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= psy1897
(473 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DE0|X Chain X, Crystal Structure Of Human Alpha 1,6-fucosyltransferase,
Fut8
Length = 526
Score = 449 bits (1154), Expect = e-126, Method: Compositional matrix adjust.
Identities = 212/459 (46%), Positives = 304/459 (66%), Gaps = 11/459 (2%)
Query: 21 RHILNNIEEFWFYVQSEVRKLKKSNAVDVDK-----ILDLTSQFKRSLMTDMEELGTLAG 75
R I N +E WF++QSE++KLK ++ + +LDL +RS+MTD+ L G
Sbjct: 55 RRIENGAKELWFFLQSELKKLKNLEGNELQRHADEFLLDL-GHHERSIMTDLYYLSQTDG 113
Query: 76 GDTLAERQNRRLGELVQARLRHIQNPRDCKTARKVSCQINWACGFGCQLHHVTYCLIIAY 135
E++ + L ELVQ R+ ++QNP+DC A+K+ C IN CG+GCQLHHV YC +IAY
Sbjct: 114 AGDWREKEAKDLTELVQRRITYLQNPKDCSKAKKLVCNINKGCGYGCQLHHVVYCFMIAY 173
Query: 136 ATNRTLVLDSTGWNYHSGGWEEMFEPLSQTCRTATEGSVIYWPDHKPDK--QIIKLASQT 193
T RTL+L+S W Y +GGWE +F P+S+TC + S +W DK Q+++L
Sbjct: 174 GTQRTLILESQNWRYATGGWETVFRPVSETCTDRSGISTGHWSGEVKDKNVQVVELPIVD 233
Query: 194 YSLSGPGFIPRAVPQDIAQELI--HGEPIVWWVGQIVKYIFKPNAKVRAMLSHHAQQIGF 251
P ++P AVP+D+A L+ HG+P VWWV Q VKY+ +P + + +++GF
Sbjct: 234 SLHPRPPYLPLAVPEDLADRLVRVHGDPAVWWVSQFVKYLIRPQPWLEKEIEEATKKLGF 293
Query: 252 SHPVVGVHIRRTDK-GSEAAPHPIHEYMRHVEEYYAQLSLQVNVTERKVYVATDEKGVIM 310
HPV+GVH+RRTDK G+EAA HPI EYM HVEE++ L+ ++ V +++VY+ATD+ ++
Sbjct: 294 KHPVIGVHVRRTDKVGTEAAFHPIEEYMVHVEEHFQLLARRMQVDKKRVYLATDDPSLLK 353
Query: 311 EIRQKYPAYTILGDASTVEAASSDRRYSTAGLLGIITDLYFLSHSDYLVCTFSSQICRIA 370
E + KYP Y + D S +A RY+ L G+I D++FLS +D+LVCTFSSQ+CR+A
Sbjct: 354 EAKTKYPNYEFISDNSISWSAGLHNRYTENSLRGVILDIHFLSQADFLVCTFSSQVCRVA 413
Query: 371 YELLNTDHRDASLNFKSLDDIWFFAGQRDNIQLAVLDHTPQTADQIELRVGDEVKPAGNH 430
YE++ T H DAS NF SLDDI++F GQ + Q+A+ H P+TAD+I + GD + AGNH
Sbjct: 414 YEIMQTLHPDASANFHSLDDIYYFGGQNAHNQIAIYAHQPRTADEIPMEPGDIIGVAGNH 473
Query: 431 WDGFSRGTNLRTNRHGLYPSFKVISRVETYKFPTYPEVK 469
WDG+S+G N + R GLYPS+KV ++ET K+PTYPE +
Sbjct: 474 WDGYSKGVNRKLGRTGLYPSYKVREKIETVKYPTYPEAE 512
>pdb|2CUC|A Chain A, Solution Structure Of The Sh3 Domain Of The Mouse
Hypothetical Protein Sh3rf2
Length = 70
Score = 38.5 bits (88), Expect = 0.009, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 37/60 (61%)
Query: 395 AGQRDNIQLAVLDHTPQTADQIELRVGDEVKPAGNHWDGFSRGTNLRTNRHGLYPSFKVI 454
+G N+ +A+ ++ ++++L+ G+ ++ G + DG+ +G +L T R G++PS VI
Sbjct: 3 SGSSGNMFVALHTYSAHRPEELDLQKGEGIRVLGKYQDGWLKGLSLLTGRTGIFPSDYVI 62
>pdb|2CT3|A Chain A, Solution Structure Of The Sh3 Domain Of The Vinexin
Protein
Length = 70
Score = 35.4 bits (80), Expect = 0.064, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 25/46 (54%)
Query: 404 AVLDHTPQTADQIELRVGDEVKPAGNHWDGFSRGTNLRTNRHGLYP 449
A+ + PQ D++ELR GD V DG+ G + RT + G +P
Sbjct: 12 AMYQYRPQNEDELELREGDRVDVMQQCDDGWFVGVSRRTQKFGTFP 57
>pdb|2LJ1|A Chain A, The Third Sh3 Domain Of R85fl With Ataxin-7 Prr
Length = 64
Score = 35.0 bits (79), Expect = 0.093, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 26/46 (56%)
Query: 404 AVLDHTPQTADQIELRVGDEVKPAGNHWDGFSRGTNLRTNRHGLYP 449
