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= 037117
(529 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YGW|A Chain A, Crystal Structure Of Human Mcd
pdb|2YGW|B Chain B, Crystal Structure Of Human Mcd
Length = 460
Score = 282 bits (721), Expect = 3e-76, Method: Compositional matrix adjust.
Identities = 174/447 (38%), Positives = 241/447 (53%), Gaps = 38/447 (8%)
Query: 75 DFSEGYFSLCYENRR-RLLLVLAKEYDLNRTQVCELIKQYLGVLGEEAQSAGHEEDGVLG 133
DF Y L +R LL LA+ + ++ QV E Q GVL Q E VL
Sbjct: 40 DFVSFYGGLAETAQRAELLGRLARGFGVDHGQVAE---QSAGVLHLRQQ---QREAAVL- 92
Query: 134 SFYRIERNLRHALKPMYEGLFERLNMHPGGLKVLTSLRADILSILAEENIAS--LRALDS 191
+ E LR+AL P Y GLF ++ GG++ L LRAD+L A + + +R ++
Sbjct: 93 --LQAEDRLRYALVPRYRGLFHHISKLDGGVRFLVQLRADLLEAQALKLVEGPDVREMNG 150
Query: 192 YLKEKLGTWLSPAALELHQITWDDPASLLEKIVAYEAVHPISNLLDLKRRLGVGRRCFGY 251
LK L W S L L ++TW P +L+KI EAVHP+ N +D+KRR+G RRC+ +
Sbjct: 151 VLKGMLSEWFSSGFLNLERVTWHSPCEVLQKISEAEAVHPVKNWMDMKRRVGPYRRCYFF 210
Query: 252 LHAAIPGEPLIFIEVALLKNVAQTIQEVLWDDPPIPECEA---TCALFYSISSTQRGLAG 308
H + PGEPL+ + VAL +++ IQ ++ + PP A T A+FYSIS TQ+GL G
Sbjct: 211 SHCSTPGEPLVVLHVALTGDISSNIQAIVKEHPPSETAAANKITAAIFYSISLTQQGLQG 270
Query: 309 INLGKFLIKRVITLVKRDMPHISTFATISPIPGFIQWXXXXXXXXXXXXEVNDISQSSAD 368
+ LG FLIKRV+ ++R+ PH+ F+++SPIPGF +W + S
Sbjct: 271 VELGTFLIKRVVKELQREFPHLGVFSSLSPIPGFTKWLL-------------GLLNSQTK 317
Query: 369 RSGSAFRENILEPEEEKALMDLSEEFVAGKNGMERMLNLLTSKNHEWSNFAPLLSILKTP 428
G R + E K + +++ + L LL S + EW L+ L+TP
Sbjct: 318 EHG---RNELFTDSECKEISEIT------GGPINETLKLLLSSS-EWVQSEKLVRALQTP 367
Query: 429 LLRLCARYLLQEKKRGKALDSVANFHLQNGAMIERINWMADRSENGLHQSAGIMVNYVYR 488
L+RLCA YL EK RG AL+ VANFHLQNGA++ RINWMAD S G+ S G+M NY Y
Sbjct: 368 LMRLCAWYLYGEKHRGYALNPVANFHLQNGAVLWRINWMADVSLRGITGSCGLMANYRYF 427
Query: 489 LENIEEYAQSYFSTGQIHASDDVCRYV 515
LE + SY + I AS+ V V
Sbjct: 428 LEETGPNSTSYLGSKIIKASEQVLSLV 454
>pdb|2REE|A Chain A, Crystal Structure Of The Loading Gnatl Domain Of Cura From
Lyngbya Majuscula
pdb|2REE|B Chain B, Crystal Structure Of The Loading Gnatl Domain Of Cura From
Lyngbya Majuscula
pdb|2REF|A Chain A, Crystal Structure Of The Loading Gnatl Domain Of Cura From
Lyngbya Majuscula Soaked With Malonyl-Coa
pdb|2REF|B Chain B, Crystal Structure Of The Loading Gnatl Domain Of Cura From
Lyngbya Majuscula Soaked With Malonyl-Coa
Length = 224
Score = 35.8 bits (81), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 23/99 (23%), Positives = 55/99 (55%), Gaps = 13/99 (13%)
Query: 387 LMDLSEEFVAGKNGMERMLNLLTSKNHEWSNFAPLLSILKTPLLRLCARYLLQEKKRGKA 446
L++ ++ A +G+E+++ + +N + +++P+ P+ A Y+ Q+ + G
Sbjct: 119 LLEFMLQYCAQISGVEKVVAVTLCRN--YPDYSPM------PM----AEYIHQKNESGLL 166
Query: 447 LDSVANFHLQNGAMIERINWMADRSENGLHQSAGIMVNY 485
+D + FH +GA IE++ R ++ +Q+ G++V+Y
Sbjct: 167 VDPLLRFHQIHGAKIEKL-LPGYRPKDWENQTCGVLVSY 204
>pdb|3AUZ|A Chain A, Crystal Structure Of Mre11 With Manganese
