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= 048441
(292 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 31/62 (50%), Gaps = 10/62 (16%)
Query: 105 DPSFVCEICVESKSPNESFRIKGCSHSYCTDCIIKYVASKLQESITTIGCPVTGCQGVLE 164
D C IC E N + I CSH+YC+ CI K+++ K Q CP T C V E
Sbjct: 20 DDLLRCGICFEYF--NIAMIIPQCSHNYCSLCIRKFLSYKTQ-------CP-TCCVTVTE 69
Query: 165 PE 166
P+
Sbjct: 70 PD 71
>pdb|3L2P|A Chain A, Human Dna Ligase Iii Recognizes Dna Ends By Dynamic
Switching Between Two Dna Bound States
Length = 579
Score = 31.6 bits (70), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 212 AVEMKWKRCPNCGYYVEKFRGCNIIICRCGTSFHYYSRADLSELYPYRPA 261
+VE K+CPN + K+ G + + + G F Y+SR+ L + P++ A
Sbjct: 237 SVEYAMKKCPNGMFSEIKYDGERVQVHKNGDHFSYFSRS-LKPVLPHKVA 285
>pdb|2Y1M|A Chain A, Structure Of Native C-Cbl
pdb|2Y1M|B Chain B, Structure Of Native C-Cbl
pdb|2Y1M|C Chain C, Structure Of Native C-Cbl
pdb|2Y1M|D Chain D, Structure Of Native C-Cbl
pdb|2Y1M|E Chain E, Structure Of Native C-Cbl
pdb|2Y1M|F Chain F, Structure Of Native C-Cbl
pdb|2Y1N|A Chain A, Structure Of C-Cbl-Zap-70 Peptide Complex
pdb|2Y1N|C Chain C, Structure Of C-Cbl-Zap-70 Peptide Complex
Length = 389
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 9/52 (17%)
Query: 109 VCEICVESKSPNESFRIKGCSHSYCTDCIIKYVASKLQESITTIGCPVTGCQ 160
+C+IC E+ ++ +I+ C H CT C+ + S+ Q GCP C+
Sbjct: 334 LCKICAEN---DKDVKIEPCGHLMCTSCLTSWQESEGQ------GCPFCRCE 376
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 9/52 (17%)
Query: 109 VCEICVESKSPNESFRIKGCSHSYCTDCIIKYVASKLQESITTIGCPVTGCQ 160
+C+IC E+ ++ +I+ C H CT C+ + S+ Q GCP C+
Sbjct: 336 LCKICAEN---DKDVKIEPCGHLMCTSCLTSWQESEGQ------GCPFCRCE 378
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 9/52 (17%)
Query: 109 VCEICVESKSPNESFRIKGCSHSYCTDCIIKYVASKLQESITTIGCPVTGCQ 160
+C+IC E+ ++ +I+ C H CT C+ + S+ Q GCP C+
Sbjct: 336 LCKICAEN---DKDVKIEPCGHLMCTSCLTSWQESEGQ------GCPFCRCE 378
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 9/52 (17%)
Query: 109 VCEICVESKSPNESFRIKGCSHSYCTDCIIKYVASKLQESITTIGCPVTGCQ 160
+C+IC E+ ++ +I+ C H CT C+ + S+ Q GCP C+
Sbjct: 334 LCKICAEN---DKDVKIEPCGHLMCTSCLTSWQESEGQ------GCPFCRCE 376
>pdb|3VGO|A Chain A, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|B Chain B, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|C Chain C, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
Length = 394
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 26/52 (50%), Gaps = 9/52 (17%)
Query: 109 VCEICVESKSPNESFRIKGCSHSYCTDCIIKYVASKLQESITTIGCPVTGCQ 160
+C+IC E+ ++ +I+ C H CT C+ + S Q GCP C+
Sbjct: 340 LCKICAEN---DKDVKIEPCGHLMCTSCLTAWQESDGQ------GCPFCRCE 382
>pdb|1WIM|A Chain A, Solution Structure Of The Ring Finger Domain Of The Human
Ubcm4-Interacting Protein 4
Length = 94
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 3/71 (4%)
Query: 110 CEICVESKSPNESFRIKGCSHSYCTDCIIKYVASKLQESI-TTIGCPVTGC--QGVLEPE 166
C++C+ + I C +CT C+ +YV ++E + T I CP C QG L+
Sbjct: 8 CKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQEN 67
Query: 167 YCRNILPQQVM 177
++ ++M
Sbjct: 68 EIECMVAAEIM 78
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 9/52 (17%)
