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= 043758
(918 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 35.8 bits (81), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 41/106 (38%), Gaps = 11/106 (10%)
Query: 726 YLYNDIFLLLCGVGR----------MDDAYDHFQMMKREGLRPNQVTFCILINGHIAAGE 775
Y YN + L +C + + +D F+ M + + PN+ TF +A +
Sbjct: 62 YHYN-VLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDD 120
Query: 776 IDQAIGLFNQMNADGCVPDKTVYNTLLKGLCQAGRLSHVFSVFYSM 821
+ A + QM A G P Y L G C+ G + V M
Sbjct: 121 PEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM 166
Score = 33.5 bits (75), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 31/67 (46%)
Query: 526 DMFKRMLKAGIDPDEVFFTTMINGYLQNRKPIEACQLFEKMKENSVQPGSYPYTALISGL 585
D+FK+M+ + P+E FT + P A + ++MK +QP Y + G
Sbjct: 91 DIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGF 150
Query: 586 VKKGMVD 592
+KG D
Sbjct: 151 CRKGDAD 157
>pdb|1SRQ|A Chain A, Crystal Structure Of The Rap1gap Catalytic Domain
pdb|1SRQ|B Chain B, Crystal Structure Of The Rap1gap Catalytic Domain
pdb|1SRQ|C Chain C, Crystal Structure Of The Rap1gap Catalytic Domain
pdb|1SRQ|D Chain D, Crystal Structure Of The Rap1gap Catalytic Domain
Length = 341
Score = 33.1 bits (74), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 896 RLPCTSTRGFWRKHFIGKEKFNF 918
+L C T +RKHF+GKE FN+
Sbjct: 6 KLECNPTARIYRKHFLGKEHFNY 28
>pdb|3BRW|A Chain A, Structure Of The Rap-Rapgap Complex
pdb|3BRW|B Chain B, Structure Of The Rap-Rapgap Complex
pdb|3BRW|C Chain C, Structure Of The Rap-Rapgap Complex
Length = 341
Score = 33.1 bits (74), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 896 RLPCTSTRGFWRKHFIGKEKFNF 918
+L C T +RKHF+GKE FN+
Sbjct: 6 KLECNPTARIYRKHFLGKEHFNY 28
>pdb|2DU5|A Chain A, Crystal Structure Of Archaeoglobus Fulgidus
O-Phosphoseryl- Trna Synthetase E418nE420N MUTANT
COMPLEXED WITH TRNAOPAL And O-Phosphoserine ("opal
Complex")
pdb|2DU5|B Chain B, Crystal Structure Of Archaeoglobus Fulgidus
O-Phosphoseryl- Trna Synthetase E418nE420N MUTANT
COMPLEXED WITH TRNAOPAL And O-Phosphoserine ("opal
Complex")
pdb|2DU6|A Chain A, Crystal Structure Of Archaeoglobus Fulgidus
O-Phosphoseryl- Trna Synthetase E418nE420N MUTANT
COMPLEXED WITH TRNAAMBER And O-Phosphoserine ("amber
Complex")
pdb|2DU6|B Chain B, Crystal Structure Of Archaeoglobus Fulgidus
O-Phosphoseryl- Trna Synthetase E418nE420N MUTANT
COMPLEXED WITH TRNAAMBER And O-Phosphoserine ("amber
Complex")
Length = 534
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 36/135 (26%), Positives = 62/135 (45%), Gaps = 16/135 (11%)
Query: 421 SALCKGGK---YEKAYVCLFQLVNFGY---RPLVFTCNTLIKCFYQVGFLEGANAIVELM 474
A K GK E++ L+ V F + PL T L + + +GF E N ++ +
Sbjct: 17 EAAWKAGKEILAERSPNELYPRVGFSFGKEHPLFATIQRLREAYLSIGFSEVVNPLI--V 74
Query: 475 QDTEGNCKWGNLDSALDILDQ--MEVRGPKPSVAIYDAIIGHL-CKEKRILEA---EDMF 528
+D ++G AL +LD+ PKP+V I I + KR +++ +++F
Sbjct: 75 EDVHVKKQFGR--EALAVLDRCFYLATLPKPNVGISAEKIRQIEAITKREVDSKPLQEIF 132
Query: 529 KRMLKAGIDPDEVFF 543
R K ID D++ +
Sbjct: 133 HRYKKGEIDGDDLSY 147
>pdb|2DU3|A Chain A, Crystal Structure Of Archaeoglobus Fulgidus
O-Phosphoseryl- Trna Synthetase Complexed With Trnacys
And O-Phosphoserine
pdb|2DU3|B Chain B, Crystal Structure Of Archaeoglobus Fulgidus
O-Phosphoseryl- Trna Synthetase Complexed With Trnacys
And O-Phosphoserine
pdb|2DU4|A Chain A, Crystal Structure Of Archaeoglobus Fulgidus
O-Phosphoseryl- Trna Synthetase Complexed With Trnacys
