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= psy10334
(314 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3LRQ|A Chain A, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|B Chain B, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|C Chain C, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|D Chain D, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d
Length = 100
Score = 123 bits (308), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 55/76 (72%), Positives = 65/76 (85%)
Query: 28 ALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLVNCR 87
++AEVFRCFIC EKLRD LCPHCSKLCC +CIR++LTE+R+QCPHCRA L + +LVNCR
Sbjct: 18 SIAEVFRCFICXEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCR 77
Query: 88 WMEEVTQHLDNLQMNS 103
W EEVTQ LD LQ+ S
Sbjct: 78 WAEEVTQQLDTLQLCS 93
>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 = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 41/73 (56%), Gaps = 1/73 (1%)
Query: 25 VSRALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLV 84
V + + ++ RC IC E + P CS C CIR+FL+ ++QCP C ++ DL
Sbjct: 15 VMKTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLS-YKTQCPTCCVTVTEPDLK 73
Query: 85 NCRWMEEVTQHLD 97
N R ++E+ + L+
Sbjct: 74 NNRILDELVKSLN 86
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 34.7 bits (78), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 35 CFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLV 84
C IC E +D + P C L C +C+ + E CP CR + T+ +
Sbjct: 337 CKICAENDKDVKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI 385
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 34.7 bits (78), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 35 CFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLV 84
C IC E +D + P C L C +C+ + E CP CR + T+ +
Sbjct: 337 CKICAENDKDVKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI 385
>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 = 34.7 bits (78), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 35 CFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLV 84
C IC E +D + P C L C +C+ + E CP CR + T+ +
Sbjct: 335 CKICAENDKDVKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI 383
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 34.7 bits (78), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 35 CFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLV 84
C IC E +D + P C L C +C+ + E CP CR + T+ +
Sbjct: 335 CKICAENDKDVKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI 383
>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 = 33.1 bits (74), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 35 CFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLV 84
C IC E +D + P C L C +C+ + + CP CR + T+ +
Sbjct: 341 CKICAENDKDVKIEP-CGHLMCTSCLTAWQESDGQGCPFCRCEIKGTEPI 389
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 32.7 bits (73), Expect = 0.30, Method: Composition-based stats.
Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 35 CFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTD 82
C IC E +D + P C L C +C+ + + CP CR + T+
Sbjct: 29 CKICAENDKDVKIEP-CGHLMCTSCLTAWQESDGQGCPFCRCEIKGTE 75
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 31.2 bits (69), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 23/52 (44%)
Query: 27 RALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASL 78
R+L C IC++ L++T C C CI L +CP CR L
Sbjct: 49 RSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKL 100
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 30.8 bits (68), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 35 CFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLV 84
C IC E +D + P C L C +C+ + E CP CR + T+ +
Sbjct: 27 CKICAENDKDVKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI 75
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 30.8 bits (68), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 35 CFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASLHMTDLV 84
C IC E +D + P C L C +C+ + E CP CR + T+ +
Sbjct: 30 CKICAENDKDVKIEP-CGHLMCTSCLTSWQESEGQGCPFCRCEIKGTEPI 78
>pdb|2YUR|A Chain A, Solution Structure Of The Ring Finger Of Human
Retinoblastoma-Binding Protein 6
Length = 74
Score = 30.8 bits (68), Expect = 0.97, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 35 CFICIEKLRDTHLCPHCSKLCCLACIRQFLTE-ERSQCPHC 74
C IC + + D + P C C CIR L E + CP C
Sbjct: 18 CLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTC 58
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 23/52 (44%)
Query: 27 RALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASL 78
R+L C IC++ L++T C C CI L +CP CR L
Sbjct: 48 RSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKL 99
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 23/52 (44%)
Query: 27 RALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRASL 78
R+L C IC++ L++T C C CI L +CP CR L
Sbjct: 29 RSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKL 80
>pdb|2YHN|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHN|B Chain B, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|C Chain C, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|E Chain E, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|G Chain G, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
Length = 79
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 23/50 (46%), Gaps = 5/50 (10%)
Query: 27 RALAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCPHCRA 76
R L E C +C E+ ++ CP +CC +C Q CP CR+
Sbjct: 13 RKLKEAMLCMVCCEEEINSTFCPCGHTVCCESCAAQL-----QSCPVCRS 57
>pdb|1DTZ|A Chain A, Structure Of Camel Apo-Lactoferrin Demonstrates Its Dual
Role In Sequestering And Transporting Ferric Ions
Simultaneously:crystal Structure Of Camel
Apo-Lactoferrin At 2.6a Resolution.