Length = 333
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 33/75 (44%), Gaps = 8/75 (10%)
Query: 432 LCARYLLQEKKRGKALDSVANFHLQNGAMIERINWMADRSENGLHQSAGIMVNYVYRLEN 491
+C Y ++ KR + LD + NF + ++I LHQ + Y LE+
Sbjct: 142 ICGTYYHKKSKREEMLDKLKNFESEAKNYKKKILM--------LHQGINPYIPLDYELEH 193
Query: 492 IEEYAQSYFSTGQIH 506
+ SY++ G IH
Sbjct: 194 FDLPKFSYYALGHIH 208
>pdb|3AV0|A Chain A, Crystal Structure Of Mre11-Rad50 Bound To Atp S
Length = 386
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 33/75 (44%), Gaps = 8/75 (10%)
Query: 432 LCARYLLQEKKRGKALDSVANFHLQNGAMIERINWMADRSENGLHQSAGIMVNYVYRLEN 491
+C Y ++ KR + LD + NF + ++I LHQ + Y LE+
Sbjct: 142 ICGTYYHKKSKREEMLDKLKNFESEAKNYKKKILM--------LHQGINPYIPLDYELEH 193
Query: 492 IEEYAQSYFSTGQIH 506
+ SY++ G IH
Sbjct: 194 FDLPKFSYYALGHIH 208
>pdb|3TTS|A Chain A, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTS|B Chain B, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTS|C Chain C, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTS|D Chain D, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTS|E Chain E, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTS|F Chain F, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTY|A Chain A, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
pdb|3TTY|B Chain B, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
pdb|3TTY|C Chain C, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
pdb|3TTY|D Chain D, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
pdb|3TTY|E Chain E, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
pdb|3TTY|F Chain F, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
Length = 675
Score = 28.5 bits (62), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 32/133 (24%), Positives = 56/133 (42%), Gaps = 9/133 (6%)
Query: 70 DTVLNDFSEGYFSLCYENRRRLLLVLAKEYDLNRTQVCELIKQYLGVLGEEAQS--AGHE 127
DT+L+ SE ++ Y+ R L L+ + V E+ K Y + + Q+ E
Sbjct: 388 DTILDARSEAKVAVMYDWENRWALELSSGPSIALNYVNEVHKYYDALYKQNIQTDMISVE 447
Query: 128 EDGVLGSFYRIERNLRHALKPMYEGLFERLNMHPGGLKVLTSLRADILSILAEENIASLR 187
ED L + + + + +KP + ER + GG V T I+ E ++ +L
Sbjct: 448 ED--LSKYKVVIAPVMYMVKPGFAERVERF-VAQGGTFVTTFFSG----IVNENDLVTLG 500
Query: 188 ALDSYLKEKLGTW 200
L+ +G W
Sbjct: 501 GYPGELRNVMGIW 513
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
0.319 0.135 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,837,534
Number of Sequences: 62578
Number of extensions: 596876
Number of successful extensions: 1235
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1228
Number of HSP's gapped (non-prelim): 13
length of query: 529
length of database: 14,973,337
effective HSP length: 103
effective length of query: 426
effective length of database: 8,527,803
effective search space: 3632844078
effective search space used: 3632844078
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: 54 (25.4 bits)