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= psy4041
(162 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4I8D|A Chain A, Crystal Structure Of Beta-D-Glucoside Glucohydrolase From
Trichoderma Reesei
pdb|4I8D|B Chain B, Crystal Structure Of Beta-D-Glucoside Glucohydrolase From
Trichoderma Reesei
Length = 714
Score = 30.8 bits (68), Expect = 0.31, Method: Composition-based stats.
Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 10/74 (13%)
Query: 71 DPAGFRDYILSGLNAAGTDLEAVSKFLDIAGSKVDY----RRYGEALFDILIAGGLLGKT 126
D GF Y+++ NA T +++ + LD++ D+ R +G AL + + + +
Sbjct: 226 DQLGFPGYVMTDWNAQHTTVQSANSGLDMSMPGTDFNGNNRLWGPALTNAVNSNQV---- 281
Query: 127 LDPTTRAGVMVCRI 140
PT+R MV RI
Sbjct: 282 --PTSRVDDMVTRI 293
>pdb|3ZYZ|A Chain A, Crystal Structure Of A Glycoside Hydrolase Family 3
Beta-Glucosidase, Bgl1 From Hypocrea Jecorina At 2.1a
Resolution.
pdb|3ZZ1|A Chain A, Crystal Structure Of A Glycoside Hydrolase Family 3
Beta-Glucosidase, Bgl1 From Hypocrea Jecorina At 2.1a
Resolution
Length = 713
Score = 30.8 bits (68), Expect = 0.31, Method: Composition-based stats.
Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 10/74 (13%)
Query: 71 DPAGFRDYILSGLNAAGTDLEAVSKFLDIAGSKVDY----RRYGEALFDILIAGGLLGKT 126
D GF Y+++ NA T +++ + LD++ D+ R +G AL + + + +
Sbjct: 225 DQLGFPGYVMTDWNAQHTTVQSANSGLDMSMPGTDFNGNNRLWGPALTNAVNSNQV---- 280
Query: 127 LDPTTRAGVMVCRI 140
PT+R MV RI
Sbjct: 281 --PTSRVDDMVTRI 292
>pdb|2BPT|A Chain A, Structure Of The Nup1p:kap95p Complex
pdb|2BKU|B Chain B, Kap95p:rangtp Complex
pdb|2BKU|D Chain D, Kap95p:rangtp Complex
pdb|3EA5|B Chain B, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt
The Gtp- Bound Conformation: Implications For Nuclear
Import Complex Assembly Dynamics
pdb|3EA5|D Chain D, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt
The Gtp- Bound Conformation: Implications For Nuclear
Import Complex Assembly Dynamics
Length = 861
Score = 28.9 bits (63), Expect = 1.3, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 4/53 (7%)
Query: 68 EKYDPAGFRDYILSGLNAAGT--DLEAVSKFLDIAGS-KVDYRRYGEALFDIL 117
EKY F Y+L LN + + AV DI+ S + D+RRY +A+ ++L
Sbjct: 634 EKYLET-FSPYLLKALNQVDSPVSITAVGFIADISNSLEEDFRRYSDAMMNVL 685
>pdb|3ND2|A Chain A, Structure Of Yeast Importin-Beta (Kap95p)
Length = 861
Score = 28.9 bits (63), Expect = 1.3, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 4/53 (7%)
Query: 68 EKYDPAGFRDYILSGLNAAGT--DLEAVSKFLDIAGS-KVDYRRYGEALFDIL 117
EKY F Y+L LN + + AV DI+ S + D+RRY +A+ ++L
Sbjct: 634 EKYLET-FSPYLLKALNQVDSPVSITAVGFIADISNSLEEDFRRYSDAMMNVL 685
>pdb|3BH6|B Chain B, Crystal Structure Of The Rp2-Arl3 Complex Bound To
Gppnhp
pdb|3BH7|B Chain B, Crystal Structure Of The Rp2-Arl3 Complex Bound To
Gdp-Alf4
Length = 352
Score = 27.7 bits (60), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 48 KTEKPVLSGQRIKTRKRDEKEKYDPAGFRDYILSGL 83
K +P +R K D++EK DP +DY+ SGL
Sbjct: 15 KESRPENEEERPKQYSWDQREKVDP---KDYMFSGL 47
>pdb|2BX6|A Chain A, Crystal Structure Of The Human Retinitis Pigmentosa
Protein 2 (Rp2)
Length = 350
Score = 27.7 bits (60), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 48 KTEKPVLSGQRIKTRKRDEKEKYDPAGFRDYILSGL 83
K +P +R K D++EK DP +DY+ SGL
Sbjct: 13 KESRPENEEERPKQYSWDQREKVDP---KDYMFSGL 45
>pdb|3Q5I|A Chain A, Crystal Structure Of Pbanka_031420
Length = 504
Score = 27.3 bits (59), Expect = 4.4, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 29/64 (45%), Gaps = 3/64 (4%)
Query: 20 LMWMCDKPEVVIMYQVGEDKFVSYCMNQKTEKPVLSGQRIKTRKRDEKEKYDPAGFRDYI 79
L+ D P ++ ++ V EDK Y + + E L Q I K DE D A I
Sbjct: 99 LLKSLDHPNIIKLFDVFEDKKYFYLVTEFYEGGELFEQIINRHKFDE---CDAANIMKQI 155
Query: 80 LSGL 83
LSG+
Sbjct: 156 LSGI 159
>pdb|2HK2|A Chain A, Crystal Structure Of Mevalonate Diphosphate Decarboxylase
From Staphylococcus Aureus (Monoclinic Form)
pdb|2HK2|B Chain B, Crystal Structure Of Mevalonate Diphosphate Decarboxylase
From Staphylococcus Aureus (Monoclinic Form)
pdb|2HK3|A Chain A, Crystal Structure Of Mevalonate Diphosphate Decarboxylase
From Staphylococcus Aureus (Orthorhombic Form)
pdb|2HK3|B Chain B, Crystal Structure Of Mevalonate Diphosphate Decarboxylase
From Staphylococcus Aureus (Orthorhombic Form)
Length = 331
Score = 26.9 bits (58), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 20/34 (58%)
Query: 78 YILSGLNAAGTDLEAVSKFLDIAGSKVDYRRYGE 111
+ L+G +G +LE +SK++DI ++ Y E
Sbjct: 62 FWLNGEKVSGKELEKISKYMDIVRNRAGIDWYAE 95
>pdb|3A69|A Chain A, Atomic Model Of The Bacterial Flagellar Hook Based On
Docking An X-Ray Derived Structure And Terminal Two
Alpha- Helices Into An 7.1 Angstrom Resolution Cryoem
Map
Length = 402
Score = 26.9 bits (58), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 80 LSGLNAAGTDLEAVSKFLDIAGSKVDYRRYGEALFDILIAGGLLG 124
+SGLNAA T+L+ + +IA S + G A F + AG +G
Sbjct: 6 VSGLNAAATNLDVIGN--NIANSATYGFKSGTASFADMFAGSKVG 48
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 0.137 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,705,163
Number of Sequences: 62578
Number of extensions: 182935
Number of successful extensions: 327
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 326
Number of HSP's gapped (non-prelim): 11
length of query: 162
length of database: 14,973,337
effective HSP length: 91
effective length of query: 71
effective length of database: 9,278,739
effective search space: 658790469
effective search space used: 658790469
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: 47 (22.7 bits)