Query: 109 VCEICVESKSPNESFRIKGCSHSYCTDCIIKYVASKLQESITTIGCPVTGCQ 160
+C+IC E+ ++ +I+ C H CT C+ + S+ Q GCP C+
Sbjct: 29 LCKICAEN---DKDVKIEPCGHLMCTSCLTSWQESEGQ------GCPFCRCE 71
>pdb|2CT7|A Chain A, Solution Structure Of The Ibr Domain Of The Ring Finger
Protein 31 Protein
Length = 86
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 18/41 (43%), Gaps = 4/41 (9%)
Query: 162 VLEPEYCRNILPQ-QVMFCAKCKVPW---HTDMKCEDFQNL 198
+ E E PQ FC +CK W H CEDFQN
Sbjct: 36 IYEREQLEATCPQCHQTFCVRCKRQWEEQHRGRSCEDFQNW 76
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 9/52 (17%)
Query: 109 VCEICVESKSPNESFRIKGCSHSYCTDCIIKYVASKLQESITTIGCPVTGCQ 160
+C+IC E+ ++ +I+ C H CT C+ + S+ Q GCP C+
Sbjct: 26 LCKICAEN---DKDVKIEPCGHLMCTSCLTSWQESEGQ------GCPFCRCE 68
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 10/33 (30%), Positives = 19/33 (57%)
Query: 109 VCEICVESKSPNESFRIKGCSHSYCTDCIIKYV 141
+C +C+E P + I C H++ C+IK++
Sbjct: 17 LCAVCLEDFKPRDELGICPCKHAFHRKCLIKWL 49
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 27.7 bits (60), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 26/52 (50%), Gaps = 9/52 (17%)
Query: 109 VCEICVESKSPNESFRIKGCSHSYCTDCIIKYVASKLQESITTIGCPVTGCQ 160
+C+IC E+ ++ +I+ C H CT C+ + S Q GCP C+
Sbjct: 28 LCKICAEN---DKDVKIEPCGHLMCTSCLTAWQESDGQ------GCPFCRCE 70
>pdb|4DDT|A Chain A, Thermotoga Maritima Reverse Gyrase, C2 Form 2
pdb|4DDU|A Chain A, Thermotoga Maritima Reverse Gyrase, C2 Form 1
pdb|4DDV|A Chain A, Thermotoga Maritima Reverse Gyrase, Triclinic Form
pdb|4DDV|B Chain B, Thermotoga Maritima Reverse Gyrase, Triclinic Form
pdb|4DDW|A Chain A, Thermotoga Maritima Reverse Gyrase, C-centered
Orthorhombic Form
pdb|4DDX|A Chain A, Thermotoga Maritima Reverse Gyrase, Primitive Monoclinic
Form
pdb|4DDX|B Chain B, Thermotoga Maritima Reverse Gyrase, Primitive Monoclinic
Form
Length = 1104
Score = 27.7 bits (60), Expect = 8.3, Method: Composition-based stats.
Identities = 10/36 (27%), Positives = 19/36 (52%)
Query: 89 NHSVAENGQPSDSHKNDPSFVCEICVESKSPNESFR 124
+HS G + +N+ CE+C+ SP++ +R
Sbjct: 8 HHSCINCGGLNTDERNERGLPCEVCLPEDSPSDIYR 43
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 2/40 (5%)
Query: 108 FVCEICVESKSPNESFRIKGCSHSYCTDCIIKYVASKLQE 147
+C IC++ + K C H +C DCII + S +E
Sbjct: 54 LMCPICLDML--KNTMTTKECLHRFCADCIITALRSGNKE 91
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 27.3 bits (59), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 108 FVCEICVESKSPNESFRIKGCSHSYCTDCIIKYVAS 143
+C IC++ + K C H +C DCII + S
Sbjct: 55 LMCPICLDML--KNTMTTKECLHRFCADCIITALRS 88
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
0.320 0.136 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,966,308
Number of Sequences: 62578
Number of extensions: 307892
Number of successful extensions: 603
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 596
Number of HSP's gapped (non-prelim): 22
length of query: 292
length of database: 14,973,337
effective HSP length: 98
effective length of query: 194
effective length of database: 8,840,693
effective search space: 1715094442
effective search space used: 1715094442
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)