS 406
G G+ +R V FE E+ L + + L P FT+++ + REGDP++EM+F++ G+L S
Sbjct: 1 GSSGSSGVRRVPLFENMDERLLDAICERLKPCLFTEKSYLVREGDPVNEMLFIIRGRLES 60
Query: 407 HSARNVTIATSSDGHNG--KKDYLRYGDFCGEELIAWAQQKVDNPSSSNLPISTTTIQAL 464
T+ G +G + L+ GDFCG+EL+ WA +D S SNLP ST T++AL
Sbjct: 61 --------VTTDGGRSGFYNRSLLKEGDFCGDELLTWA---LDPKSGSNLPSSTRTVKAL 109
Query: 465 TEVEGFYLLASDLKNAFIEHRR 486
TEVE F L+A +LK + RR
Sbjct: 110 TEVEAFALIADELKFVASQFRR 131
>pdb|1RL3|A Chain A, Crystal Structure Of Camp-free R1a Subunit Of Pka
pdb|1RL3|B Chain B, Crystal Structure Of Camp-free R1a Subunit Of Pka
pdb|1RGS|A Chain A, Regulatory Subunit Of Camp Dependent Protein Kinase
Length = 288
Score = 37.4 bits (85), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 36/82 (43%)
Query: 346 KGELGTELLRNVKEFERWGEKELVDLSDCLNPVFFTDRTRIFREGDPIDEMVFVLEGKLW 405
K ++ E L V E + E + ++D L PV F D +I +G+P DE +LEG
Sbjct: 149 KRKMYEEFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGEPGDEFFIILEGSAA 208
Query: 406 SHSARNVTIATSSDGHNGKKDY 427
R+ G G DY
Sbjct: 209 VLQRRSENEEFVEVGRLGPSDY 230
>pdb|1NE4|A Chain A, Crystal Structure Of Rp-Camp Binding R1a Subunit Of Camp-
Dependent Protein Kinase
pdb|1NE6|A Chain A, Crystal Structure Of Sp-Camp Binding R1a Subunit Of Camp-
Dependent Protein Kinase
Length = 283
Score = 37.4 bits (85), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 33/76 (43%)
Query: 352 ELLRNVKEFERWGEKELVDLSDCLNPVFFTDRTRIFREGDPIDEMVFVLEGKLWSHSARN 411
E L V E + E + ++D L PV F D +I +G+P DE +LEG R+
Sbjct: 153 EFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGEPGDEFFIILEGSAAVLQRRS 212
Query: 412 VTIATSSDGHNGKKDY 427
G G DY
Sbjct: 213 ENEEFVEVGRLGPSDY 228
>pdb|2QCS|B Chain B, A Complex Structure Between The Catalytic And Regulatory
Subunit Of Protein Kinase A That Represents The
Inhibited State
Length = 291
Score = 37.0 bits (84), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 33/76 (43%)
Query: 352 ELLRNVKEFERWGEKELVDLSDCLNPVFFTDRTRIFREGDPIDEMVFVLEGKLWSHSARN 411
E L V E + E + ++D L PV F D +I +G+P DE +LEG R+
Sbjct: 157 EFLSKVSILESLDKWERLTVADALEPVQFEDGQKIVVQGEPGDEFFIILEGSAAVLQRRS 216
Query: 412 VTIATSSDGHNGKKDY 427
G G DY
Sbjct: 217 ENEEFVEVGRLGPSDY 232
>pdb|4DIN|B Chain B, Novel Localization And Quaternary Structure Of The Pka Ri
Beta Holoenzyme
Length = 381
Score = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 32/71 (45%), Gaps = 3/71 (4%)
Query: 357 VKEFERWGEKELVDLSDCLNPVFFTDRTRIFREGDPIDEMVFVLEGKLWSHSARNVTIAT 416
++ E+W E + ++D L PV F D +I +G+P D+ + EG R+
Sbjct: 256 LESLEKW---ERLTVADALEPVQFEDGEKIVVQGEPGDDFYIITEGTASVLQRRSPNEEY 312
Query: 417 SSDGHNGKKDY 427
G G DY
Sbjct: 313 VEVGRLGPSDY 323
>pdb|3BEH|A Chain A, Structure Of A Bacterial Cyclic Nucleotide Regulated Ion
Channel
pdb|3BEH|B Chain B, Structure Of A Bacterial Cyclic Nucleotide Regulated Ion
Channel
pdb|3BEH|C Chain C, Structure Of A Bacterial Cyclic Nucleotide Regulated Ion
Channel
pdb|3BEH|D Chain D, Structure Of A Bacterial Cyclic Nucleotide Regulated Ion
Channel
pdb|2ZD9|A Chain A, Structure Of A Bacterial Cyclic-Nucleotide Regulated Ion
Channel
pdb|2ZD9|B Chain B, Structure Of A Bacterial Cyclic-Nucleotide Regulated Ion
Channel