A+ + PQ D++ELR GD V DG+ GT+ RT + G +P
Sbjct: 11 ALYSYIPQNDDELELRDGDIVDVMEKCDDGWFVGTSRRTKQFGTFP 56
>pdb|2LJ0|A Chain A, The Third Sh3 Domain Of R85fl
Length = 65
Score = 35.0 bits (79), Expect = 0.096, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 26/46 (56%)
Query: 404 AVLDHTPQTADQIELRVGDEVKPAGNHWDGFSRGTNLRTNRHGLYP 449
A+ + PQ D++ELR GD V DG+ GT+ RT + G +P
Sbjct: 11 ALYSYIPQNDDELELRDGDIVDVMEKCDDGWFVGTSRRTKQFGTFP 56
>pdb|2KRN|A Chain A, High Resolution Structure Of The Second Sh3 Domain Of
Cd2ap
Length = 60
Score = 33.5 bits (75), Expect = 0.30, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 405 VLDHTPQTADQIELRVGDEVKPAGNHWDGFSRGTNLRTNRHGLYPS 450
+ D++PQ D++EL VGD + +G+ GT N+ GL+PS
Sbjct: 10 LFDYSPQNEDELELIVGDVIDVIEEVEEGWWSGT--LNNKLGLFPS 53
>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 = 32.3 bits (72), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 21/93 (22%), Positives = 40/93 (43%), Gaps = 10/93 (10%)
Query: 166 CRTATEGSVIYWPDHKPDKQIIKLASQTYSLSGPGFIPRAVPQDIAQELIHGEPIVWWVG 225
CR + + + P H P+ + I L +++ +L P AV + +A +H E +V
Sbjct: 76 CRDELDVGIAFAPVHSPELEAIPLLTESLALVVAQHHPLAVHEQVALSRLHDEKLVLLSA 135
Query: 226 QIVKYIFKPNAKVRAMLSHHAQQIGFSHPVVGV 258
+ R + H+ ++ G HP V +
Sbjct: 136 EFA---------TREQIDHYCEKAGL-HPQVVI 158
>pdb|3U23|A Chain A, Atomic Resolution Crystal Structure Of The 2nd Sh3 Domain
From Human Cd2ap (Cms) In Complex With A Proline-Rich
Peptide From Human Rin3
Length = 65
Score = 32.3 bits (72), Expect = 0.65, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 405 VLDHTPQTADQIELRVGDEVKPAGNHWDGFSRGTNLRTNRHGLYPS 450
+ ++ PQ D++EL+VGD + +G+ GT N+ GL+PS
Sbjct: 13 LFEYIPQNEDELELKVGDIIDINEEVEEGWWSGT--LNNKLGLFPS 56
>pdb|2FEI|A Chain A, Solution Structure Of The Second Sh3 Domain Of Human Cms
Protein
Length = 65
Score = 32.3 bits (72), Expect = 0.65, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 405 VLDHTPQTADQIELRVGDEVKPAGNHWDGFSRGTNLRTNRHGLYPS 450
+ ++ PQ D++EL+VGD + +G+ GT N+ GL+PS
Sbjct: 7 LFEYIPQNEDELELKVGDIIDINEEVEEGWWSGT--LNNKLGLFPS 50
>pdb|4F14|A Chain A, Structure Of The Sh3 Domain Of Human Nebulette In Complex
With A Peptide Of Xirp2
Length = 64
Score = 32.0 bits (71), Expect = 0.78, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 25/47 (53%)
Query: 404 AVLDHTPQTADQIELRVGDEVKPAGNHWDGFSRGTNLRTNRHGLYPS 450
A+ D++ Q D++ R GD + DG+ GT RT R G+ P+
Sbjct: 11 AMYDYSAQDEDEVSFRDGDYIVNVQPIDDGWMYGTVQRTGRTGMLPA 57
>pdb|1WI7|A Chain A, Solution Structure Of The Sh3 Domain Of Sh3-Domain Kinase
Binding Protein 1
Length = 68
Score = 32.0 bits (71), Expect = 0.84, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 32/56 (57%), Gaps = 5/56 (8%)
Query: 395 AGQRDNIQLAVLDHTPQTADQIELRVGDEVKPAGNHWDGFSRGTNLRTNRHGLYPS 450
+G+R + + L PQ D++EL+VGD ++ G +G+ G + + G++PS
Sbjct: 6 SGRRCQVAFSYL---PQNDDELELKVGDIIEVVGEVEEGWWEG--VLNGKTGMFPS 56
>pdb|2O2O|A Chain A, Solution Structure Of Domain B From Human Cin85 Protein
Length = 92
Score = 30.8 bits (68), Expect = 1.5, Method: Composition-based stats.
