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= 047759
(102 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1YDU|A Chain A, Solution Nmr Structure Of At5g01610, An Arabidopsis
Thaliana Protein Containing Duf538 Domain
Length = 170
Score = 33.5 bits (75), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 44/77 (57%), Gaps = 3/77 (3%)
Query: 24 LLKKFELPEGLLPLANVVEVGYVESTGYMWIVQQNKVEHEFKMISKLVSYDTEINGYVDK 83
LLK+++LP G+ P + + E T + ++ + E +K S ++ + T + G+++K
Sbjct: 57 LLKEYDLPIGIFP-GDATNYEFDEETKKLTVLIPSICEVGYKD-SSVLKFTTTVTGHLEK 114
Query: 84 MKIKKLRGVKAKELMLW 100
K+ + G+K K +M+W
Sbjct: 115 GKLTDVEGIKTK-VMIW 130
>pdb|2UWX|A Chain A, Active Site Restructuring Regulates Ligand Recognition In
Class A Penicillin-Binding Proteins
Length = 494
Score = 28.1 bits (61), Expect = 1.5, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 11/76 (14%)
Query: 5 KEGGIVKKGHEEGLKLAVSLLKKFELPE-GL--LPLANVVEVGYVESTGYMWIVQQNKVE 61
+E G+ KG+ E + +E+PE G+ LP+ +EV + T + N V
Sbjct: 232 RENGVDVKGYMEKMG--------YEIPEYGIESLPMGGGIEVTVAQHTNGYQTLANNGVY 283
Query: 62 HEFKMISKLVSYDTEI 77
H+ +ISK+ + D +
Sbjct: 284 HQKHVISKIEAADGRV 299
>pdb|1S6I|A Chain A, Ca2+-Regulatory Region (Cld) From Soybean
Calcium-Dependent Protein Kinase-Alpha (Cdpk) In The
Presence Of Ca2+ And The Junction Domain (Jd)
Length = 188
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 37/67 (55%), Gaps = 2/67 (2%)
Query: 16 EGLKLAVSLLKKFELPEGLLPLANVVEVGYVESTGYMW-IVQQNKVEHEFKMISKLVSYD 74
+GLK S L + E+ + L+ A++ + G ++ ++ V NK+E E ++S +D
Sbjct: 34 DGLKRVGSELMESEIKD-LMDAADIDKSGTIDYGEFIAATVHLNKLEREENLVSAFSYFD 92
Query: 75 TEINGYV 81
+ +GY+
Sbjct: 93 KDGSGYI 99
>pdb|2JCH|A Chain A, Structural And Mechanistic Basis Of Penicillin Binding
Protein Inhibition By Lactivicins
Length = 461
Score = 28.1 bits (61), Expect = 1.5, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 11/76 (14%)
Query: 5 KEGGIVKKGHEEGLKLAVSLLKKFELPE-GL--LPLANVVEVGYVESTGYMWIVQQNKVE 61
+E G+ KG+ E + +E+PE G+ LP+ +EV + T + N V
Sbjct: 201 RENGVDVKGYMEKMG--------YEIPEYGIESLPMGGGIEVTVAQHTNGYQTLANNGVY 252
Query: 62 HEFKMISKLVSYDTEI 77
H+ +ISK+ + D +
Sbjct: 253 HQKHVISKIEAADGRV 268
>pdb|2BG1|A Chain A, Active Site Restructuring Regulates Ligand Recognition In
Classa Penicillin-Binding Proteins (Pbps)
pdb|2XD5|A Chain A, Structural Insights Into The Catalytic Mechanism And The
Role Of Streptococcus Pneumoniae Pbp1b
pdb|2XD5|B Chain B, Structural Insights Into The Catalytic Mechanism And The
Role Of Streptococcus Pneumoniae Pbp1b
Length = 494
Score = 28.1 bits (61), Expect = 1.5, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 11/76 (14%)
Query: 5 KEGGIVKKGHEEGLKLAVSLLKKFELPE-GL--LPLANVVEVGYVESTGYMWIVQQNKVE 61
+E G+ KG+ E + +E+PE G+ LP+ +EV + T + N V
Sbjct: 232 RENGVDVKGYMEKMG--------YEIPEYGIESLPMGGGIEVTVAQHTNGYQTLANNGVY 283
Query: 62 HEFKMISKLVSYDTEI 77
H+ +ISK+ + D +
Sbjct: 284 HQKHVISKIEAADGRV 299
>pdb|2Y2G|A Chain A, Penicillin-Binding Protein 1b (Pbp-1b) In Complex With An
Alkyl Boronate (A01)
pdb|2Y2G|B Chain B, Penicillin-Binding Protein 1b (Pbp-1b) In Complex With An
Alkyl Boronate (A01)
pdb|2Y2H|A Chain A, Penicillin-Binding Protein 1b (Pbp-1b) In Complex With An
Alkyl Boronate (Za2)
pdb|2Y2H|B Chain B, Penicillin-Binding Protein 1b (Pbp-1b) In Complex With An
Alkyl Boronate (Za2)
pdb|2Y2I|A Chain A, Penicillin-Binding Protein 1b (Pbp-1b) In Complex With An
Alkyl Boronate (Za3)
pdb|2Y2J|A Chain A, Penicillin-Binding Protein 1b (Pbp-1b) In Complex With An
Alkyl Boronate (Za4)
pdb|2Y2K|A Chain A, Penicillin-Binding Protein 1b (Pbp-1b) In Complex With An
Alkyl Boronate (Za5)
pdb|2Y2L|A Chain A, Penicillin-Binding Protein 1b (Pbp-1b) In Complex With An
Alkyl Boronate (E06)
pdb|2Y2L|B Chain B, Penicillin-Binding Protein 1b (Pbp-1b) In Complex With An
Alkyl Boronate (E06)
pdb|2Y2M|A Chain A, Penicillin-Binding Protein 1b (Pbp-1b) In Complex With An