pdb|1I6Q|A Chain A, Formation Of A Protein Intermediate And Its Trapping By
The Simultaneous Crystallization Process: Crystal
Structure Of An Iron-Saturated Intermediate In The Fe3+
Binding Pathway Of Camel Lactoferrin At 2.7 Resolution
Length = 689
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 145 GHMNISGNCAVDLAAKQAQTSPDAEILNVTHTDLKSFFKKIPSEKW--KLTWS 195
G++ I+G C + ++Q SP++ L+ H +K + K K+TW+
Sbjct: 397 GYIYIAGKCGLVPVLAESQQSPESSGLDCVHRPVKGYLAVAVVRKANDKITWN 449
>pdb|4DT1|B Chain B, Crystal Structure Of The Psy3-Csm2 Complex
Length = 245
Score = 27.7 bits (60), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 32/60 (53%)
Query: 75 RASLHMTDLVNCRWMEEVTQHLDNLQMNSKSSLQTYQRLFPNSTLCLNVKNLLSELKLKY 134
+ S+ + LVNC +E +D + + S+ + + ++ NS C+N+ L+ L+L Y
Sbjct: 55 KPSVALQKLVNCTTGDEKILIIDIVSIWSQQKQRQHGAIYMNSLSCINITGLIVFLELLY 114
>pdb|4EQ6|B Chain B, The Crystal Structure Of Psy3-Csm2 Complex From Budding
Yeast
Length = 256
Score = 27.7 bits (60), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 32/60 (53%)
Query: 75 RASLHMTDLVNCRWMEEVTQHLDNLQMNSKSSLQTYQRLFPNSTLCLNVKNLLSELKLKY 134
+ S+ + LVNC +E +D + + S+ + + ++ NS C+N+ L+ L+L Y
Sbjct: 66 KPSVALQKLVNCTTGDEKILIIDIVSIWSQQKQRQHGAIYMNSLSCINITGLIVFLELLY 125
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 27.7 bits (60), Expect = 9.8, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 29 LAEVFRCFICIEKLRDTHLCPHCSKLCCLACIRQFLTEERSQCP 72
L + C IC+ LR+ P C C ACI + + + +CP
Sbjct: 22 LESKYECPICLMALREAVQTP-CGHRFCKACIIKSIRDAGHKCP 64
>pdb|1R6Z|P Chain P, The Crystal Structure Of The Argonaute2 Paz Domain (as A
Mbp Fusion)
pdb|1R6Z|A Chain A, The Crystal Structure Of The Argonaute2 Paz Domain (as A
Mbp Fusion)
pdb|1R6Z|Z Chain Z, The Crystal Structure Of The Argonaute2 Paz Domain (as A
Mbp Fusion)
Length = 509
Score = 27.3 bits (59), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 22/37 (59%), Gaps = 3/37 (8%)
Query: 150 SGNCAVDLAAKQAQTSPDAEILNVTHTDLKSFFKKIP 186
SG VD A K AQT+ AE ++++H KSF +P
Sbjct: 353 SGRQTVDEALKDAQTNAAAEFVDISH---KSFPISMP 386
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
0.325 0.136 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,020,353
Number of Sequences: 62578
Number of extensions: 288637
Number of successful extensions: 946
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 929
Number of HSP's gapped (non-prelim): 30
length of query: 314
length of database: 14,973,337
effective HSP length: 99
effective length of query: 215
effective length of database: 8,778,115
effective search space: 1887294725
effective search space used: 1887294725
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (24.3 bits)