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= 029755
(188 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2OWC|A Chain A, Structure Of A Covalent Intermediate In Thermus
Thermophilus Amylomaltase
pdb|2OWW|A Chain A, Covalent Intermediate In Amylomaltase In Complex With The
Acceptor Analog 4-Deoxyglucose
pdb|2OWX|A Chain A, Thermus Thermophilus Amylomaltase At Ph 5.6
Length = 502
Score = 31.6 bits (70), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 20/42 (47%)
Query: 78 GDNGSQVLQFSDNSQASPLVGEEMDCQGSVGLYIDTEDNKTN 119
G G +VLQF+ + +P + G V +Y T DN T
Sbjct: 360 GLPGMKVLQFAFDXMENPFLPHNYPAHGRVVVYTGTHDNDTT 401
>pdb|3C5A|A Chain A, Crystal Structure Of The C-Terminal Deleted Mutant Of The
Class A Carbapenemase Kpc-2 At 1.23 Angstrom
pdb|3RXW|A Chain A, Kpc-2 Carbapenemase In Complex With Psr3-226
pdb|3RXX|A Chain A, Kpc-2 Carbapenemase In Complex With 3-Npba
Length = 264
Score = 30.4 bits (67), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 24/49 (48%), Gaps = 7/49 (14%)
Query: 90 NSQASPLVGEEMDCQGSVGLY-IDTEDNKTNSWRE------ISSFSGFL 131
N A P E D GS+G+Y +DT T S+R SSF GFL
Sbjct: 2 NLVAEPFAKLEQDFGGSIGVYAMDTGSGATVSYRAEERFPLCSSFKGFL 50
>pdb|3DW0|A Chain A, Crystal Structure Of The Class A Carbapenemase Kpc-2 At
1.6 Angstrom Resolution
pdb|3DW0|B Chain B, Crystal Structure Of The Class A Carbapenemase Kpc-2 At
1.6 Angstrom Resolution
Length = 294
Score = 30.4 bits (67), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 24/49 (48%), Gaps = 7/49 (14%)
Query: 90 NSQASPLVGEEMDCQGSVGLY-IDTEDNKTNSWRE------ISSFSGFL 131
N A P E D GS+G+Y +DT T S+R SSF GFL
Sbjct: 27 NLVAEPFAKLEQDFGGSIGVYAMDTGSGATVSYRAEERFPLCSSFKGFL 75
>pdb|2X1I|A Chain A, Glycoside Hydrolase Family 77 4-Alpha-Glucanotransferase
From Thermus Brockianus
Length = 500
Score = 30.4 bits (67), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 78 GDNGSQVLQFS-DNSQASPLVGEEMDCQGSVGLYIDTEDNKTN 119
G G +VLQF+ DN +P + G V +Y T DN T
Sbjct: 357 GLPGMKVLQFAFDNGMENPFLPHNYPEHGRVVVYTGTHDNDTT 399
>pdb|3DPN|A Chain A, Crystal Structure Of Cpaf S499a Mutant
pdb|3DPN|B Chain B, Crystal Structure Of Cpaf S499a Mutant
Length = 583
Score = 30.4 bits (67), Expect = 0.62, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 29/45 (64%), Gaps = 3/45 (6%)
Query: 68 KDFDPNAPKPGDNGSQVLQ-FSDNSQASPLVGEEMDCQGSVGLYI 111
+DFDP+ P P + ++++Q FS N++A L+ ++ + G LY+
Sbjct: 307 EDFDPSGPPPWEEFAKIIQVFSSNTEA--LIIDQTNNPGGSVLYL 349
>pdb|3DOR|A Chain A, Crystal Structure Of Mature Cpaf
pdb|3DOR|B Chain B, Crystal Structure Of Mature Cpaf
pdb|3DPM|A Chain A, Structure Of Mature Cpaf Complexed With Lactacystin
pdb|3DPM|B Chain B, Structure Of Mature Cpaf Complexed With Lactacystin
Length = 583
Score = 30.4 bits (67), Expect = 0.64, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 29/45 (64%), Gaps = 3/45 (6%)
Query: 68 KDFDPNAPKPGDNGSQVLQ-FSDNSQASPLVGEEMDCQGSVGLYI 111
+DFDP+ P P + ++++Q FS N++A L+ ++ + G LY+
Sbjct: 307 EDFDPSGPPPWEEFAKIIQVFSSNTEA--LIIDQTNNPGGSVLYL 349
>pdb|3DJA|A Chain A, Crystal Structure Of Cpaf Solved With Mad
pdb|3DJA|B Chain B, Crystal Structure Of Cpaf Solved With Mad
Length = 579
Score = 29.3 bits (64), Expect = 1.5, Method: Composition-based stats.