Identities = 14/45 (31%), Positives = 26/45 (57%), Gaps = 2/45 (4%)
Query: 406 LDHTPQTADQIELRVGDEVKPAGNHWDGFSRGTNLRTNRHGLYPS 450
+ PQ D++EL+VGD ++ G +G+ G + + G++PS
Sbjct: 25 FSYLPQNDDELELKVGDIIEVVGEVEEGWWEG--VLNGKTGMFPS 67
>pdb|3ZF7|N Chain N, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 218
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 37/65 (56%), Gaps = 9/65 (13%)
Query: 286 AQLSLQVNVTERKVYVATDEKGVIMEIRQKYPAYTILGDAST--VEAASSDR-RYSTAGL 342
++ + +NV K Y++ K V+ + +K P GDA+ V+AA+ DR RY TA +
Sbjct: 110 SEEGMNINVQRLKTYMS---KLVLFPLNRKKPQK---GDATEEEVKAATQDRSRYGTAAV 163
Query: 343 LGIIT 347
G++T
Sbjct: 164 GGLVT 168
>pdb|1ZKD|A Chain A, X-ray Structure Of The Putative Protein Q6n1p6 From
Rhodopseudomonas Palustris At The Resolution 2.1 A ,
Northeast Structural Genomics Consortium Target Rpr58
pdb|1ZKD|B Chain B, X-ray Structure Of The Putative Protein Q6n1p6 From
Rhodopseudomonas Palustris At The Resolution 2.1 A ,
Northeast Structural Genomics Consortium Target Rpr58
Length = 387
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 154 GWEEMFEPLSQTCRTATEGSVIYWPDHKPDKQIIKLASQTYSLSGPGFI 202
G+E + PL+ R + G+V W +PD +I+K+AS+ G I
Sbjct: 198 GFEALLPPLA---RLSPPGAVFEW---RPDTEILKIASRVRDQGGAALI 240
>pdb|3ZHE|B Chain B, Structure Of The C. Elegans Smg5-smg7 Complex
pdb|3ZHE|D Chain D, Structure Of The C. Elegans Smg5-smg7 Complex
Length = 395
Score = 29.3 bits (64), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 28/116 (24%), Positives = 49/116 (42%), Gaps = 22/116 (18%)
Query: 256 VGVHIRRTDKGSEAAPHPIHEYMRHVEEYYAQLSLQVNVTERKVYVATDEKGVIMEIRQK 315
+ V +R+ +G+EAAP +Y+RH+ K++VA E V K
Sbjct: 8 LTVELRKIPRGTEAAP----QYLRHL---------------MKMFVADFETAVSKRFDVK 48
Query: 316 YPAYTILGDASTVEAASSDR--RYSTAGL-LGIITDLYFLSHSDYLVCTFSSQICR 368
+ +A +DR ++ L +G +TDL L H Y + + + I +
Sbjct: 49 FWNKLKSMMDEITKAMENDRLVNHNVQNLAIGFLTDLSLLVHYHYEIPNYGNDISK 104
>pdb|3NR1|A Chain A, A Metazoan Ortholog Of Spot Hydrolyzes Ppgpp And Plays A
Role In Starvation Responses
pdb|3NR1|B Chain B, A Metazoan Ortholog Of Spot Hydrolyzes Ppgpp And Plays A
Role In Starvation Responses
Length = 178
Score = 28.9 bits (63), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 35/75 (46%), Gaps = 5/75 (6%)
Query: 178 PDHKPDKQIIKLASQTYSLSGPGFIPRAVPQDIAQELIHGEPIVWWVGQIVKYIFKPNAK 237
P P +++KLA + Y+L + R P+ ++ + + W Q+VK + N +
Sbjct: 108 PHSSPGAKLVKLADKLYNLRD---LNRCTPEGWSEHRV--QEYFEWAAQVVKGLQGTNRQ 162
Query: 238 VRAMLSHHAQQIGFS 252
+ L H +Q G +
Sbjct: 163 LEEALKHLFKQRGLT 177
>pdb|2DIK|A Chain A, R337a Mutant Of Pyruvate Phosphate Dikinase
Length = 873
Score = 28.9 bits (63), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 273 PIHEYMRHVEEYYAQLSLQVNVTERKVYVATDE 305
P+HE++ H EE A+L+ + +T +V DE
Sbjct: 621 PLHEFVPHTEEEQAELAKNMGLTLAEVKAKVDE 653