Alkyl Boronate (E08)
pdb|2Y2N|A Chain A, Penicillin-Binding Protein 1b (Pbp-1b) In Complex With An
Alkyl Boronate (E07)
pdb|2Y2O|A Chain A, Penicillin-Binding Protein 1b (Pbp-1b) In Complex With An
Alkyl Boronate (Eo9)
pdb|2Y2P|A Chain A, Penicillin-Binding Protein 1b (Pbp-1b) In Complex With An
Alkyl Boronate (Z10)
pdb|2Y2Q|A Chain A, Penicillin-Binding Protein 1b (Pbp-1b) In Complex With An
Alkyl Boronate (Z06)
pdb|2Y2Q|B Chain B, Penicillin-Binding Protein 1b (Pbp-1b) In Complex With An
Alkyl Boronate (Z06)
Length = 494
Score = 28.1 bits (61), Expect = 1.5, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 11/76 (14%)
Query: 5 KEGGIVKKGHEEGLKLAVSLLKKFELPE-GL--LPLANVVEVGYVESTGYMWIVQQNKVE 61
+E G+ KG+ E + +E+PE G+ LP+ +EV + T + N V
Sbjct: 232 RENGVDVKGYMEKMG--------YEIPEYGIESLPMGGGIEVTVAQHTNGYQTLANNGVY 283
Query: 62 HEFKMISKLVSYDTEI 77
H+ +ISK+ + D +
Sbjct: 284 HQKHVISKIEAADGRV 299
>pdb|2XD1|A Chain A, Active Site Restructuring Regulates Ligand Recognition In
Class A Penicillin-Binding Proteins
pdb|2XD1|B Chain B, Active Site Restructuring Regulates Ligand Recognition In
Class A Penicillin-Binding Proteins
Length = 494
Score = 28.1 bits (61), Expect = 1.5, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 11/76 (14%)
Query: 5 KEGGIVKKGHEEGLKLAVSLLKKFELPE-GL--LPLANVVEVGYVESTGYMWIVQQNKVE 61
+E G+ KG+ E + +E+PE G+ LP+ +EV + T + N V
Sbjct: 232 RENGVDVKGYMEKMG--------YEIPEYGIESLPMGGGIEVTVAQHTNGYQTLANNGVY 283
Query: 62 HEFKMISKLVSYDTEI 77
H+ +ISK+ + D +
Sbjct: 284 HQKHVISKIEAADGRV 299
>pdb|2FFF|B Chain B, Open Form Of A Class A Transpeptidase Domain
Length = 453
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 11/76 (14%)
Query: 5 KEGGIVKKGHEEGLKLAVSLLKKFELPE-GL--LPLANVVEVGYVESTGYMWIVQQNKVE 61
+E G+ KG+ E + +E+PE G+ LP+ +EV + T + N V
Sbjct: 193 RENGVDVKGYMEKMG--------YEIPEYGIESLPMGGGIEVTVAQHTNGYQTLANNGVY 244
Query: 62 HEFKMISKLVSYDTEI 77
H+ +ISK+ + D +
Sbjct: 245 HQKHVISKIEAADGRV 260
>pdb|2JE5|A Chain A, Structural And Mechanistic Basis Of Penicillin Binding
Protein Inhibition By Lactivicins
pdb|2JE5|B Chain B, Structural And Mechanistic Basis Of Penicillin Binding
Protein Inhibition By Lactivicins
Length = 720
Score = 27.7 bits (60), Expect = 1.8, Method: Composition-based stats.
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 11/76 (14%)
Query: 5 KEGGIVKKGHEEGLKLAVSLLKKFELPE-GL--LPLANVVEVGYVESTGYMWIVQQNKVE 61
+E G+ KG+ E + +E+PE G+ LP+ +EV + T + N V
Sbjct: 458 RENGVDVKGYMEKMG--------YEIPEYGIESLPMGGGIEVTVAQHTNGYQTLANNGVY 509
Query: 62 HEFKMISKLVSYDTEI 77
H+ +ISK+ + D +
Sbjct: 510 HQKHVISKIEAADGRV 525
>pdb|2AAO|A Chain A, Regulatory Apparatus Of Calcium Dependent Protein Kinase
From Arabidopsis Thaliana
pdb|2AAO|B Chain B, Regulatory Apparatus Of Calcium Dependent Protein Kinase
From Arabidopsis Thaliana
Length = 166
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 42/82 (51%), Gaps = 2/82 (2%)
Query: 1 MAAEKEGGIVKKGHEEGLKLAVSLLKKFELPEGLLPLANVVEVGYVESTGYMW-IVQQNK 59
+ A+K G I + + GLK + LK+ E+ + L A+V G ++ ++ + NK
Sbjct: 36 IDADKSGQITFEELKAGLKRVGANLKESEILD-LXQAADVDNSGTIDYKEFIAATLHLNK 94
Query: 60 VEHEFKMISKLVSYDTEINGYV 81
+E E + + +D + +GY+
Sbjct: 95 IEREDHLFAAFTYFDKDGSGYI 116
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
0.315 0.135 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,903,069
Number of Sequences: 62578
Number of extensions: 95991
Number of successful extensions: 224
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 224
Number of HSP's gapped (non-prelim): 11
length of query: 102
length of database: 14,973,337
effective HSP length: 67
effective length of query: 35
effective length of database: 10,780,611
effective search space: 377321385
effective search space used: 377321385
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 45 (21.9 bits)