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= 019644
(338 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1UHR|A Chain A, Solution Structure Of The Swib Domain Of Mouse Brg1-
Associated Factor 60a
Length = 93
Score = 47.4 bits (111), Expect = 1e-05, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 38/71 (53%)
Query: 146 LSPQLQEFIGVTELARTEVVKQLWAYIREKDLQDPNNRRNIVCDERLRALFGVDTINMFQ 205
L P+L +G+ R +++ LW YI+ LQDP+ R ++CD+ L+ +F + +
Sbjct: 14 LDPRLARLLGIHTQTRPVIIQALWQYIKTHKLQDPHEREFVLCDKYLQQIFESQRMKFSE 73
Query: 206 MNKALSKHIWP 216
+ + L + P
Sbjct: 74 IPQRLHALLMP 84
Score = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 35/64 (54%), Gaps = 2/64 (3%)
Query: 255 GKSGFLAPLQLSDALIKFLGTGESALPRSDVIKRMWDYIKEKNLQDPSDKRRIICDEKLK 314
G SG +L L + LG P +I+ +W YIK LQDP ++ ++CD+ L+
Sbjct: 4 GSSGQPPQFKLDPRLARLLGIHTQTRPV--IIQALWQYIKTHKLQDPHEREFVLCDKYLQ 61
Query: 315 ELFD 318
++F+
Sbjct: 62 QIFE 65
>pdb|1V31|A Chain A, Solution Structure Of The SwibMDM2 DOMAIN OF THE
Hypothetical Protein At5g14170 From Arabidopsis Thaliana
Length = 93
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 255 GKSGFLAPLQLSDALIKFLGTGESALPRSDVIKRMWDYIKEKNLQDPSDKRRIICDEKLK 314
G SG +LS AL+ LG PR +I +W Y+K + LQ+P+D CD L+
Sbjct: 4 GSSGVPEKFKLSTALMDVLGIEVETRPR--IIAAIWHYVKARKLQNPNDPSFFNCDAALQ 61
Query: 315 ELFDVDTFNGFTVTKLLVVHFL 336
++F + FT+ + H L
Sbjct: 62 KVFGEEKLK-FTMVSQKISHHL 82
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 38/69 (55%)
Query: 146 LSPQLQEFIGVTELARTEVVKQLWAYIREKDLQDPNNRRNIVCDERLRALFGVDTINMFQ 205
LS L + +G+ R ++ +W Y++ + LQ+PN+ CD L+ +FG + +
Sbjct: 14 LSTALMDVLGIEVETRPRIIAAIWHYVKARKLQNPNDPSFFNCDAALQKVFGEEKLKFTM 73
Query: 206 MNKALSKHI 214
+++ +S H+
Sbjct: 74 VSQKISHHL 82
>pdb|1V32|A Chain A, Solution Structure Of The SwibMDM2 DOMAIN OF THE
Hypothetical Protein At5g08430 From Arabidopsis Thaliana
Length = 101
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 34/55 (61%)
Query: 159 LARTEVVKQLWAYIREKDLQDPNNRRNIVCDERLRALFGVDTINMFQMNKALSKH 213
++R +V + YI ++ L DP+N++ +VCD+RL LFG TI ++ L KH
Sbjct: 35 ISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRTIFRMKVYDLLEKH 89
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 39/74 (52%), Gaps = 4/74 (5%)
Query: 266 SDALIKFLGT----GESALPRSDVIKRMWDYIKEKNLQDPSDKRRIICDEKLKELFDVDT 321
S LI+FL + + R DV + YI ++ L DPS+K++++CD++L LF T
Sbjct: 17 SRQLIEFLHSLGKDTSEMISRYDVSDTIAKYISKEGLLDPSNKKKVVCDKRLVLLFGTRT 76
Query: 322 FNGFTVTKLLVVHF 335
V LL H+
Sbjct: 77 IFRMKVYDLLEKHY 90
>pdb|4DYV|A Chain A, Crystal Structure Of A Short-Chain DehydrogenaseREDUCTASE
SDR FROM Xanthobacter Autotrophicus Py2
Length = 272
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 16/35 (45%)
Query: 267 DALIKFLGTGESALPRSDVIKRMWDYIKEKNLQDP 301
D L GTG A+P D+ W + + NL P
Sbjct: 104 DVLFNNAGTGAPAIPXEDLTFAQWKQVVDTNLTGP 138
>pdb|1YCQ|A Chain A, Xenopus Laevis Mdm2 Bound To The Transactivation Domain Of
Human P53
Length = 107
Score = 28.5 bits (62), Expect = 5.7, Method: Composition-based stats.
Identities = 21/63 (33%), Positives = 30/63 (47%), Gaps = 3/63 (4%)
Query: 262 PLQLSDALIKFLGTGESALPRSDVIKRMWDYIKEKNLQDPSDKRRIIC-DEKLKELFDVD 320
PL LS L+K G + +VI + YI K L D + + C ++ L ELF V
Sbjct: 16 PLLLS--LLKSAGAQKETFTMKEVIYHLGQYIMAKQLYDEKQQHIVHCSNDPLGELFGVQ 73
Query: 321 TFN 323
F+
Sbjct: 74 EFS 76
>pdb|4IPF|A Chain A, The 1.7a Crystal Structure Of Humanized Xenopus Mdm2 With
Ro5045337
Length = 85
Score = 27.7 bits (60), Expect = 8.6, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 3/63 (4%)
Query: 262 PLQLSDALIKFLGTGESALPRSDVIKRMWDYIKEKNLQDPSDKRRIIC-DEKLKELFDVD 320
PL LS L+K G + +V+ + YI K L D + + C ++ L ELF V
Sbjct: 8 PLLLS--LLKSAGAQKETFTMKEVLYHLGQYIMAKQLYDEKQQHIVHCSNDPLGELFGVQ 65
Query: 321 TFN 323
F+
Sbjct: 66 EFS 68
>pdb|1TTV|A Chain A, Nmr Structure Of A Complex Between Mdm2 And A Small
Molecule Inhibitor
Length = 107
Score = 27.7 bits (60), Expect = 9.8, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 3/63 (4%)
Query: 262 PLQLSDALIKFLGTGESALPRSDVIKRMWDYIKEKNLQDPSDKRRIIC-DEKLKELFDVD 320
PL LS L+K G + +V+ + YI K L D + + C ++ L ELF V
Sbjct: 16 PLLLS--LLKSAGAQKETFTMKEVLYHLGQYIMAKQLYDEKQQHIVHCSNDPLGELFGVQ 73
Query: 321 TFN 323
F+
Sbjct: 74 EFS 76
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 0.135 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,112,704
Number of Sequences: 62578
Number of extensions: 303345
Number of successful extensions: 744
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 737
Number of HSP's gapped (non-prelim): 28
length of query: 338
length of database: 14,973,337
effective HSP length: 99
effective length of query: 239
effective length of database: 8,778,115
effective search space: 2097969485
effective search space used: 2097969485
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)