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= 014940
(415 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4EBY|A Chain A, Crystal Structure Of The Ectodomain Of A Receptor Like
Kinase
pdb|4EBZ|A Chain A, Crystal Structure Of The Ectodomain Of A Receptor Like
Kinase
Length = 212
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 38/130 (29%), Positives = 56/130 (43%), Gaps = 13/130 (10%)
Query: 114 TLTSIANQVYAGLVSADQ------LREANDIQDPDVLDVGVNLLVPLPCTCFNGTDNSLP 167
TL+ I + + + DQ LR ++I+D D + +G +LVP PC C G
Sbjct: 19 TLSVINQNLNSSIAPYDQINFDPILRYNSNIKDKDRIQMGSRVLVPFPCECQPG---DFL 75
Query: 168 AVYLSYVVKDVDTLAGIA-ARYR--TTLTDLMNANAMGSTAVKAGDILAVPLPACATNFP 224
SY V+ DT +A + Y TT+ L N +T + L V L C+
Sbjct: 76 GHNFSYSVRQEDTYERVAISNYANLTTMESLQARNPFPATNIPLSATLNV-LVNCSCGDE 134
Query: 225 RYALDHGLIV 234
+ D GL V
Sbjct: 135 SVSKDFGLFV 144
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 37/160 (23%), Positives = 67/160 (41%), Gaps = 11/160 (6%)
Query: 57 NVDPVSILTANAIDISYSDVENHILPSQLFVRIPVTCACVDGIRKSVSTHYKTRPSDTLT 116
N DP+ +N D + + +L +P C C G + Y R DT
Sbjct: 38 NFDPILRYNSNIKDKDRIQMGSRVL-------VPFPCECQPGDFLGHNFSYSVRQEDTYE 90
Query: 117 SIANQVYAGLVSADQLREANDIQDPDV-LDVGVNLLVPLPCTCFNGTDNSLPAVYLSYVV 175
+A YA L + + L+ N ++ L +N+LV C+C + + + ++++Y +
Sbjct: 91 RVAISNYANLTTMESLQARNPFPATNIPLSATLNVLV--NCSCGDESVSKDFGLFVTYPL 148
Query: 176 KDVDTLAGIAARYRTTLTDLMNANAMGSTAVKAGDILAVP 215
+ D+L+ I AR D++ G I+ VP
Sbjct: 149 RPEDSLSSI-ARSSGVSADILQRYNPGVNFNSGNGIVYVP 187
>pdb|1Y7M|A Chain A, Crystal Structure Of The B. Subtilis Ykud Protein At 2 A
Resolution
pdb|1Y7M|B Chain B, Crystal Structure Of The B. Subtilis Ykud Protein At 2 A
Resolution
Length = 164
Score = 32.0 bits (71), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%)
Query: 171 LSYVVKDVDTLAGIAARYRTTLTDLMNANAMGSTAVKAGDILAVP 215
L+Y VK DTL IAA +R + L+ AN + AG + +P
Sbjct: 2 LTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIP 46
>pdb|4A1I|A Chain A, Ykud From B.Subtilis
pdb|4A1I|B Chain B, Ykud From B.Subtilis
pdb|4A1I|C Chain C, Ykud From B.Subtilis
pdb|4A1I|D Chain D, Ykud From B.Subtilis
pdb|4A1I|E Chain E, Ykud From B.Subtilis
pdb|4A1I|F Chain F, Ykud From B.Subtilis
pdb|4A1I|G Chain G, Ykud From B.Subtilis
pdb|4A1I|H Chain H, Ykud From B.Subtilis
pdb|4A1J|A Chain A, Ykud L,D-Transpeptidase From B.Subtilis
pdb|4A1J|B Chain B, Ykud L,D-Transpeptidase From B.Subtilis
Length = 165
Score = 32.0 bits (71), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%)
Query: 171 LSYVVKDVDTLAGIAARYRTTLTDLMNANAMGSTAVKAGDILAVP 215
L+Y VK DTL IAA +R + L+ AN + AG + +P
Sbjct: 3 LTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIP 47
>pdb|3ZQD|A Chain A, B. Subtilis L,D-Transpeptidase
pdb|4A52|A Chain A, Nmr Structure Of The Imipenem-Acylated L,D-Transpeptidase
From Bacillus Subtilis
Length = 175
Score = 32.0 bits (71), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%)
Query: 171 LSYVVKDVDTLAGIAARYRTTLTDLMNANAMGSTAVKAGDILAVP 215
L+Y VK DTL IAA +R + L+ AN + AG + +P
Sbjct: 5 LTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIP 49
>pdb|4A1K|A Chain A, Ykud L,D-Transpeptidase
Length = 165
Score = 31.6 bits (70), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%)
Query: 171 LSYVVKDVDTLAGIAARYRTTLTDLMNANAMGSTAVKAGDILAVP 215
L+Y VK DTL IAA +R + L+ AN + AG + +P
Sbjct: 3 LTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIP 47
>pdb|2QSX|A Chain A, Crystal Structure Of Putative Transcriptional Regulator
Lysr From Vibrio Parahaemolyticus
pdb|2QSX|B Chain B, Crystal Structure Of Putative Transcriptional Regulator
Lysr From Vibrio Parahaemolyticus
Length = 218
Score = 28.5 bits (62), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 23/43 (53%)
Query: 241 ITASHCVQCSCGPGNLNLYCMPASLAVSCSSMQCKNSNLMLGN 283
+T V+ G +L++ C+P S S + C+ + L++GN
Sbjct: 53 LTGDGAVKNIHGESDLHVRCLPLSTHYEYSQLLCEETLLLIGN 95
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
0.318 0.132 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,817,623
Number of Sequences: 62578
Number of extensions: 421366
Number of successful extensions: 877
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 869
Number of HSP's gapped (non-prelim): 7
length of query: 415
length of database: 14,973,337
effective HSP length: 101
effective length of query: 314
effective length of database: 8,652,959
effective search space: 2717029126
effective search space used: 2717029126
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)