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= 038068
(269 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2A25|A Chain A, Crystal Structure Of Siah1 Sbd Bound To The Peptide
Ekpaavvapittg From Sip
Length = 193
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 115 CKNAEYGCQQKMSFSKKRGHEKTCQHSPL--PCPLSDCSFLGCSSQFVRHFMAKH 167
CK A GC+ + ++K HE+ C+ P PCP + C + G + H M +H
Sbjct: 9 CKYASSGCEITLPHTEKADHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQH 63
>pdb|2AN6|A Chain A, Protein-Peptide Complex
pdb|2AN6|B Chain B, Protein-Peptide Complex
pdb|2AN6|C Chain C, Protein-Peptide Complex
pdb|2AN6|D Chain D, Protein-Peptide Complex
Length = 191
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 115 CKNAEYGCQQKMSFSKKRGHEKTCQHSPL--PCPLSDCSFLGCSSQFVRHFMAKH 167
CK A GC+ + ++K HE+ C+ P PCP + C + G + H M +H
Sbjct: 7 CKYASSGCEITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQH 61
>pdb|1K2F|A Chain A, Siah, Seven In Absentia Homolog
pdb|1K2F|B Chain B, Siah, Seven In Absentia Homolog
Length = 190
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 115 CKNAEYGCQQKMSFSKKRGHEKTCQHSPL--PCPLSDCSFLGCSSQFVRHFMAKH 167
CK A GC+ + ++K HE+ C+ P PCP + C + G + H M +H
Sbjct: 6 CKYASSGCEITLPHTEKAEHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQH 60
>pdb|3HCS|A Chain A, Crystal Structure Of The N-Terminal Domain Of Traf6
pdb|3HCS|B Chain B, Crystal Structure Of The N-Terminal Domain Of Traf6
Length = 170
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 29/100 (29%), Positives = 42/100 (42%), Gaps = 12/100 (12%)
Query: 55 FDCPICFEPLTVPVFQCVNGHLACSDCCAKIKRN----CPT----CSSPTVIVRNWAIEK 106
++CPIC L V Q GH C C K R+ CP + N+A +
Sbjct: 19 YECPICLMALREAV-QTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKRE 77
Query: 107 VIELVQVNCKNAEYGCQQKMSFSKKRGHEKTCQHSPLPCP 146
++ L+ V C N GC KM H+ C+ + + CP
Sbjct: 78 ILSLM-VKCPNE--GCLHKMELRHLEDHQAHCEFALMDCP 114
>pdb|1E4U|A Chain A, N-Terminal Ring Finger Domain Of Human Not-4
Length = 78
Score = 31.6 bits (70), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 7/51 (13%)
Query: 52 QDIFDCPICFEPLTVP---VFQCVNGHLACSDCCAKIKRN----CPTCSSP 95
+D +CP+C EPL + F C G+ C C +I+ + CP C P
Sbjct: 9 EDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKP 59
>pdb|3FVV|A Chain A, The Crystal Structure Of The Protein With Unknown Function
From Bordetella Pertussis Tohama I
pdb|3FVV|B Chain B, The Crystal Structure Of The Protein With Unknown Function
From Bordetella Pertussis Tohama I
Length = 232
Score = 31.6 bits (70), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 64 LTVPVFQCVNGHLACSDCCAKIKRNCPTCSSPTVIVRNWAIEKVI 108
LTV V GHLA D CA + ++P I R + ++ +I
Sbjct: 93 LTVQAVDVVRGHLAAGDLCALVTATNSFVTAP--IARAFGVQHLI 135
>pdb|1UR6|B Chain B, Nmr Based Structural Model Of The Ubch5b-Cnot4 Complex
Length = 52
Score = 31.2 bits (69), Expect = 0.59, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 7/47 (14%)
Query: 56 DCPICFEPLTVP---VFQCVNGHLACSDCCAKIKRN----CPTCSSP 95
+CP+C EPL + F C G+ C C +I+ + CP C P
Sbjct: 2 ECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKP 48
>pdb|3FIQ|A Chain A, Odorant Binding Protein Obp1
pdb|3FIQ|B Chain B, Odorant Binding Protein Obp1
Length = 157
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 195 FSVLQEEKNDDVLFILNNNTGSLGNLVSVCCIASVRKDL 233
F VL+ K DD++F N N G +V +A R+DL
Sbjct: 88 FHVLK--KTDDIIFFHNVNVDESGKETNVILVAGKREDL 124
>pdb|3RNL|A Chain A, Crystal Structure Of Sulfotransferase From
Alicyclobacillus Acidocaldarius
Length = 311
Score = 28.1 bits (61), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 150 CSFLGCSSQFVRHFMAKHNISAVP 173
C+FLG S+ FV +HN S VP
Sbjct: 203 CAFLGVSTDFVPDTSIRHNESGVP 226
>pdb|2Y43|A Chain A, Rad18 Ubiquitin Ligase Ring Domain Structure
pdb|2Y43|B Chain B, Rad18 Ubiquitin Ligase Ring Domain Structure
Length = 99
Score = 28.1 bits (61), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 46 ALTITDQDIFDCPICFEPLTVPVFQCVNGHLACSDCCAKI---KRNCPTC 92
A+ T D+ C ICFE + + H CS C K K CPTC
Sbjct: 14 AVMKTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
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
0.319 0.134 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,750,034
Number of Sequences: 62578
Number of extensions: 298531
Number of successful extensions: 525
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 516
Number of HSP's gapped (non-prelim): 19
length of query: 269
length of database: 14,973,337
effective HSP length: 97
effective length of query: 172
effective length of database: 8,903,271
effective search space: 1531362612
effective search space used: 1531362612
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)