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= 025458
(252 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YUM|A Chain A, Solution Structure Of The Myb-Like Dna-Binding Domain Of
Human Zzz3 Protein
Length = 75
Score = 34.3 bits (77), Expect = 0.070, Method: Composition-based stats.
Identities = 19/42 (45%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 62 WTLEEQAILEDGLQKYASDRTLT-RYAKIAVHLNNKTVRDVA 102
WT+EEQ LE L KY + + R+ KIA L N+T + VA
Sbjct: 11 WTVEEQKKLEQLLIKYPPEEVESRRWQKIADELGNRTAKQVA 52
>pdb|3OSF|A Chain A, The Structure Of Protozoan Parasite Trichomonas Vaginalis
Myb2 In Complex With Mre-2f-13 Dna
pdb|3OSF|D Chain D, The Structure Of Protozoan Parasite Trichomonas Vaginalis
Myb2 In Complex With Mre-2f-13 Dna
pdb|3OSG|A Chain A, The Structure Of Protozoan Parasite Trichomonas Vaginalis
Myb2 In Complex With Mre-1-12 Dna
pdb|3OSG|D Chain D, The Structure Of Protozoan Parasite Trichomonas Vaginalis
Myb2 In Complex With Mre-1-12 Dna
Length = 126
Score = 32.3 bits (72), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 41/80 (51%), Gaps = 13/80 (16%)
Query: 31 ATTPNQSNGNSITLAERWSAILKHNPGIS-SEWTLEEQAILEDGLQKYASDRTLTRYAKI 89
AT PN+ N+ +RW L P IS + WT EE A+L +Q+Y ++A I
Sbjct: 38 ATFPNR---NARQCRDRWKNYLA--PSISHTPWTAEEDALLVQKIQEYGR-----QWAII 87
Query: 90 AVHLNNKTVRDVALRCRWMT 109
A +T D+ ++ RW+T
Sbjct: 88 AKFFPGRT--DIHIKNRWVT 105
>pdb|2M2E|A Chain A, Solution Nmr Structure Of The Sant Domain Of Human Dnajc2,
Northeast Structural Genomics Consortium Target Hr8254a
Length = 73
Score = 31.2 bits (69), Expect = 0.64, Method: Composition-based stats.
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 60 SEWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALR 104
+ WT EEQ +LE L+ Y + T R+ KIA + +T +D R
Sbjct: 4 TPWTTEEQKLLEQALKTYPVN-TPERWKKIAEAVPGRTKKDCMKR 47
>pdb|2CU7|A Chain A, Solution Structure Of The Sant Domain Of Human Kiaa1915
Protein
Length = 72
Score = 30.0 bits (66), Expect = 1.2, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 25/46 (54%), Gaps = 5/46 (10%)
Query: 61 EWTLEEQAILEDGLQKYASDRTLTRYAKIAVHLNNKTVRDVALRCR 106
+WT+EE+ + E GL K+ R+ KI+ + ++TV V R
Sbjct: 11 KWTIEEKELFEQGLAKFGR-----RWTKISKLIGSRTVLQVKSYAR 51
>pdb|1DL5|A Chain A, Protein-L-Isoaspartate O-Methyltransferase
pdb|1DL5|B Chain B, Protein-L-Isoaspartate O-Methyltransferase
Length = 317
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 27/51 (52%), Gaps = 2/51 (3%)
Query: 170 GGNIGDTLEKNARALNQISANLAAFQIQDNISLLCQTRDNILRILNEMNNT 220
GGN+G+ LE+N + L + N ++ +I + D + R L E++ T
Sbjct: 209 GGNLGNLLERNRKLLREFPFNREILLVRSHI--FVELVDLLTRRLTEIDGT 257
>pdb|1IV6|A Chain A, Solution Structure Of The Dna Complex Of Human Trf1
Length = 70
Score = 28.5 bits (62), Expect = 3.5, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 27/59 (45%), Gaps = 8/59 (13%)
Query: 53 KHNPGISSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVH--LNNKTVRDVALRCRWMT 109
KH W EE L G++KY ++KI +H NN+T V L+ RW T
Sbjct: 5 KHRARKRQAWLWEEDKNLRSGVRKYGEG----NWSKILLHYKFNNRT--SVMLKDRWRT 57
>pdb|1ITY|A Chain A, Solution Structure Of The Dna Binding Domain Of Human Trf1
Length = 69
Score = 28.5 bits (62), Expect = 3.6, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 27/59 (45%), Gaps = 8/59 (13%)
Query: 53 KHNPGISSEWTLEEQAILEDGLQKYASDRTLTRYAKIAVH--LNNKTVRDVALRCRWMT 109
KH W EE L G++KY ++KI +H NN+T V L+ RW T
Sbjct: 4 KHRARKRQAWLWEEDKNLRSGVRKYGEG----NWSKILLHYKFNNRT--SVMLKDRWRT 56
>pdb|3IF0|X Chain X, Crystal Structure Of The Nanoarchaeum Equitans Trna
Splicing Endonuclease Structural Subunit
pdb|3IEY|B Chain B, Crystal Structure Of The Functional Nanoarchaeum
Equitans Trna Splicing Endonuclease
Length = 153
Score = 27.7 bits (60), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 25/40 (62%), Gaps = 1/40 (2%)
Query: 39 GNSITLAE-RWSAILKHNPGISSEWTLEEQAILEDGLQKY 77
GN I ++E +L++ P I L+E+ I+++G++KY
Sbjct: 18 GNYIKISEPELLFVLRNKPQIKDRLKLDEKTIIKEGVKKY 57
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
0.316 0.130 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,949,137
Number of Sequences: 62578
Number of extensions: 192458
Number of successful extensions: 468
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 466
Number of HSP's gapped (non-prelim): 9
length of query: 252
length of database: 14,973,337
effective HSP length: 97
effective length of query: 155
effective length of database: 8,903,271
effective search space: 1380007005
effective search space used: 1380007005
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)