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= 019816
(335 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3V4C|A Chain A, Crystal Structure Of A Semialdehyde Dehydrogenase From
Sinorhizobium Meliloti 1021
pdb|3V4C|B Chain B, Crystal Structure Of A Semialdehyde Dehydrogenase From
Sinorhizobium Meliloti 1021
Length = 528
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 24/49 (48%)
Query: 40 FAMVSFDKSDLKHLLNEYPVVKNLIFEKDVKGNTPFHVLAAVCPDPRPY 88
F+++ D+ H L ++P +K + F + G L A P+P P+
Sbjct: 235 FSLIQGGSRDVGHALVQHPHIKAVGFTGSLAGGRALFDLCAARPEPIPF 283
>pdb|1QYM|A Chain A, X-Ray Structure Of Human Gankyrin
Length = 227
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 5/79 (6%)
Query: 2 TALHLAAGQGNDWIVQEIIQRCPECCELVDDRGWNVLHFAMVSFDKSDLKHLLNEYPVVK 61
TALH A G+ IV+ ++Q + DD GW+ LH A + +K LL + V
Sbjct: 43 TALHWACSAGHTEIVEFLLQLGVPVND-KDDAGWSPLHIAASAGRDEIVKALLGKGAQVN 101
Query: 62 NLIFEKDVKGNTPFHVLAA 80
+ + G TP H A+
Sbjct: 102 AV----NQNGCTPLHYAAS 116
>pdb|1UOH|A Chain A, Human Gankyrin
pdb|1TR4|A Chain A, Solution Structure Of Human Oncogenic Protein Gankyrin
Length = 226
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 5/79 (6%)
Query: 2 TALHLAAGQGNDWIVQEIIQRCPECCELVDDRGWNVLHFAMVSFDKSDLKHLLNEYPVVK 61
TALH A G+ IV+ ++Q + DD GW+ LH A + +K LL + V
Sbjct: 42 TALHWACSAGHTEIVEFLLQLGVPVND-KDDAGWSPLHIAASAGRDEIVKALLGKGAQVN 100
Query: 62 NLIFEKDVKGNTPFHVLAA 80
+ + G TP H A+
Sbjct: 101 AV----NQNGCTPLHYAAS 115
>pdb|2DZN|A Chain A, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
pdb|2DZN|C Chain C, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
pdb|2DZN|E Chain E, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
pdb|2DZO|A Chain A, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
pdb|2DZO|C Chain C, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
Length = 228
Score = 27.7 bits (60), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 34/78 (43%), Gaps = 1/78 (1%)
Query: 4 LHLAAGQGNDWIVQEIIQRCPECCELVDDRGWNVLHFAMVSFDKSDLKHLLNEYPVVKNL 63
LH A + + VQE++ P D G LH++ VSF ++ L NL
Sbjct: 6 LHQACMENEFFKVQELLHSKPSLLLQKDQDGRIPLHWS-VSFQAHEITSFLLSKMENVNL 64
Query: 64 IFEKDVKGNTPFHVLAAV 81
D G TPFH+ +V
Sbjct: 65 DDYPDDSGWTPFHIACSV 82
>pdb|3AJI|A Chain A, Structure Of Gankyrin-S6atpase Photo-Cross-Linked
Site-Specifically, And Incoporated By Genetic Code
Expansion
pdb|3AJI|C Chain C, Structure Of Gankyrin-S6atpase Photo-Cross-Linked
Site-Specifically, And Incoporated By Genetic Code
Expansion
Length = 231
Score = 27.7 bits (60), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 5/79 (6%)
Query: 2 TALHLAAGQGNDWIVQEIIQRCPECCELVDDRGWNVLHFAMVSFDKSDLKHLLNEYPVVK 61
TALH A G+ IV+ ++Q + DD GW+ LH A + +K LL + V
Sbjct: 42 TALHWACSAGHTEIVEFLLQLGVPVND-KDDAGWSPLHIAASAGXDEIVKALLVKGAHVN 100
Query: 62 NLIFEKDVKGNTPFHVLAA 80
+ + G TP H A+
Sbjct: 101 AV----NQNGCTPLHYAAS 115
>pdb|1IXV|A Chain A, Crystal Structure Analysis Of Homolog Of Oncoprotein
Gankyrin, An Interactor Of Rb And Cdk46
Length = 231
Score = 27.7 bits (60), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 34/78 (43%), Gaps = 1/78 (1%)
Query: 4 LHLAAGQGNDWIVQEIIQRCPECCELVDDRGWNVLHFAMVSFDKSDLKHLLNEYPVVKNL 63
LH A + + VQE++ P D G LH++ VSF ++ L NL
Sbjct: 6 LHQACMENEFFKVQELLHSKPSLLLQKDQDGRIPLHWS-VSFQAHEITSFLLSKMENVNL 64
Query: 64 IFEKDVKGNTPFHVLAAV 81
D G TPFH+ +V
Sbjct: 65 DDYPDDSGWTPFHIACSV 82
>pdb|2DVW|A Chain A, Structure Of The Oncoprotein Gankyrin In Complex With S6
Atpase Of The 26s Proteasome
pdb|2DWZ|A Chain A, Structure Of The Oncoprotein Gankyrin In Complex With S6
Atpase Of The 26s Proteasome
pdb|2DWZ|C Chain C, Structure Of The Oncoprotein Gankyrin In Complex With S6
Atpase Of The 26s Proteasome
Length = 231
Score = 27.7 bits (60), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 5/79 (6%)
Query: 2 TALHLAAGQGNDWIVQEIIQRCPECCELVDDRGWNVLHFAMVSFDKSDLKHLLNEYPVVK 61
TALH A G+ IV+ ++Q + DD GW+ LH A + +K LL + V
Sbjct: 42 TALHWACSAGHTEIVEFLLQLGVPVND-KDDAGWSPLHIAASAGRDEIVKALLVKGAHVN 100
Query: 62 NLIFEKDVKGNTPFHVLAA 80
+ + G TP H A+
Sbjct: 101 AV----NQNGCTPLHYAAS 115
>pdb|1WG0|A Chain A, Structural Comparison Of Nas6p Protein Structures In Two
Different Crystal Forms
Length = 243
Score = 27.7 bits (60), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 34/78 (43%), Gaps = 1/78 (1%)
Query: 4 LHLAAGQGNDWIVQEIIQRCPECCELVDDRGWNVLHFAMVSFDKSDLKHLLNEYPVVKNL 63
LH A + + VQE++ P D G LH++ VSF ++ L NL
Sbjct: 6 LHQACMENEFFKVQELLHSKPSLLLQKDQDGRIPLHWS-VSFQAHEITSFLLSKMENVNL 64
Query: 64 IFEKDVKGNTPFHVLAAV 81
D G TPFH+ +V
Sbjct: 65 DDYPDDSGWTPFHIACSV 82
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 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,314,590
Number of Sequences: 62578
Number of extensions: 303274
Number of successful extensions: 478
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 469
Number of HSP's gapped (non-prelim): 16
length of query: 335
length of database: 14,973,337
effective HSP length: 99
effective length of query: 236
effective length of database: 8,778,115
effective search space: 2071635140
effective search space used: 2071635140
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)