Identities = 11/29 (37%), Positives = 21/29 (72%), Gaps = 1/29 (3%)
Query: 66 EDKDFDPNAPKPGDNGSQVLQ-FSDNSQA 93
+ +DFDP+ P P + ++++Q FS N++A
Sbjct: 307 DXEDFDPSGPPPWEEFAKIIQVFSSNTEA 335
>pdb|3QD2|B Chain B, Crsytal Structure Of Mouse Perk Kinase Domain
Length = 332
Score = 28.5 bits (62), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 36/82 (43%), Gaps = 12/82 (14%)
Query: 44 LEDPSGLVRIV-----SPKKRVQEE------KDEDKDFDPNAPKPGDNGSQVLQFSDNSQ 92
LE P G+VR +P ++ QEE KDE D+ ++P P D S ++ D
Sbjct: 61 LEHP-GIVRYFNAWLETPPEKWQEEMDEIWLKDESTDWPLSSPSPMDAPSVKIRRMDPFS 119
Query: 93 ASPLVGEEMDCQGSVGLYIDTE 114
VG+ V LYI +
Sbjct: 120 TKNTVGQLQPSSPKVYLYIQMQ 141
>pdb|2LQ8|A Chain A, Domain Interaction In Thermotoga Maritima Nusg
Length = 177
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 40/83 (48%), Gaps = 1/83 (1%)
Query: 105 GSVGLYIDTEDNKTNSWREISSFSGFLENLDQQLNDIESELVTILNVSSLILDNKEKPKN 164
G V + + D N R + GF+ + Q + + E+ IL ++ L + +EK K
Sbjct: 58 GYVFVEMIMNDEAYNFVRSVPYVMGFVSSGGQPVPVKDREMRPILRLAGL-EEYEEKKKP 116
Query: 165 VKVQQAMELLESVRGIRGRIADF 187
VKV+ ++ + V+ I G DF
Sbjct: 117 VKVELGFKVGDMVKIISGPFEDF 139
>pdb|2XHC|A Chain A, Crystal Structure Of Thermotoga Maritima N-utilization
Substance G (nusg)
Length = 352
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 40/83 (48%), Gaps = 1/83 (1%)
Query: 105 GSVGLYIDTEDNKTNSWREISSFSGFLENLDQQLNDIESELVTILNVSSLILDNKEKPKN 164
G V + + D N R + GF+ + Q + + E+ IL ++ L + +EK K
Sbjct: 234 GYVFVEMIMNDEAYNFVRSVPYVMGFVSSGGQPVPVKDREMRPILRLAGL-EEYEEKKKP 292
Query: 165 VKVQQAMELLESVRGIRGRIADF 187
VKV+ ++ + V+ I G DF
Sbjct: 293 VKVELGFKVGDMVKIISGPFEDF 315
>pdb|3SYJ|A Chain A, Crystal Structure Of The Haemophilus Influenzae Hap
Adhesin
Length = 1011
Score = 27.7 bits (60), Expect = 4.5, Method: Composition-based stats.
Identities = 18/67 (26%), Positives = 32/67 (47%), Gaps = 6/67 (8%)
Query: 61 QEEKDEDKDFD-PNAPKPGDNGSQVLQFSDNSQASPLVGEEMDCQGSVGLYID----TED 115
+++K + +D PN P N + L F D Q S + +++ QG+ GLY +
Sbjct: 315 EKDKVHNPRYDGPNIYSPRLNNGETLYFMDQKQGSLIFASDIN-QGAGGLYFEGNFTVSP 373
Query: 116 NKTNSWR 122
N +W+
Sbjct: 374 NSNQTWQ 380
>pdb|1JHW|A Chain A, Ca2+-Binding Mimicry In The Crystal Structure Of The
Eu3+-Bound Mutant Human Macrophage Capping Protein Cap G
Length = 347
Score = 26.9 bits (58), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 9/44 (20%), Positives = 29/44 (65%)
Query: 24 AISVKETQLIGNVALDLEVDLEDPSGLVRIVSPKKRVQEEKDED 67
A+++++++ G +++ D E+P+ +++++ PK ++E E+
Sbjct: 193 ALAIRDSERQGKAQVEIVTDGEEPAEMIQVLGPKPALKEGNPEE 236
>pdb|1J72|A Chain A, Crystal Structure Of Mutant Macrophage Capping Protein
(Cap G) With Actin-Severing Activity In The Ca2+-Free
Form
Length = 347
Score = 26.9 bits (58), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 9/44 (20%), Positives = 29/44 (65%)
Query: 24 AISVKETQLIGNVALDLEVDLEDPSGLVRIVSPKKRVQEEKDED 67
A+++++++ G +++ D E+P+ +++++ PK ++E E+
Sbjct: 193 ALAIRDSERQGKAQVEIVTDGEEPAEMIQVLGPKPALKEGNPEE 236
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
0.310 0.131 0.354
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,324,008
Number of Sequences: 62578
Number of extensions: 219309
Number of successful extensions: 454
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 441
Number of HSP's gapped (non-prelim): 28
length of query: 188
length of database: 14,973,337
effective HSP length: 93
effective length of query: 95
effective length of database: 9,153,583
effective search space: 869590385
effective search space used: 869590385
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 48 (23.1 bits)