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= 035392
(59 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 50.4 bits (119), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 29/44 (65%), Gaps = 3/44 (6%)
Query: 13 PGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56
++C + WG CNHAFH HCI +W+ ++ CP+ REW+F+
Sbjct: 56 TSEECTVAWGVCNHAFHFHCISRWLKTRQV---CPLDNREWEFQ 96
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 29/44 (65%), Gaps = 3/44 (6%)
Query: 13 PGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56
++C + WG CNHAFH HCI +W+ ++ CP+ REW+F+
Sbjct: 73 TSEECTVAWGVCNHAFHFHCISRWLKTRQV---CPLDNREWEFQ 113
>pdb|1U6G|B Chain B, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
pdb|2HYE|D Chain D, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 108
Score = 50.1 bits (118), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 29/44 (65%), Gaps = 3/44 (6%)
Query: 13 PGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56
++C + WG CNHAFH HCI +W+ ++ CP+ REW+F+
Sbjct: 64 TSEECTVAWGVCNHAFHFHCISRWLKTRQV---CPLDNREWEFQ 104
>pdb|3DPL|R Chain R, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation.
pdb|3RTR|B Chain B, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|D Chain D, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|F Chain F, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|H Chain H, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|4F52|B Chain B, Structure Of A Glomulin-Rbx1-Cul1 Complex
pdb|4F52|D Chain D, Structure Of A Glomulin-Rbx1-Cul1 Complex
Length = 106
Score = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 29/44 (65%), Gaps = 3/44 (6%)
Query: 13 PGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56
++C + WG CNHAFH HCI +W+ ++ CP+ REW+F+
Sbjct: 62 TSEECTVAWGVCNHAFHFHCISRWLKTRQV---CPLDNREWEFQ 102
>pdb|4A0C|D Chain D, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0C|F Chain F, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0L|F Chain F, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp
Abasic Site Containing Dna-Duplex
pdb|4A0L|I Chain I, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp
Abasic Site Containing Dna-Duplex
Length = 98
Score = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 29/44 (65%), Gaps = 3/44 (6%)
Query: 13 PGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56
++C + WG CNHAFH HCI +W+ ++ CP+ REW+F+
Sbjct: 54 TSEECTVAWGVCNHAFHFHCISRWLKTRQV---CPLDNREWEFQ 94
>pdb|3DQV|R Chain R, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
pdb|3DQV|Y Chain Y, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 106
Score = 49.7 bits (117), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 29/44 (65%), Gaps = 3/44 (6%)
Query: 13 PGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56
++C + WG CNHAFH HCI +W+ ++ CP+ REW+F+
Sbjct: 62 TSEECTVAWGVCNHAFHFHCISRWLKTRQV---CPLDNREWEFQ 102
>pdb|1LDJ|B Chain B, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
pdb|1LDK|C Chain C, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 90
Score = 49.7 bits (117), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 29/44 (65%), Gaps = 3/44 (6%)
Query: 13 PGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56
++C + WG CNHAFH HCI +W+ ++ CP+ REW+F+
Sbjct: 46 TSEECTVAWGVCNHAFHFHCISRWLKTRQV---CPLDNREWEFQ 86
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 26/42 (61%), Gaps = 3/42 (7%)
Query: 15 DDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56
+DC ++WG CNH+FH C+ WV CP+C+++W +
Sbjct: 39 EDCVVVWGECNHSFHNCCMSLWVKQNN---RCPLCQQDWVVQ 77
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 28.5 bits (62), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 3/29 (10%)
Query: 24 CNHAFHLHCILKWVNSQTPQAHCPMCRRE 52
CNH FH C+ KW+ + CP+CR +
Sbjct: 44 CNHEFHAKCVDKWLKANRT---CPICRAD 69
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 16/28 (57%), Gaps = 3/28 (10%)
Query: 24 CNHAFHLHCILKWVNSQTPQAHCPMCRR 51
CNH FH CI+ W+ CP+CR+