pdb|2DU4|B Chain B, Crystal Structure Of Archaeoglobus Fulgidus
O-Phosphoseryl- Trna Synthetase Complexed With Trnacys
Length = 534
Score = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 36/135 (26%), Positives = 62/135 (45%), Gaps = 16/135 (11%)
Query: 421 SALCKGGK---YEKAYVCLFQLVNFGY---RPLVFTCNTLIKCFYQVGFLEGANAIVELM 474
A K GK E++ L+ V F + PL T L + + +GF E N ++ +
Sbjct: 17 EAAWKAGKEILAERSPNELYPRVGFSFGKEHPLFATIQRLREAYLSIGFSEVVNPLI--V 74
Query: 475 QDTEGNCKWGNLDSALDILDQ--MEVRGPKPSVAIYDAIIGHL-CKEKRILEA---EDMF 528
+D ++G AL +LD+ PKP+V I I + KR +++ +++F
Sbjct: 75 EDVHVKKQFGR--EALAVLDRCFYLATLPKPNVGISAEKIRQIEAITKREVDSKPLQEIF 132
Query: 529 KRMLKAGIDPDEVFF 543
R K ID D++ +
Sbjct: 133 HRYKKGEIDGDDLSY 147
>pdb|4H0P|A Chain A, Crystal Structure Of Acetate Kinase From Cryptococcus
Neoformans
pdb|4H0P|B Chain B, Crystal Structure Of Acetate Kinase From Cryptococcus
Neoformans
Length = 438
Score = 30.4 bits (67), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 37/176 (21%), Positives = 67/176 (38%), Gaps = 41/176 (23%)
Query: 182 IRTVEAESFAREMESQGFYVDKLMYTSLINGYCSNRNMKMAMRLFFRMLKTGCEPDSYTC 241
I+T E ++ E + Y DK+ Y SL+ + + E Y C
Sbjct: 48 IKTTWEEGKGKDSEEEADYGDKIRYASLV---------PILLDHLTNSTHVKKEEIKYVC 98
Query: 242 NTLIHGFFKMGLFDKGWVLYSQMSDWGFQPNMVTDLIMISNYCREGEVDAALMLLNSKVS 301
+ ++HG G+ DKG + + + + +++ + N+ A++ + S
Sbjct: 99 HRVVHG----GMHDKGIRVVKGHEEGLMEMDKLSEFAPLHNH-------RAVLAVKS--- 144
Query: 302 SNLAPSVHCYTVLIDALYKHNRLMEVDELYKKMLANRV------APDHLLSFILLK 351
C IDAL H L+ D ++ + +A V PD L+ L K
Sbjct: 145 --------C----IDALPHHTSLLLFDTIFHRTIAPEVYTYALPPPDTELTMPLRK 188
>pdb|2G9X|B Chain B, Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN
COMPLEX WITH THE Inhibitor Nu6271
pdb|2G9X|D Chain D, Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN
COMPLEX WITH THE Inhibitor Nu6271
Length = 262
Score = 30.0 bits (66), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 45/102 (44%), Gaps = 5/102 (4%)
Query: 289 VDAALMLLNSKVSSNLAPSVHCYTVLIDALYKHNRLMEVDELYKKMLA-NRVAP--DHLL 345
V A MLL SK P V + + D Y +++ ++ L K+LA + AP + L
Sbjct: 86 VGTAAMLLASKFEEIYPPEVAEFVYITDDTYTKKQVLRMEHLVLKVLAFDLAAPTINQFL 145
Query: 346 SFILLKNCPEGTELQHALMLLCEFAKIGCGIDPLARSISATL 387
+ L P +++ M L E + I DP + + + +
Sbjct: 146 TQYFLHQQPANCKVESLAMFLGELSLIDA--DPYLKYLPSVI 185
>pdb|1VIN|A Chain A, Bovine Cyclin A3
Length = 268
Score = 30.0 bits (66), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 45/102 (44%), Gaps = 5/102 (4%)
Query: 289 VDAALMLLNSKVSSNLAPSVHCYTVLIDALYKHNRLMEVDELYKKMLA-NRVAP--DHLL 345
V A MLL SK P V + + D Y +++ ++ L K+LA + AP + L
Sbjct: 86 VGTAAMLLASKFEEIYPPEVAEFVYITDDTYTKKQVLRMEHLVLKVLAFDLAAPTINQFL 145
Query: 346 SFILLKNCPEGTELQHALMLLCEFAKIGCGIDPLARSISATL 387
+ L P +++ M L E + I DP + + + +
Sbjct: 146 TQYFLHQQPANCKVESLAMFLGELSLIDA--DPYLKYLPSVI 185
>pdb|3DDQ|B Chain B, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX
With The Inhibitor Roscovitine
pdb|3DDQ|D Chain D, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX
With The Inhibitor Roscovitine
Length = 269
Score = 29.6 bits (65), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 45/102 (44%), Gaps = 5/102 (4%)
Query: 289 VDAALMLLNSKVSSNLAPSVHCYTVLIDALYKHNRLMEVDELYKKMLA-NRVAP--DHLL 345
V A MLL SK P V + + D Y +++ ++ L K+LA + AP + L
Sbjct: 86 VGTAAMLLASKFEEIYPPEVAEFVYITDDTYTKKQVLRMEHLVLKVLAFDLAAPTINQFL 145
Query: 346 SFILLKNCPEGTELQHALMLLCEFAKIGCGIDPLARSISATL 387
