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= 033028
(129 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1BH8|A Chain A, Htafii18HTAFII28 HETERODIMER CRYSTAL STRUCTURE
pdb|1BH9|A Chain A, Htafii18HTAFII28 HETERODIMER CRYSTAL STRUCTURE WITH
BOUND Pcmbs
Length = 45
Score = 60.8 bits (146), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 24/45 (53%), Positives = 36/45 (80%)
Query: 31 VFQKDLQHMMYGFGDDPNPLPETVALVEDIVVEYVTDLAHKAQDI 75
+F K+L+ MMYGFGDD NP E+V ++ED+V+E++T++ HKA I
Sbjct: 1 LFSKELRCMMYGFGDDQNPYTESVDILEDLVIEFITEMTHKAMSI 45
>pdb|1FQV|B Chain B, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|D Chain D, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|F Chain F, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|H Chain H, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|J Chain J, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|L Chain L, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|N Chain N, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|1FQV|P Chain P, Insights Into Scf Ubiquitin Ligases From The Structure
Of The Skp1-Skp2 Complex
pdb|2OVP|A Chain A, Structure Of The Skp1-Fbw7 Complex
pdb|2OVQ|A Chain A, Structure Of The Skp1-Fbw7-Cyclinedegc Complex
pdb|2OVR|A Chain A, Structure Of The Skp1-Fbw7-Cyclinedegn Complex
Length = 149
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 36 LQHMMYGFGDDPNPLPETVALVEDIVVEYVTDLAHKAQDIGSKG 79
++ M+ G DP PLP A + V+++ T H D G G
Sbjct: 27 IKTMLEDLGMDPVPLPNVNAAILKKVIQWCT---HHKDDPGGSG 67
>pdb|3L2O|A Chain A, Structure-Based Mechanism Of Dimerization-Dependent
Ubiquitination By The Scffbx4 Ubiquitin Ligase
Length = 149
Score = 27.3 bits (59), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 36 LQHMMYGFGDDPNPLPETVALVEDIVVEYVTDLAHKAQDIGSKG 79
++ M+ G DP PLP A + V+++ T H D G G
Sbjct: 27 IKTMLEDLGMDPVPLPNVNAAILKKVIQWCT---HHKDDPGGSG 67
>pdb|2B49|A Chain A, Crystal Structure Of The Catalytic Domain Of Protein
Tyrosine Phosphatase, Non-Receptor Type 3
Length = 287
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 27/56 (48%)
Query: 41 YGFGDDPNPLPETVALVEDIVVEYVTDLAHKAQDIGSKGGKLSVEDFLYLIRKDLP 96
+G DD + E V V + V+ L H + IG G +++E + L ++LP
Sbjct: 186 HGVPDDSSDFLEFVNYVRSLRVDSEPVLVHCSAGIGRTGVLVTMETAMCLTERNLP 241
>pdb|1M8P|A Chain A, Crystal Structure Of P. Chrysogenum Atp Sulfurylase In The
T-State
pdb|1M8P|B Chain B, Crystal Structure Of P. Chrysogenum Atp Sulfurylase In The
T-State
pdb|1M8P|C Chain C, Crystal Structure Of P. Chrysogenum Atp Sulfurylase In The
T-State
Length = 573
Score = 26.2 bits (56), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 24/55 (43%), Gaps = 2/55 (3%)
Query: 19 PYETTSFKRKRGVFQKDLQHMMYGFG--DDPNPLPETVALVEDIVVEYVTDLAHK 71
P E KRG++ + + GF DDP PE LV D + V + H+
Sbjct: 505 PLEHCEQSDKRGIYAAARRGEIKGFTGVDDPYETPEKADLVVDFSKQSVRSIVHE 559
>pdb|1I2D|A Chain A, Crystal Structure Of Atp Sulfurylase From Penicillium
Chrysogenum
pdb|1I2D|B Chain B, Crystal Structure Of Atp Sulfurylase From Penicillium
Chrysogenum
pdb|1I2D|C Chain C, Crystal Structure Of Atp Sulfurylase From Penicillium
Chrysogenum
Length = 573
Score = 25.8 bits (55), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 24/55 (43%), Gaps = 2/55 (3%)
Query: 19 PYETTSFKRKRGVFQKDLQHMMYGFG--DDPNPLPETVALVEDIVVEYVTDLAHK 71
P E KRG++ + + GF DDP PE LV D + V + H+
Sbjct: 505 PLEHCEQSDKRGIYAAARRGEIKGFTGVDDPYETPEKADLVVDFSKQSVRSIVHE 559
>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx
Length = 376
Score = 25.4 bits (54), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 63 EYVTDLAHKA--QDIGSKGGKLSVEDFLYLIRKDLPKLNRCTELLSMQEELKQA 114
E + ++A A + G++G + +EDF I DLPKL ++ LKQA
Sbjct: 309 EAIKEIAQLALERKTGARGLRAIIEDFCLDIMFDLPKLKGSEVRITKDCVLKQA 362
>pdb|3HDX|A Chain A, Crystal Structure Of Susd Superfamily Protein
(Np_809182.1) From Bacteroides Thetaiotaomicron Vpi-5482
At 1.50 A Resolution
Length = 478
Score = 25.4 bits (54), Expect = 9.4, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 30/66 (45%), Gaps = 3/66 (4%)
Query: 62 VEYVTDLAHKAQDIGSKGGKL---SVEDFLYLIRKDLPKLNRCTELLSMQEELKQARKAF 118
++ + D + K D G G + +ED L + L LNR TE +S ++ R
Sbjct: 338 IKIIQDGSAKDNDFGVFGSSIVFTRLEDITLLRAEALCALNRSTEAVSYLNXIRTNRGLR 397
Query: 119 EVDEEK 124
EV +K
Sbjct: 398 EVSFKK 403
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
0.315 0.135 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,403,099
Number of Sequences: 62578
Number of extensions: 132264
Number of successful extensions: 227
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 224
Number of HSP's gapped (non-prelim): 14
length of query: 129
length of database: 14,973,337
effective HSP length: 88
effective length of query: 41
effective length of database: 9,466,473
effective search space: 388125393
effective search space used: 388125393
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 45 (21.9 bits)