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= 003929
(786 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WEO|A Chain A, Solution Structure Of Ring-Finger In The Catalytic
Subunit (Irx3) Of Cellulose Synthase
Length = 93
Score = 119 bits (299), Expect = 5e-27, Method: Composition-based stats.
Identities = 49/67 (73%), Positives = 56/67 (83%)
Query: 31 VKELSGQICQICGDEIEITDNGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKR 90
+K L GQ C+ICGD+I +T G+ FVACNEC FP CRPCYEYERREG Q CPQCKTRYKR
Sbjct: 11 LKNLDGQFCEICGDQIGLTVEGDLFVACNECGFPACRPCYEYERREGTQNCPQCKTRYKR 70
Query: 91 IKGSPRV 97
++GSPRV
Sbjct: 71 LRGSPRV 77
>pdb|4HG6|A Chain A, Structure Of A Cellulose Synthase - Cellulose
Translocation Intermediate
Length = 802
Score = 42.7 bits (99), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 40/129 (31%), Positives = 59/129 (45%), Gaps = 21/129 (16%)
Query: 535 LVYVSREKRPGFDHHKKAGAMNA-LIRVSAVISNAPYLLNVDCDHYINNSKALREAMCFM 593
+VY +RE+ + H KAG M+A L R+ + ++ D DH + R F+
Sbjct: 214 VVYSTRER----NEHAKAGNMSAALERLKGEL-----VVVFDADHVPSRDFLARTVGYFV 264
Query: 594 MDPTSGKKICYVQFPQRF---DGIDRH----DRYSNRNVVFFDINMKGLDGIQGPIYVGT 646
DP + VQ P F D I R+ DR N +F+ +GLD G + G+
Sbjct: 265 EDP----DLFLVQTPHFFINPDPIQRNLALGDRCPPENEMFYGKIHRGLDRWGGAFFCGS 320
Query: 647 GCVFRRQAL 655
V RR+AL
Sbjct: 321 AAVLRRRAL 329
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 32.3 bits (72), Expect = 1.1, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 7/66 (10%)
Query: 23 DEVARVTSVKELSGQI-CQICGDEIEITDNGEPFVACNECAFPVCRPCYEYERREGNQAC 81
D + V S + L ++ C IC D ++ T + EC C C R GN+ C
Sbjct: 40 DGLEIVVSPRSLHSELMCPICLDMLKNT------MTTKECLHRFCADCIITALRSGNKEC 93
Query: 82 PQCKTR 87
P C+ +
Sbjct: 94 PTCRKK 99
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 32.0 bits (71), Expect = 1.2, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 7/66 (10%)
Query: 23 DEVARVTSVKELSGQI-CQICGDEIEITDNGEPFVACNECAFPVCRPCYEYERREGNQAC 81
D + V S + L ++ C IC D ++ T + EC C C R GN+ C
Sbjct: 20 DGLEIVVSPRSLHSELMCPICLDMLKNT------MTTKECLHRFCADCIITALRSGNKEC 73
Query: 82 PQCKTR 87
P C+ +
Sbjct: 74 PTCRKK 79
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 32.0 bits (71), Expect = 1.4, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 7/66 (10%)
Query: 23 DEVARVTSVKELSGQI-CQICGDEIEITDNGEPFVACNECAFPVCRPCYEYERREGNQAC 81
D + V S + L ++ C IC D ++ T + EC C C R GN+ C
Sbjct: 39 DGLEIVVSPRSLHSELMCPICLDMLKNT------MTTKECLHRFCADCIITALRSGNKEC 92
Query: 82 PQCKTR 87
P C+ +
Sbjct: 93 PTCRKK 98
>pdb|3F8U|B Chain B, TapasinERP57 HETERODIMER
pdb|3F8U|D Chain D, TapasinERP57 HETERODIMER
Length = 401
Score = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 2/64 (3%)
Query: 376 DPMKEPPLITANTVLSILAVDYPVDKVACYVSDDGAAMLTFEALSETSEFARKWVPFCKK 435
+P +EP LIT TV+ + P +V + D L+F + TSE A P
Sbjct: 144 EPQQEPVLITMATVVLTVLTHTPAPRV--RLGQDALLDLSFAYMPPTSEAASSLAPGPPP 201
Query: 436 FKIE 439
F +E
Sbjct: 202 FGLE 205
>pdb|1E4U|A Chain A, N-Terminal Ring Finger Domain Of Human Not-4
Length = 78
Score = 30.8 bits (68), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 3/50 (6%)
Query: 39 CQICGDEIEITDNGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRY 88
C +C + +EI D F C C + +CR C+ R + N CP C+ Y
Sbjct: 14 CPLCMEPLEIDDIN--FFPCT-CGYQICRFCWHRIRTDENGLCPACRKPY 60
>pdb|3BNW|A Chain A, Crystal Structure Of Riboflavin Kinase From Trypanosoma
Brucei
pdb|3BNW|B Chain B, Crystal Structure Of Riboflavin Kinase From Trypanosoma
Brucei
Length = 181
Score = 29.6 bits (65), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 26/51 (50%), Gaps = 10/51 (19%)
Query: 184 PFMGRGKRIH-------PMSFPDGFMTLPPRPMD---PKKDLAVYGYGTVA 224
PF RGK +H + FP + L M+ P K+L VYG+GTV+
Sbjct: 17 PFFLRGKVVHGKGRGGSQLGFPTANIGLDKDVMECLQPYKNLVVYGWGTVS 67
>pdb|1S2J|A Chain A, Crystal Structure Of The Drosophila Pattern-Recognition
Receptor Pgrp-Sa
pdb|1S2J|B Chain B, Crystal Structure Of The Drosophila Pattern-Recognition
Receptor Pgrp-Sa
Length = 209
Score = 29.3 bits (64), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 20/41 (48%)
Query: 620 YSNRNVVFFDINMKGLDGIQGPIYVGTGCVFRRQALYGYDA 660
Y + F DI+ L G G +Y GTG R YGY+A
Sbjct: 90 YHQNELDFNDISYNFLIGNDGIVYEGTGWGLRGAHTYGYNA 130
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 0.138 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,080,598
Number of Sequences: 62578
Number of extensions: 882215
Number of successful extensions: 2064
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 2057
Number of HSP's gapped (non-prelim): 13
length of query: 786
length of database: 14,973,337
effective HSP length: 107
effective length of query: 679
effective length of database: 8,277,491
effective search space: 5620416389
effective search space used: 5620416389
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: 55 (25.8 bits)