pdb|2ZD9|C Chain C, Structure Of A Bacterial Cyclic-Nucleotide Regulated Ion
Channel
pdb|2ZD9|D Chain D, Structure Of A Bacterial Cyclic-Nucleotide Regulated Ion
Channel
Length = 355
Score = 33.1 bits (74), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 31/110 (28%), Positives = 47/110 (42%), Gaps = 21/110 (19%)
Query: 352 ELLRNVKEFERWGEKELVDLSDCLNPVFFTDRTRIFREGDPIDEMVFVLEGKLWSHSARN 411
+L+ V F++ G LV++ L I R G+P D M FV+EG +
Sbjct: 228 QLVAAVPLFQKLGPAVLVEIVRALRARTVPAGAVICRIGEPGDRMFFVVEG--------S 279
Query: 412 VTIATSSDGHNGKKDYLRYGDFCGE-ELIAWAQQKVDNPSSSNLPISTTT 460
V++AT + G G F GE LI+ P S+ + +TT
Sbjct: 280 VSVATPNPVELGP------GAFFGEMALIS------GEPRSATVSAATTV 317
>pdb|2VWK|A Chain A, Uracil Recognition In Archaeal Dna Polymerases Captured By
X-Ray Crystallography. V93q Polymerase Variant
Length = 773
Score = 30.0 bits (66), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 36/83 (43%), Gaps = 12/83 (14%)
Query: 400 LEGKLWSHSARNVTI-ATSSDGHNGKKDYLRYGDFCGEELIAWAQQKVDNPSSSNLPIST 458
+E KL + R + I A S G+ G Y C E + AW +Q ++
Sbjct: 474 IEKKLLDYRQRAIKILANSFYGYYGYAKARWYCKECAESVTAWGRQYIE----------- 522
Query: 459 TTIQALTEVEGFYLLASDLKNAF 481
TTI+ + E GF +L +D F
Sbjct: 523 TTIREIEEKFGFKVLYADTDGFF 545
>pdb|2VWJ|A Chain A, Uracil Recognition In Archaeal Dna Polymerases Captured By
X-Ray Crystallography
Length = 773
Score = 30.0 bits (66), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 36/83 (43%), Gaps = 12/83 (14%)
Query: 400 LEGKLWSHSARNVTI-ATSSDGHNGKKDYLRYGDFCGEELIAWAQQKVDNPSSSNLPIST 458
+E KL + R + I A S G+ G Y C E + AW +Q ++
Sbjct: 474 IEKKLLDYRQRAIKILANSFYGYYGYAKARWYCKECAESVTAWGRQYIE----------- 522
Query: 459 TTIQALTEVEGFYLLASDLKNAF 481
TTI+ + E GF +L +D F
Sbjct: 523 TTIREIEEKFGFKVLYADTDGFF 545
>pdb|1TGO|A Chain A, Thermostable B Type Dna Polymerase From Thermococcus
Gorgonarius
Length = 773
Score = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 36/83 (43%), Gaps = 12/83 (14%)
Query: 400 LEGKLWSHSARNVTI-ATSSDGHNGKKDYLRYGDFCGEELIAWAQQKVDNPSSSNLPIST 458
+E KL + R + I A S G+ G Y C E + AW +Q ++
Sbjct: 474 IEKKLLDYRQRAIKILANSFYGYYGYAKARWYCKECAESVTAWGRQYIE----------- 522
Query: 459 TTIQALTEVEGFYLLASDLKNAF 481
TTI+ + E GF +L +D F
Sbjct: 523 TTIREIEEKFGFKVLYADTDGFF 545
>pdb|2XHB|A Chain A, Crystal Structure Of Dna Polymerase From Thermococcus
Gorgonarius In Complex With Hypoxanthine-Containing Dna
Length = 773
Score = 30.0 bits (66), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 36/83 (43%), Gaps = 12/83 (14%)
Query: 400 LEGKLWSHSARNVTI-ATSSDGHNGKKDYLRYGDFCGEELIAWAQQKVDNPSSSNLPIST 458
+E KL + R + I A S G+ G Y C E + AW +Q ++
Sbjct: 474 IEKKLLDYRQRAIKILANSFYGYYGYAKARWYCKECAESVTAWGRQYIE----------- 522
Query: 459 TTIQALTEVEGFYLLASDLKNAF 481
TTI+ + E GF +L +D F
Sbjct: 523 TTIREIEEKFGFKVLYADTDGFF 545
>pdb|3IWZ|A Chain A, The C-Di-Gmp Responsive Global Regulator Clp Links
Cell-Cell Signaling To Virulence Gene Expression In
Xanthomonas Campestris
pdb|3IWZ|B Chain B, The C-Di-Gmp Responsive Global Regulator Clp Links
Cell-Cell Signaling To Virulence Gene Expression In
Xanthomonas Campestris
pdb|3IWZ|C Chain C, The C-Di-Gmp Responsive Global Regulator Clp Links
Cell-Cell Signaling To Virulence Gene Expression In
Xanthomonas Campestris
