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= 012705
(458 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NHM|A Chain A, Crystal Structure Of A Response Regulator From Myxococcus
Xanthus
pdb|3NHM|B Chain B, Crystal Structure Of A Response Regulator From Myxococcus
Xanthus
Length = 133
Score = 32.0 bits (71), Expect = 0.67, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 154 ILLVTGSTPK---PCDNPIGDHYLLKSVKNKIDYCRLHGI 190
++ V+G P+ P D P+ D YL+K VK + +LH +
Sbjct: 80 VIFVSGYAPRTEGPADQPVPDAYLVKPVKPPVLIAQLHAL 119
>pdb|2P6W|A Chain A, Crystal Structure Of A Glycosyltransferase Involved In The
Glycosylation Of The Major Capsid Of Pbcv-1
pdb|2P73|A Chain A, Crystal Structure Of A Glycosyltransferase Involved In The
Glycosylation Of The Major Capsid Of Pbcv-1
pdb|2P72|A Chain A, Crystal Structure Of A Glycosyltransferase Involved In The
Glycosylation Of The Major Capsid Of Pbcv-1
pdb|2P72|B Chain B, Crystal Structure Of A Glycosyltransferase Involved In The
Glycosylation Of The Major Capsid Of Pbcv-1
Length = 213
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/113 (21%), Positives = 47/113 (41%), Gaps = 11/113 (9%)
Query: 152 PKILLVTGSTPKPCDNPIGDHYLLKSVKNKIDYCRLHGIEIIYNMAHLDKELSG--YWAK 209
P I +++G PK Y K+ + +YC +HG Y + + ++ +
Sbjct: 6 PCITILSGHFPKETI------YARKTKELVEEYCSIHGYNFYYEESEPLETEEHALHFRR 59
Query: 210 LPLLRKLMLSHPEIEWIWWMDSDAMFTDMVFELPMDKY---KDYNLVVHGYHD 259
++++ P EW W+DSD P+ + D N++ H +H+
Sbjct: 60 SWIIQQAAEKFPSTEWFLWLDSDVYVNPKNKNKPITSFIDLSDPNILYHTFHE 112
>pdb|2CMZ|A Chain A, Crystal Structure Of Vsv-Indiana (Mudd-Summers Strain)
Glycoprotein Under Its Acidic Conformation
pdb|2CMZ|B Chain B, Crystal Structure Of Vsv-Indiana (Mudd-Summers Strain)
Glycoprotein Under Its Acidic Conformation
pdb|2CMZ|C Chain C, Crystal Structure Of Vsv-Indiana (Mudd-Summers Strain)
Glycoprotein Under Its Acidic Conformation
Length = 423
Score = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 5/41 (12%)
Query: 285 DLLDAWAPY-----GPKGVIRDEAGKIMTAYLKGRPAFEAD 320
+L D WAPY GP GV+R +G Y+ G ++D
Sbjct: 355 ELWDDWAPYEDVEIGPNGVLRTSSGYKFPLYMIGHGMLDSD 395
>pdb|2J6J|A Chain A, Prefusion Form Of The Vesicular Stomatitis Virus
Glycoprotein G Ectodomain
Length = 422
Score = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 5/41 (12%)
Query: 285 DLLDAWAPY-----GPKGVIRDEAGKIMTAYLKGRPAFEAD 320
+L D WAPY GP GV+R +G Y+ G ++D
Sbjct: 355 ELWDDWAPYEDVEIGPNGVLRTSSGYKFPLYMIGHGMLDSD 395
>pdb|3IAR|A Chain A, The Crystal Structure Of Human Adenosine Deaminase
Length = 367
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 20/46 (43%), Gaps = 1/46 (2%)
Query: 255 HGYHDLMFIQKSWIALNTGSFLFRNCQWSLDLLDAWAPYGPKGVIR 300
HGYH L Q + L + F C WS L AW P VIR
Sbjct: 235 HGYHTLE-DQALYNRLRQENMHFEICPWSSYLTGAWKPDTEHAVIR 279
>pdb|1SBQ|A Chain A, Crystal Structure Of Methenyltetrahydrofolate Synthetase
From Mycoplasma Pneumoniae At 2.2 Resolution
pdb|1SBQ|B Chain B, Crystal Structure Of Methenyltetrahydrofolate Synthetase
From Mycoplasma Pneumoniae At 2.2 Resolution
pdb|1U3F|A Chain A, Structural And Functional Characterization Of A 5,10-
Methenyltetrahydrofolate Synthetase From Mycoplasma
Pneumoniae (Gi: 13508087)
pdb|1U3F|B Chain B, Structural And Functional Characterization Of A 5,10-
Methenyltetrahydrofolate Synthetase From Mycoplasma
Pneumoniae (Gi: 13508087)
pdb|1U3G|A Chain A, Structural And Functional Characterization Of A 5,10-
Methenyltetrahydrofolate Synthetase From Mycoplasma
Pneumoniae (gi: 13508087)
Length = 189
Score = 28.9 bits (63), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 31/65 (47%), Gaps = 10/65 (15%)
Query: 146 SHVDGKPKILLVTGSTPKPCDNPIGDHYLLKSVKNKI-------DYCRLHGIEIIYNMAH 198
SH+D K LV TPKPC I L + +KN++ ++ +++ I +Y
Sbjct: 48 SHLDQKINQKLVAFLTPKPCIKTIA---LYEPIKNEVTFVDFFFEFLKINQIRAVYPKVI 104
Query: 199 LDKEL 203
D E+
Sbjct: 105 SDTEI 109
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
0.321 0.138 0.439
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,761,381
Number of Sequences: 62578
Number of extensions: 649889
Number of successful extensions: 1178
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1175
Number of HSP's gapped (non-prelim): 8
length of query: 458
length of database: 14,973,337
effective HSP length: 102
effective length of query: 356
effective length of database: 8,590,381
effective search space: 3058175636
effective search space used: 3058175636
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)