>pdb|1JDE|A Chain A, K22a Mutant Of Pyruvate, Phosphate Dikinase
Length = 873
Score = 28.9 bits (63), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 273 PIHEYMRHVEEYYAQLSLQVNVTERKVYVATDE 305
P+HE++ H EE A+L+ + +T +V DE
Sbjct: 621 PLHEFVPHTEEEQAELAKNMGLTLAEVKAKVDE 653
>pdb|1GGO|A Chain A, T453a Mutant Of Pyruvate, Phosphate Dikinase
Length = 873
Score = 28.9 bits (63), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 273 PIHEYMRHVEEYYAQLSLQVNVTERKVYVATDE 305
P+HE++ H EE A+L+ + +T +V DE
Sbjct: 621 PLHEFVPHTEEEQAELAKNMGLTLAEVKAKVDE 653
>pdb|1DIK|A Chain A, Pyruvate Phosphate Dikinase
Length = 874
Score = 28.9 bits (63), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 273 PIHEYMRHVEEYYAQLSLQVNVTERKVYVATDE 305
P+HE++ H EE A+L+ + +T +V DE
Sbjct: 622 PLHEFVPHTEEEQAELAKNMGLTLAEVKAKVDE 654
>pdb|1KBL|A Chain A, Pyruvate Phosphate Dikinase
pdb|1KC7|A Chain A, Pyruvate Phosphate Dikinase With Bound
Mg-Phosphonopyruvate
Length = 873
Score = 28.9 bits (63), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 273 PIHEYMRHVEEYYAQLSLQVNVTERKVYVATDE 305
P+HE++ H EE A+L+ + +T +V DE
Sbjct: 621 PLHEFVPHTEEEQAELAKNMGLTLAEVKAKVDE 653
>pdb|2R82|A Chain A, Pyruvate Phosphate Dikinase (Ppdk) Triple Mutant
R219eE271RS262D Adapts A Second Conformational State
Length = 874
Score = 28.9 bits (63), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 273 PIHEYMRHVEEYYAQLSLQVNVTERKVYVATDE 305
P+HE++ H EE A+L+ + +T +V DE
Sbjct: 622 PLHEFVPHTEEEQAELAKNMGLTLAEVKAKVDE 654
>pdb|2FPF|A Chain A, Crystal Structure Of The Ib1 Sh3 Dimer At Low Resolution
pdb|2FPF|B Chain B, Crystal Structure Of The Ib1 Sh3 Dimer At Low Resolution
pdb|2FPF|C Chain C, Crystal Structure Of The Ib1 Sh3 Dimer At Low Resolution
pdb|2FPF|D Chain D, Crystal Structure Of The Ib1 Sh3 Dimer At Low Resolution
Length = 71
Score = 28.9 bits (63), Expect = 6.7, Method: Composition-based stats.
Identities = 14/58 (24%), Positives = 27/58 (46%)
Query: 397 QRDNIQLAVLDHTPQTADQIELRVGDEVKPAGNHWDGFSRGTNLRTNRHGLYPSFKVI 454
+ + A+ P+ D++EL V D + D + N+RT G++P++ I
Sbjct: 4 EHEQTHRAIFRFVPRHEDELELEVDDPLLVELQAEDYWYEAYNMRTGARGVFPAYYAI 61
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
0.320 0.135 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,529,068
Number of Sequences: 62578
Number of extensions: 598155
Number of successful extensions: 1383
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1363
Number of HSP's gapped (non-prelim): 23
length of query: 473
length of database: 14,973,337
effective HSP length: 102
effective length of query: 371
effective length of database: 8,590,381
effective search space: 3187031351
effective search space used: 3187031351
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)