+ L P +++ M L E + I DP + + + +
Sbjct: 146 TQYFLHQQPANCKVESLAMFLGELSLIDA--DPYLKYLPSVI 185
>pdb|3DDP|B Chain B, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX
With The Inhibitor Cr8
pdb|3DDP|D Chain D, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX
With The Inhibitor Cr8
Length = 268
Score = 29.6 bits (65), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 45/102 (44%), Gaps = 5/102 (4%)
Query: 289 VDAALMLLNSKVSSNLAPSVHCYTVLIDALYKHNRLMEVDELYKKMLA-NRVAP--DHLL 345
V A MLL SK P V + + D Y +++ ++ L K+LA + AP + L
Sbjct: 86 VGTAAMLLASKFEEIYPPEVAEFVYITDDTYTKKQVLRMEHLVLKVLAFDLAAPTINQFL 145
Query: 346 SFILLKNCPEGTELQHALMLLCEFAKIGCGIDPLARSISATL 387
+ L P +++ M L E + I DP + + + +
Sbjct: 146 TQYFLHQQPANCKVESLAMFLGELSLIDA--DPYLKYLPSVI 185
>pdb|3BHT|B Chain B, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX
WITH THE Inhibitor Meriolin 3
pdb|3BHT|D Chain D, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX
WITH THE Inhibitor Meriolin 3
pdb|3BHU|B Chain B, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX
WITH THE Inhibitor Meriolin 5
pdb|3BHU|D Chain D, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX
WITH THE Inhibitor Meriolin 5
pdb|3BHV|B Chain B, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX
With The Inhibitor Variolin B
pdb|3BHV|D Chain D, Structure Of Phosphorylated Thr160 Cdk2CYCLIN A IN COMPLEX
With The Inhibitor Variolin B
pdb|3MY5|B Chain B, Cdk2CYCLINA IN COMPLEX WITH DRB
pdb|3MY5|D Chain D, Cdk2CYCLINA IN COMPLEX WITH DRB
pdb|3TNW|B Chain B, Structure Of Cdk2CYCLIN A IN COMPLEX WITH CAN508
pdb|3TNW|D Chain D, Structure Of Cdk2CYCLIN A IN COMPLEX WITH CAN508
Length = 262
Score = 29.6 bits (65), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 45/102 (44%), Gaps = 5/102 (4%)
Query: 289 VDAALMLLNSKVSSNLAPSVHCYTVLIDALYKHNRLMEVDELYKKMLA-NRVAP--DHLL 345
V A MLL SK P V + + D Y +++ ++ L K+LA + AP + L
Sbjct: 86 VGTAAMLLASKFEEIYPPEVAEFVYITDDTYTKKQVLRMEHLVLKVLAFDLAAPTINQFL 145
Query: 346 SFILLKNCPEGTELQHALMLLCEFAKIGCGIDPLARSISATL 387
+ L P +++ M L E + I DP + + + +
Sbjct: 146 TQYFLHQQPANCKVESLAMFLGELSLIDA--DPYLKYLPSVI 185
>pdb|3DOG|B Chain B, Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN
Complex With The Inhibitor N-&-N1
pdb|3DOG|D Chain D, Structure Of Thr 160 Phosphorylated Cdk2CYCLIN A IN
Complex With The Inhibitor N-&-N1
Length = 264
Score = 29.6 bits (65), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 45/102 (44%), Gaps = 5/102 (4%)
Query: 289 VDAALMLLNSKVSSNLAPSVHCYTVLIDALYKHNRLMEVDELYKKMLA-NRVAP--DHLL 345
V A MLL SK P V + + D Y +++ ++ L K+LA + AP + L
Sbjct: 86 VGTAAMLLASKFEEIYPPEVAEFVYITDDTYTKKQVLRMEHLVLKVLAFDLAAPTINQFL 145
Query: 346 SFILLKNCPEGTELQHALMLLCEFAKIGCGIDPLARSISATL 387
+ L P +++ M L E + I DP + + + +
Sbjct: 146 TQYFLHQQPANCKVESLAMFLGELSLIDA--DPYLKYLPSVI 185
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 0.141 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,592,883
Number of Sequences: 62578
Number of extensions: 1043653
Number of successful extensions: 2625
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 2612
Number of HSP's gapped (non-prelim): 18
length of query: 918
length of database: 14,973,337
effective HSP length: 108
effective length of query: 810
effective length of database: 8,214,913
effective search space: 6654079530
effective search space used: 6654079530
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 56 (26.2 bits)