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= 018907
(349 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3V46|A Chain A, Crystal Structure Of Yeast Cdc73 C-Terminal Domain
Length = 170
Score = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 35/105 (33%), Positives = 58/105 (55%), Gaps = 5/105 (4%)
Query: 236 PIILVPSASQTLITIYNVKEFLEDGVYIPTDVKVKNMNGMRPECVTVQKKFSRDRDQVVK 295
PIIL+PSA+ +++T+ N+K+FL + Y V +N+ + V ++K F R + ++
Sbjct: 15 PIILIPSAASSILTVANIKQFLLESKY----VNPRNLPSVPNGLVNIEKNFERI-SRPIR 69
Query: 296 AYEVRDKPSTMKSEDWDRVVAVFVLGKEWQFKEWPFKDHVEIFNK 340
V + K E WDRVVA+F G WQF + + E+F +
Sbjct: 70 FIIVDNTRMFTKPEYWDRVVAIFTTGHTWQFNNYQWNSPQELFQR 114
>pdb|4DM4|A Chain A, The Conserved Domain Of Yeast Cdc73
pdb|4DM4|B Chain B, The Conserved Domain Of Yeast Cdc73
Length = 167
Score = 62.8 bits (151), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 35/105 (33%), Positives = 58/105 (55%), Gaps = 5/105 (4%)
Query: 236 PIILVPSASQTLITIYNVKEFLEDGVYIPTDVKVKNMNGMRPECVTVQKKFSRDRDQVVK 295
PIIL+PSA+ +++T+ N+K+FL + Y V +N+ + V ++K F R + ++
Sbjct: 4 PIILIPSAASSILTVANIKQFLLESKY----VNPRNLPSVPNGLVNIEKNFERI-SRPIR 58
Query: 296 AYEVRDKPSTMKSEDWDRVVAVFVLGKEWQFKEWPFKDHVEIFNK 340
V + K E WDRVVA+F G WQF + + E+F +
Sbjct: 59 FIIVDNTRMFTKPEYWDRVVAIFTTGHTWQFNNYQWNSPQELFQR 103
>pdb|2XQ1|A Chain A, Crystal Structure Of Peroxisomal Catalase From The Yeast
Hansenula Polymorpha
pdb|2XQ1|B Chain B, Crystal Structure Of Peroxisomal Catalase From The Yeast
Hansenula Polymorpha
pdb|2XQ1|C Chain C, Crystal Structure Of Peroxisomal Catalase From The Yeast
Hansenula Polymorpha
pdb|2XQ1|D Chain D, Crystal Structure Of Peroxisomal Catalase From The Yeast
Hansenula Polymorpha
pdb|2XQ1|E Chain E, Crystal Structure Of Peroxisomal Catalase From The Yeast
Hansenula Polymorpha
pdb|2XQ1|F Chain F, Crystal Structure Of Peroxisomal Catalase From The Yeast
Hansenula Polymorpha
pdb|2XQ1|G Chain G, Crystal Structure Of Peroxisomal Catalase From The Yeast
Hansenula Polymorpha
pdb|2XQ1|H Chain H, Crystal Structure Of Peroxisomal Catalase From The Yeast
Hansenula Polymorpha
pdb|2XQ1|I Chain I, Crystal Structure Of Peroxisomal Catalase From The Yeast
Hansenula Polymorpha
pdb|2XQ1|J Chain J, Crystal Structure Of Peroxisomal Catalase From The Yeast
Hansenula Polymorpha
pdb|2XQ1|K Chain K, Crystal Structure Of Peroxisomal Catalase From The Yeast
Hansenula Polymorpha
pdb|2XQ1|L Chain L, Crystal Structure Of Peroxisomal Catalase From The Yeast
Hansenula Polymorpha
pdb|2XQ1|M Chain M, Crystal Structure Of Peroxisomal Catalase From The Yeast
Hansenula Polymorpha
pdb|2XQ1|N Chain N, Crystal Structure Of Peroxisomal Catalase From The Yeast
Hansenula Polymorpha
pdb|2XQ1|O Chain O, Crystal Structure Of Peroxisomal Catalase From The Yeast
Hansenula Polymorpha
pdb|2XQ1|P Chain P, Crystal Structure Of Peroxisomal Catalase From The Yeast
Hansenula Polymorpha
Length = 509
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 37/77 (48%), Gaps = 5/77 (6%)
Query: 35 PSSIETAYRSKQGNLYTL--QTVVYFIKHYNLKHTDYIQRARSNKLPAVTLPDRKPLYEY 92
P T + ++ GNL + T ++FI+ +K +I + N PA L D ++Y
Sbjct: 121 PRGFATKFYTEDGNLDLVYNNTPIFFIRD-PIKFPHFIHTQKRN--PATNLKDPNMFWDY 177
Query: 93 LTGVTDSADQIETVIAN 109
LT +S Q+ + +N
Sbjct: 178 LTANDESLHQVMYLFSN 194
>pdb|3V7N|A Chain A, Crystal Structure Of Threonine Synthase (Thrc) From From
Burkholderia Thailandensis
Length = 487
Score = 27.7 bits (60), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 9/58 (15%)
Query: 272 MNGMRPECVTVQKKFSRDRDQVVKAYEVRDKPSTMKSEDWDRVVAVFVLGKEWQFKEW 329
+NG+ +C + K S D A++ + K T+ S +W RVVA V + FK +
Sbjct: 208 VNGVFDDCQDIVKAVSNDH-----AFKAQQKIGTVNSINWARVVAQVV----YYFKGY 256
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 0.136 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,249,295
Number of Sequences: 62578
Number of extensions: 351118
Number of successful extensions: 813
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 809
Number of HSP's gapped (non-prelim): 7
length of query: 349
length of database: 14,973,337
effective HSP length: 100
effective length of query: 249
effective length of database: 8,715,537
effective search space: 2170168713
effective search space used: 2170168713
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: 52 (24.6 bits)