pdb|3IWZ|D Chain D, The C-Di-Gmp Responsive Global Regulator Clp Links
Cell-Cell Signaling To Virulence Gene Expression In
Xanthomonas Campestris
Length = 230
Score = 29.6 bits (65), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 24/57 (42%), Gaps = 7/57 (12%)
Query: 380 FTDRTRIFREGDPIDEMVFVLEGKLWSHSARNVTIATSSDGHNGKKDYLRYGDFCGE 436
+ RT +FR GDP + +V+ G + IA D Y G+F GE
Sbjct: 39 YPTRTDVFRPGDPAGTLYYVISGSVS-------IIAEEDDDRELVLGYFGSGEFVGE 88
>pdb|3I59|A Chain A, Crystal Structure Of Mtbcrp In Complex With N6-Camp
Length = 249
Score = 29.3 bits (64), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 25/53 (47%)
Query: 352 ELLRNVKEFERWGEKELVDLSDCLNPVFFTDRTRIFREGDPIDEMVFVLEGKL 404
E+L F+ + L+ L PV F +F EG+P D + ++ GK+
Sbjct: 28 EILARAGIFQGVEPSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLYIIISGKV 80
>pdb|3D0S|A Chain A, Camp Receptor Protein From M.Tuberculosis, Camp-Free Form
pdb|3D0S|B Chain B, Camp Receptor Protein From M.Tuberculosis, Camp-Free Form
pdb|4A2U|A Chain A, Crp(Cap) From Myco. Tuberculosis, With Camp
pdb|4A2U|B Chain B, Crp(Cap) From Myco. Tuberculosis, With Camp
pdb|4A2U|C Chain C, Crp(Cap) From Myco. Tuberculosis, With Camp
pdb|4A2U|D Chain D, Crp(Cap) From Myco. Tuberculosis, With Camp
pdb|4A2U|E Chain E, Crp(Cap) From Myco. Tuberculosis, With Camp
pdb|4A2U|F Chain F, Crp(Cap) From Myco. Tuberculosis, With Camp
pdb|4A2U|G Chain G, Crp(Cap) From Myco. Tuberculosis, With Camp
pdb|4A2U|H Chain H, Crp(Cap) From Myco. Tuberculosis, With Camp
Length = 227
Score = 29.3 bits (64), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 25/53 (47%)
Query: 352 ELLRNVKEFERWGEKELVDLSDCLNPVFFTDRTRIFREGDPIDEMVFVLEGKL 404
E+L F+ + L+ L PV F +F EG+P D + ++ GK+
Sbjct: 6 EILARAGIFQGVEPSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLYIIISGKV 58
>pdb|3I54|A Chain A, Crystal Structure Of Mtbcrp In Complex With Camp
pdb|3I54|B Chain B, Crystal Structure Of Mtbcrp In Complex With Camp
pdb|3I54|C Chain C, Crystal Structure Of Mtbcrp In Complex With Camp
pdb|3I54|D Chain D, Crystal Structure Of Mtbcrp In Complex With Camp
pdb|3I59|B Chain B, Crystal Structure Of Mtbcrp In Complex With N6-Camp
Length = 249
Score = 29.3 bits (64), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 25/53 (47%)
Query: 352 ELLRNVKEFERWGEKELVDLSDCLNPVFFTDRTRIFREGDPIDEMVFVLEGKL 404
E+L F+ + L+ L PV F +F EG+P D + ++ GK+
Sbjct: 28 EILARAGIFQGVEPSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLYIIISGKV 80
>pdb|2PQQ|A Chain A, Structural Genomics, The Crystal Structure Of The
N-Terminal Domain Of A Transcriptional Regulator From
Streptomyces Coelicolor A3(2)
pdb|2PQQ|B Chain B, Structural Genomics, The Crystal Structure Of The
N-Terminal Domain Of A Transcriptional Regulator From
Streptomyces Coelicolor A3(2)
pdb|2PQQ|C Chain C, Structural Genomics, The Crystal Structure Of The
N-Terminal Domain Of A Transcriptional Regulator From
Streptomyces Coelicolor A3(2)
pdb|2PQQ|D Chain D, Structural Genomics, The Crystal Structure Of The
N-Terminal Domain Of A Transcriptional Regulator From
Streptomyces Coelicolor A3(2)
Length = 149
Score = 29.3 bits (64), Expect = 5.9, Method: Composition-based stats.