Sbjct: 36 CNHLFHDSCIVPWLEQHD---SCPVCRK 60
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 10/33 (30%), Positives = 19/33 (57%)
Query: 20 IWGACNHAFHLHCILKWVNSQTPQAHCPMCRRE 52
+ C+H F C+LK +N + + CP+C+ +
Sbjct: 35 VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKND 67
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 15/27 (55%), Gaps = 3/27 (11%)
Query: 24 CNHAFHLHCILKWVNSQTPQAHCPMCR 50
C H FH C+ W+ S + CP+CR
Sbjct: 27 CGHGFHAECVDMWLGSHST---CPLCR 50
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%), Gaps = 3/26 (11%)
Query: 24 CNHAFHLHCILKWVNSQTPQAHCPMC 49
C HAFH C++KW+ + CP+C
Sbjct: 36 CKHAFHRKCLIKWLEVRKV---CPLC 58
>pdb|2WNI|A Chain A, Crystal Structure Analysis Of Klebsiella Sp Asr1 Phytase
pdb|2WNI|B Chain B, Crystal Structure Analysis Of Klebsiella Sp Asr1 Phytase
pdb|2WNI|C Chain C, Crystal Structure Analysis Of Klebsiella Sp Asr1 Phytase
pdb|2WNI|D Chain D, Crystal Structure Analysis Of Klebsiella Sp Asr1 Phytase
pdb|2WU0|A Chain A, Crystal Structure Analysis Of Klebsiella Sp Asr1 Phytase
pdb|2WU0|B Chain B, Crystal Structure Analysis Of Klebsiella Sp Asr1 Phytase
pdb|2WU0|C Chain C, Crystal Structure Analysis Of Klebsiella Sp Asr1 Phytase
pdb|2WU0|D Chain D, Crystal Structure Analysis Of Klebsiella Sp Asr1 Phytase
Length = 418
Score = 26.6 bits (57), Expect = 3.7, Method: Composition-based stats.
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 40 QTPQAHCPMCRREWQFKG 57
QTP A PM R+EW+ G
Sbjct: 352 QTPDAQHPMLRQEWRQPG 369
>pdb|2WNH|A Chain A, Crystal Structure Analysis Of Klebsiella Sp Asr1 Phytase
pdb|2WNH|B Chain B, Crystal Structure Analysis Of Klebsiella Sp Asr1 Phytase
Length = 418
Score = 26.6 bits (57), Expect = 3.8, Method: Composition-based stats.
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 40 QTPQAHCPMCRREWQFKG 57
QTP A PM R+EW+ G
Sbjct: 352 QTPDAQHPMLRQEWRQPG 369
>pdb|1V87|A Chain A, Solution Structure Of The Ring-H2 Finger Domain Of Mouse
Deltex Protein 2
Length = 114
Score = 26.2 bits (56), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 5/44 (11%)
Query: 18 PLIWG---ACNHAFHLHCILKWV--NSQTPQAHCPMCRREWQFK 56
P++ G C+HAFHL C+L ++ CP C+ + K
Sbjct: 52 PMVVGRLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYGEK 95
>pdb|3ND1|A Chain A, Crystal Structure Of Precorrin-6a Synthase From
Rhodobacter Capsulatus
pdb|3ND1|B Chain B, Crystal Structure Of Precorrin-6a Synthase From
Rhodobacter Capsulatus
Length = 275
Score = 25.4 bits (54), Expect = 8.6, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 11/22 (50%)
Query: 3 FDGCCPDCKLPGDDCPLIWGAC 24
DG C LP D + WGAC
Sbjct: 207 LDGECSFQSLPPDGLTIFWGAC 228
>pdb|1II4|E Chain E, Crystal Structure Of Ser252trp Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1II4|F Chain F, Crystal Structure Of Ser252trp Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1II4|G Chain G, Crystal Structure Of Ser252trp Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1II4|H Chain H, Crystal Structure Of Ser252trp Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
Length = 220
Score = 25.4 bits (54), Expect = 9.3, Method: Composition-based stats.
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 21 WGACNHAFHLHCILKWVNSQTPQAHCP 47
+G+ NH +HL + +W + QA P
Sbjct: 91 YGSINHTYHLDVVERWPHRPILQAGLP 117
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
0.329 0.143 0.583
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,245,083
Number of Sequences: 62578
Number of extensions: 70950
Number of successful extensions: 227
Number of sequences better than 100.0: 35
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 202
Number of HSP's gapped (non-prelim): 35
length of query: 59
length of database: 14,973,337
effective HSP length: 30
effective length of query: 29
effective length of database: 13,095,997
effective search space: 379783913
effective search space used: 379783913
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 45 (21.9 bits)