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= 009912
(522 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2GCJ|A Chain A, Crystal Structure Of The Pob3 Middle Domain
pdb|2GCJ|B Chain B, Crystal Structure Of The Pob3 Middle Domain
pdb|2GCJ|C Chain C, Crystal Structure Of The Pob3 Middle Domain
pdb|2GCJ|D Chain D, Crystal Structure Of The Pob3 Middle Domain
Length = 261
Score = 181 bits (460), Expect = 7e-46, Method: Compositional matrix adjust.
Identities = 88/254 (34%), Positives = 150/254 (59%), Gaps = 1/254 (0%)
Query: 188 AQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYS 247
A+ F +++ AD+G +A+V+F+ + TPRGRY ++++ + +RL+G+ ++K+Q+
Sbjct: 4 AEAFYEELKEKADIGEVAGDAIVSFQDVFFTTPRGRYDIDIYKNSIRLRGKTYEYKLQHR 63
Query: 248 SVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTK 307
+ R+ LPK++ H +V+ ++PP+RKGQT YP +VLQF+ D + +L + +E
Sbjct: 64 QIQRIVSLPKADDIHHLLVLAIEPPLRKGQTTYPFLVLQFQKDEETEVQLNLEDEDYEEN 123
Query: 308 YKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEK 367
YKDKL+ Y H V + +L+GL+ ++ PG+++S D AV S KA +G LYPL+
Sbjct: 124 YKDKLKKQYDAKTHIVLSHVLKGLTDRRVIVPGEYKSKYDQCAVSCSFKANEGYLYPLDN 183
Query: 368 SFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQ-EHLFRNIQRNEYHN 426
+FFFL KP I ++ V R ++ FDL + L++ + F NI + E
Sbjct: 184 AFFFLTKPTLYIPFSDVSMVNISRAGQTSTSSRTFDLEVVLRSNRGSTTFANISKEEQQL 243
Query: 427 LFDFISGKGLKIMN 440
L F+ K L++ N
Sbjct: 244 LEQFLKSKNLRVKN 257
>pdb|2GCL|A Chain A, Structure Of The Pob3 Middle Domain
pdb|2GCL|B Chain B, Structure Of The Pob3 Middle Domain
Length = 261
Score = 178 bits (451), Expect = 8e-45, Method: Compositional matrix adjust.
Identities = 87/254 (34%), Positives = 148/254 (58%), Gaps = 1/254 (0%)
Query: 188 AQVFRDKIMSMADVGAGGEEAVVTFEGIAILTPRGRYSVELHLSFLRLQGQANDFKIQYS 247
A+ F +++ AD+G +A+V+F+ + TPRGRY ++++ + +RL+G+ ++K+Q+
Sbjct: 4 AEAFYEELKEKADIGEVAGDAIVSFQDVFFTTPRGRYDIDIYKNSIRLRGKTYEYKLQHR 63
Query: 248 SVVRLFLLPKSNQPHTFVVVTLDPPIRKGQTLYPHIVLQFETDYVVQSELLMSEELLNTK 307
+ R+ LPK++ H V ++PP+R+GQT YP +VLQF+ D + +L + +E
Sbjct: 64 QIQRIVSLPKADDIHHXXVXAIEPPLRQGQTTYPFLVLQFQKDEETEVQLNLEDEDYEEN 123
Query: 308 YKDKLEPSYKGLIHEVFTTILRGLSGAKITKPGKFRSAQDGYAVKSSLKAEDGVLYPLEK 367
YKDKL+ Y H V + +L+GL+ ++ PG+++S D AV S KA +G LYPL+
Sbjct: 124 YKDKLKKQYDAKTHIVLSHVLKGLTDRRVIVPGEYKSKYDQCAVSCSFKANEGYLYPLDN 183
Query: 368 SFFFLPKPPTLILHEEIDYVEFERHAAGGSNMHYFDLLIRLKTEQ-EHLFRNIQRNEYHN 426
+FFFL KP I ++ V R ++ FDL + L++ + F NI + E
Sbjct: 184 AFFFLTKPTLYIPFSDVSXVNISRAGQTSTSSRTFDLEVVLRSNRGSTTFANISKEEQQL 243
Query: 427 LFDFISGKGLKIMN 440
L F+ K L++ N
Sbjct: 244 LEQFLKSKNLRVKN 257
>pdb|3F5R|A Chain A, The Crystal Structure Of A Subunit Of The Heterodimeric
Fact Complex (Spt16p-Pob3p)
Length = 191
Score = 71.2 bits (173), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 68/143 (47%), Gaps = 8/143 (5%)
Query: 21 GQLKIYSGKISWK--KLGGGKAVEVDK------VDIAGVTWMKVPRTNQLGVRTKDGLYY 72
G+ +I + WK GG A + K +++ V W + R L + TK+
Sbjct: 38 GRFRIADSGLGWKISTSGGSAANQARKPFLLPATELSTVQWSRGCRGYDLKINTKNQGVI 97
Query: 73 KFTGFRDQDVATLTNFFQSNFGISPEEKQLSVSGRNWGEVDLNGNMLTFMVGQKQAFEVS 132
+ GF D + N F F I E+++ S+ G NWG+ DL N F + K FE+
Sbjct: 98 QLDGFSQDDYNLIKNDFHRRFNIQVEQREHSLRGWNWGKTDLARNEXVFALNGKPTFEIP 157
Query: 133 LADVSQTQLQGKNDVILEFHVDD 155
A ++ T L KN+V +EF++ D
Sbjct: 158 YARINNTNLTSKNEVGIEFNIQD 180
>pdb|3RE2|A Chain A, Crystal Structure Of Menin Reveals The Binding Site For
Mixed Lineage Leukemia (Mll) Protein
Length = 472
Score = 32.3 bits (72), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 33/126 (26%), Positives = 52/126 (41%), Gaps = 20/126 (15%)
Query: 59 TNQLGVRTKDGLYYKFTGFRDQDVATLTNFFQSNFGISPEEKQL--SVSGRNWGEVDLN- 115
T L T D L+ KF +D F N G P +++ +V+ WG + +
Sbjct: 58 TPSLDEETFDALHCKFMALLQRD-------FTFNAGGLPATREIVKNVADLVWGCLAKSY 110
Query: 116 -------GNMLTFMVGQK-QAFEVSLADVSQTQLQGKNDVILEFHVDDTTGANEKDSL-- 165
N+ +F+ G + F V+ A V+ Q G NDV L D KD +
Sbjct: 111 FKDRPHIQNLYSFLTGNRLDCFGVAFAVVAMCQALGYNDVHLALSEDHAWVVFGKDKIET 170
Query: 166 MEISFH 171
E+++H
Sbjct: 171 AEVTWH 176
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
0.317 0.136 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,467,504
Number of Sequences: 62578
Number of extensions: 666947
Number of successful extensions: 1422
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1413
Number of HSP's gapped (non-prelim): 12
length of query: 522
length of database: 14,973,337
effective HSP length: 103
effective length of query: 419
effective length of database: 8,527,803
effective search space: 3573149457
effective search space used: 3573149457
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: 54 (25.4 bits)