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= psy9121
(203 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I7T|A Chain A, Structure Of Human Cpsf-73
pdb|2I7V|A Chain A, Structure Of Human Cpsf-73
Length = 459
Score = 33.9 bits (76), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 33/135 (24%), Positives = 54/135 (40%), Gaps = 48/135 (35%)
Query: 11 NKACYILRFKEMTIMLDCGLCALPLMHFLPLPIIPTAKFNNLPSWIPRECTEAQLEGELK 70
++C IL FK IMLDCG+ LEG
Sbjct: 24 GRSCIILEFKGRKIMLDCGI-------------------------------HPGLEG--- 49
Query: 71 ECCGKVFVDSAPEFQPPLSQLVDFSEVNMILISNYL--SMLALPFITEGTGFEGVVYATE 128
+D+ P L+D +E++++LIS++ ALP+ + T F+G + T
Sbjct: 50 -------MDALPYID-----LIDPAEIDLLLISHFHLDHCGALPWFLQKTSFKGRTFMTH 97
Query: 129 PTLQIGKFYLEELVQ 143
T I ++ L + V+
Sbjct: 98 ATKAIYRWLLSDYVK 112
>pdb|3D4U|A Chain A, Bovine Thrombin-Activatable Fibrinolysis Inhibitor (Tafia)
In Complex With Tick-Derived Carboxypeptidase Inhibitor
Length = 309
Score = 32.0 bits (71), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 22/43 (51%)
Query: 66 EGELKECCGKVFVDSAPEFQPPLSQLVDFSEVNMILISNYLSM 108
EG C +++ + PE +P + + DF N+ I Y+SM
Sbjct: 153 EGASSSSCSEIYCGTYPESEPEVKAVADFLRRNIKHIKAYISM 195
>pdb|3DGV|A Chain A, Crystal Structure Of Thrombin Activatable Fibrinolysis
Inhibitor (Tafi)
pdb|3DGV|B Chain B, Crystal Structure Of Thrombin Activatable Fibrinolysis
Inhibitor (Tafi)
pdb|3DGV|C Chain C, Crystal Structure Of Thrombin Activatable Fibrinolysis
Inhibitor (Tafi)
pdb|3OSL|A Chain A, Structure Of Bovine Thrombin-Activatable Fibrinolysis
Inhibitor In Complex With Tick Carboxypeptidase
Inhibitor
pdb|3OSL|C Chain C, Structure Of Bovine Thrombin-Activatable Fibrinolysis
Inhibitor In Complex With Tick Carboxypeptidase
Inhibitor
Length = 401
Score = 32.0 bits (71), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 22/43 (51%)
Query: 66 EGELKECCGKVFVDSAPEFQPPLSQLVDFSEVNMILISNYLSM 108
EG C +++ + PE +P + + DF N+ I Y+SM
Sbjct: 245 EGASSSSCSEIYCGTYPESEPEVKAVADFLRRNIKHIKAYISM 287
>pdb|3ADR|A Chain A, The First Crystal Structure Of An Archaeal
Metallo-Beta-Lactamase Superfamily Protein; St1585 From
Sulfolobus Tokodaii
pdb|3ADR|B Chain B, The First Crystal Structure Of An Archaeal
Metallo-Beta-Lactamase Superfamily Protein; St1585 From
Sulfolobus Tokodaii
Length = 261
Score = 27.7 bits (60), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 8/67 (11%)
Query: 104 NYLSMLALPFI----TEGTGFEGVVYATEPTLQIGKFYLEELVQYIEKTPKLTSASHWKD 159
++ S+L F+ + G F GVV T P + K Y E L + IE PK+ +H
Sbjct: 151 HHXSVLVDDFLFTGDSAGAYFNGVVIPTTPPVIDYKXYXESLKRQIELKPKVVGFAHGG- 209
Query: 160 ISHLISP 166
L+SP
Sbjct: 210 ---LVSP 213
>pdb|2KZW|A Chain A, Solution Nmr Structure Of Q8psa4 From Methanosarcina
Mazei, Northeast Structural Genomics Consortium Target
Mar143a
Length = 145
Score = 26.9 bits (58), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 28/67 (41%), Gaps = 9/67 (13%)
Query: 117 GTGFEGVVYATEPTLQIGKFYLEELVQYIEKTPKLTSASHWKDISHLISP-------FSE 169
G G YA P + G L++Y+ +P L +A DI+ +P FSE
Sbjct: 29 GDGIGDSAYAVNP--EAGSMDYMPLMEYLHSSPVLPTARFTSDITEGFAPLSVRFKDFSE 86
Query: 170 DIKPRSW 176
+ R W
Sbjct: 87 NATSRLW 93
>pdb|1NGN|A Chain A, Mismatch Repair In Methylated Dna. Structure Of The
Mismatch-Specific Thymine Glycosylase Domain Of
Methyl-Cpg- Binding Protein Mbd4
Length = 155
Score = 26.6 bits (57), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 22/37 (59%), Gaps = 2/37 (5%)
Query: 134 GKFYLEELVQYIEKTP--KLTSASHWKDISHLISPFS 168
GK + L +++EK P ++ A+ W+D+S L+ P
Sbjct: 46 GKMAIPVLWEFLEKYPSAEVARAADWRDVSELLKPLG 82
>pdb|4EW4|A Chain A, Mouse Mbd4 Glycosylase Domain In Complex With Dna
Containing A Ribose Sugar
Length = 146
Score = 26.6 bits (57), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 31/67 (46%), Gaps = 15/67 (22%)
Query: 134 GKFYLEELVQYIEKTP--KLTSASHWKDISHLISP-------------FSEDIKPRSWRQ 178
GK + L +++EK P ++ A+ W+D+S L+ P FS++ + WR
Sbjct: 37 GKMAIPVLWEFLEKYPSAEVARAADWRDVSELLKPLGLYDLRAKTIIKFSDEYLTKQWRY 96
Query: 179 LYNLQSV 185
L +
Sbjct: 97 PIELHGI 103
>pdb|4EVV|A Chain A, Mouse Mbd4 Glycosylase Domain In Complex With A G:t
Mismatch
pdb|4EW0|A Chain A, Mouse Mbd4 Glycosylase Domain In Complex With A G:5hmu (5-
Hydroxymethyluracil) Mismatch
Length = 146
Score = 26.6 bits (57), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 15/59 (25%)
Query: 134 GKFYLEELVQYIEKTP--KLTSASHWKDISHLISP-------------FSEDIKPRSWR 177
GK + L +++EK P ++ A+ W+D+S L+ P FS++ + WR
Sbjct: 37 GKMAIPVLWEFLEKYPSAEVARAADWRDVSELLKPLGLYDLRAKTIIKFSDEYLTKQWR 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
0.322 0.138 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,241,029
Number of Sequences: 62578
Number of extensions: 253185
Number of successful extensions: 475
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 467
Number of HSP's gapped (non-prelim): 11
length of query: 203
length of database: 14,973,337
effective HSP length: 94
effective length of query: 109
effective length of database: 9,091,005
effective search space: 990919545
effective search space used: 990919545
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)