Identities = 33/127 (25%), Positives = 49/127 (38%), Gaps = 19/127 (14%)
Query: 352 ELLRNVKEFERWGEKELVDLSDCLNPVFFTDRTRIFREGDPIDEMVFVLEGKLWSHSARN 411
++LR F +++ +L + V +F EGDP D + V EGK+ H
Sbjct: 5 DVLRRNPLFAALDDEQSAELRASXSEVTLARGDTLFHEGDPGDRLYVVTEGKVKLHR--- 61
Query: 412 VTIATSSDGHNGKKDYLRYGDFCGEELIAWAQQKVDNPSSSNLPISTTTIQALTEVEGFY 471
TS DG + + GE + +P T T ALTEV+
Sbjct: 62 ----TSPDGRENXLAVVGPSELIGE-------LSLFDPGP-----RTATGTALTEVKLLA 105
Query: 472 LLASDLK 478
L DL+
Sbjct: 106 LGHGDLQ 112
>pdb|3MZH|A Chain A, Crystal Structure Of Camp Receptor Protein From
Mycobacterium Tuberculosis In Complex With Camp And Its
Dna Binding Element
pdb|3MZH|B Chain B, Crystal Structure Of Camp Receptor Protein From
Mycobacterium Tuberculosis In Complex With Camp And Its
Dna Binding Element
Length = 225
Score = 29.3 bits (64), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 25/53 (47%)
Query: 352 ELLRNVKEFERWGEKELVDLSDCLNPVFFTDRTRIFREGDPIDEMVFVLEGKL 404
E+L F+ + L+ L PV F +F EG+P D + ++ GK+
Sbjct: 4 EILARAGIFQGVEPSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLYIIISGKV 56
>pdb|3H3U|A Chain A, Crystal Structure Of Crp (Camp Receptor Protein) From
Mycoba Tuberculosis
pdb|3H3U|B Chain B, Crystal Structure Of Crp (Camp Receptor Protein) From
Mycoba Tuberculosis
Length = 224
Score = 29.3 bits (64), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 25/53 (47%)
Query: 352 ELLRNVKEFERWGEKELVDLSDCLNPVFFTDRTRIFREGDPIDEMVFVLEGKL 404
E+L F+ + L+ L PV F +F EG+P D + ++ GK+
Sbjct: 3 EILARAGIFQGVEPSAIAALTKQLQPVDFPRGHTVFAEGEPGDRLYIIISGKV 55
>pdb|2XOM|A Chain A, Atomic Resolution Structure Of Tmcbm61 In Complex With
Beta- 1,4-Galactotriose
pdb|2XON|A Chain A, Structure Of Tmcbm61 In Complex With
Beta-1,4-Galactotriose At 1.4 A Resolution
pdb|2XON|L Chain L, Structure Of Tmcbm61 In Complex With
Beta-1,4-Galactotriose At 1.4 A Resolution
Length = 152
Score = 28.9 bits (63), Expect = 6.9, Method: Composition-based stats.
Identities = 21/91 (23%), Positives = 34/91 (37%), Gaps = 8/91 (8%)
Query: 379 FFTDRTRIFREGDPIDEMVFVLEGKLWSHSARNVTIATSSDGHNGKKDYLRYGDFCGEEL 438
F+ D + F ++ V W+H + V IA + G + + E
Sbjct: 53 FWLDESFSFELSQEVELPAGVYRVGFWTHGEKGVKIALKVSDYGGNERSVEV------ET 106
Query: 439 IAWAQQKVDNPSSSNLPISTTTIQALTEVEG 469
W + K NP N+ + T I+ VEG
Sbjct: 107 TGWLEWK--NPEIRNIKVETGRIKITVSVEG 135
>pdb|3SHR|A Chain A, Crystal Structure Of Cgmp-Dependent Protein Kinase Reveals
Novel Site Of Interchain Communication
pdb|3SHR|B Chain B, Crystal Structure Of Cgmp-Dependent Protein Kinase Reveals
Novel Site Of Interchain Communication
Length = 299
Score = 28.5 bits (62), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 367 ELVDLSDCLNPVFFTDRTRIFREGDPIDEMVFVLEGKLWSHSARNVTIATSSDG 420
++ ++ DC+ PV + + I +EGD + +V+V+E + V + T G
Sbjct: 54 QIQEIVDCMYPVEYGKDSCIIKEGD-VGSLVYVMEDGKVEVTKEGVKLCTMGPG 106
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
0.326 0.140 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,433,456
Number of Sequences: 62578
Number of extensions: 635801
Number of successful extensions: 1616
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 1602
Number of HSP's gapped (non-prelim): 28
length of query: 532
length of database: 14,973,337
effective HSP length: 103
effective length of query: 429
effective length of database: 8,527,803
effective search space: 3658427487
effective search space used: 3658427487
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.4 bits)