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= 030588
(175 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WP7|A Chain A, Crystal Structure Of Desumoylase(Duf862)
Length = 168
Score = 47.4 bits (111), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 50/102 (49%), Gaps = 6/102 (5%)
Query: 40 GIFHSGIEVHGKEYGFGAHDFPVSGVFEVEPRSCPGFIYRASILLGRINMPPSEFRTFIE 99
GI+H+ I VH E+ FG+ SG+ P + + +G + F ++
Sbjct: 35 GIWHTSIVVHKDEFFFGS-----SGISSCTPGGTLLGPPDSVVDVGNTEVTEEIFLEYLS 89
Query: 100 C-SASEYHGDTYNLISKNCNHFTDDIAWRLTGKHIPGWVNRL 140
S + G+ YNL NCN F++++A LTG+ IP ++ L
Sbjct: 90 SLGESLFRGEAYNLFEHNCNTFSNEVAQFLTGRKIPSYITDL 131
>pdb|3EBQ|A Chain A, Crystal Structure Of Human Pppde1
Length = 170
Score = 47.4 bits (111), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 31/105 (29%), Positives = 49/105 (46%), Gaps = 12/105 (11%)
Query: 40 GIFHSGIEVHGKEYGFGAHDF---PVSGVFEVEPRSCPGFIYRASILLGRINMPPSEFRT 96
GI+H+ I VH E+ FG+ P G P S + +G + F
Sbjct: 37 GIWHTSIVVHKDEFFFGSGGISSCPPGGTLLGPPDSV--------VDVGSTEVTEEIFLE 88
Query: 97 FIEC-SASEYHGDTYNLISKNCNHFTDDIAWRLTGKHIPGWVNRL 140
++ S + G+ YNL NCN F++++A LTG+ IP ++ L
Sbjct: 89 YLSSLGESLFRGEAYNLFEHNCNTFSNEVAQFLTGRKIPSYITDL 133
>pdb|3PSI|A Chain A, Crystal Structure Of The Spt6 Core Domain From
Saccharomyces Cerevisiae, Form Spt6(239-1451)
Length = 1219
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 28/58 (48%)
Query: 108 DTYNLISKNCNHFTDDIAWRLTGKHIPGWVNRLARLGTKNSSCFHLPMFVIQQVITAN 165
D NL+S N TD+ + K+I G+ R A ++ + P+ QQ+IT N
Sbjct: 694 DIVNLVSVEVNKATDNNYYASALKYISGFGKRKAIDFLQSLQRLNEPLLARQQLITHN 751
>pdb|2GCX|A Chain A, Solution Structure Of Ferrous Iron Transport Protein A
(Feoa) Of Klebsiella Pneumoniae
Length = 75
Score = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 3/38 (7%)
Query: 119 HFTDDIAWRLTG--KHI-PGWVNRLARLGTKNSSCFHL 153
FT D AW++TG + I P + +L LG S FH+
Sbjct: 2 QFTPDSAWKITGFSRDISPAYRQKLLSLGMLPGSSFHV 39
>pdb|2BKU|A Chain A, Kap95p:rangtp Complex
pdb|2BKU|C Chain C, Kap95p:rangtp Complex
Length = 177
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 22/93 (23%), Positives = 37/93 (39%), Gaps = 9/93 (9%)
Query: 67 EVEPRSCPGFIYRASILLGRINMPPSEFRTFIECSASEYHG--DTYNLISKNCNHFTDDI 124
E E + P L+ N P +F + ++ G D Y I C D+
Sbjct: 34 EFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY-YIQAQCAIIMFDV 92
Query: 125 AWRLTGKHIPGWVNRLARLGTKNSSCFHLPMFV 157
R+T K++P W L R+ C ++P+ +
Sbjct: 93 TSRVTYKNVPNWHRDLVRV------CENIPIVL 119
>pdb|1BYU|A Chain A, Canine Gdp-Ran
pdb|1BYU|B Chain B, Canine Gdp-Ran
Length = 216
Score = 27.3 bits (59), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 22/93 (23%), Positives = 37/93 (39%), Gaps = 9/93 (9%)
Query: 67 EVEPRSCPGFIYRASILLGRINMPPSEFRTFIECSASEYHG--DTYNLISKNCNHFTDDI 124
E E + P L+ N P +F + ++ G D Y I C D+
Sbjct: 34 EFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY-YIQAQCAIIMFDV 92
Query: 125 AWRLTGKHIPGWVNRLARLGTKNSSCFHLPMFV 157
R+T K++P W L R+ C ++P+ +
Sbjct: 93 TSRVTYKNVPNWHRDLVRV------CENIPIVL 119
>pdb|3PSF|A Chain A, Crystal Structure Of The Spt6 Core Domain From
Saccharomyces Cerevisiae, Form Spt6(236-1259)
Length = 1030
Score = 26.9 bits (58), Expect = 5.4, Method: Composition-based stats.
Identities = 18/58 (31%), Positives = 28/58 (48%)
Query: 108 DTYNLISKNCNHFTDDIAWRLTGKHIPGWVNRLARLGTKNSSCFHLPMFVIQQVITAN 165
D NL+S N TD+ + K+I G+ R A ++ + P+ QQ+IT N
Sbjct: 697 DIVNLVSVEVNKATDNNYYASALKYISGFGKRKAIDFLQSLQRLNEPLLARQQLITHN 754
>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant
pdb|1QG4|B Chain B, Canine Gdp-Ran F72y Mutant
Length = 216
Score = 26.6 bits (57), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 9/77 (11%)
Query: 83 LLGRINMPPSEFRTFIECSASEYHG--DTYNLISKNCNHFTDDIAWRLTGKHIPGWVNRL 140
L+ N P +F + +Y G D Y I C D+ R+T K++P W L
Sbjct: 50 LVFHTNRGPIKFNVWDTAGQEKYGGLRDGY-YIQAQCAIIMFDVTSRVTYKNVPNWHRDL 108
Query: 141 ARLGTKNSSCFHLPMFV 157
R+ C ++P+ +
Sbjct: 109 VRV------CENIPIVL 119
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
0.323 0.138 0.438
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,366,001
Number of Sequences: 62578
Number of extensions: 224375
Number of successful extensions: 386
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 382
Number of HSP's gapped (non-prelim): 9
length of query: 175
length of database: 14,973,337
effective HSP length: 92
effective length of query: 83
effective length of database: 9,216,161
effective search space: 764941363
effective search space used: 764941363
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: 48 (23.1 bits)