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= 048793
(683 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1T1H|A Chain A, Nmr Solution Structure Of The U Box Domain From Atpub14,
An Armadillo Repeat Containing Protein From Arabidopsis
Thaliana
Length = 78
Score = 103 bits (257), Expect = 3e-22, Method: Composition-based stats.
Identities = 43/72 (59%), Positives = 54/72 (75%)
Query: 274 PADFRCPISLELMRNPVVVATGQTYDRQSISLWIESGHNTCPKTGQTLAHTNLVTNTALK 333
P FRCPISLELM++PV+V+TGQTY+R SI W+++GH TCPK+ +TL H L N LK
Sbjct: 6 PEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPNYVLK 65
Query: 334 NLIALWCREQRI 345
+LIALWC I
Sbjct: 66 SLIALWCESNGI 77
>pdb|2C2L|A Chain A, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
pdb|2C2L|B Chain B, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
pdb|2C2L|C Chain C, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
pdb|2C2L|D Chain D, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
Length = 281
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 30/88 (34%), Positives = 44/88 (50%), Gaps = 6/88 (6%)
Query: 263 RRKKSASDANVPADFRC-PISLELMRNPVVVATGQTYDRQSISLWIESGHNTCPKTGQTL 321
+RKK ++P D+ C IS ELMR P + +G TYDR+ I ++ + P T L
Sbjct: 199 KRKKR----DIP-DYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPL 253
Query: 322 AHTNLVTNTALKNLIALWCREQRIPFDY 349
L+ N A+K +I + E DY
Sbjct: 254 TQEQLIPNLAMKEVIDAFISENGWVEDY 281
>pdb|2C2V|S Chain S, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|T Chain T, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|U Chain U, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|V Chain V, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
Length = 78
Score = 44.7 bits (104), Expect = 2e-04, Method: Composition-based stats.
Identities = 27/79 (34%), Positives = 40/79 (50%), Gaps = 2/79 (2%)
Query: 272 NVPADFRC-PISLELMRNPVVVATGQTYDRQSISLWIESGHNTCPKTGQTLAHTNLVTNT 330
++P D+ C IS ELMR P + +G TYDR+ I ++ + P T L L+ N
Sbjct: 1 DIP-DYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNL 59
Query: 331 ALKNLIALWCREQRIPFDY 349
A+K +I + E DY
Sbjct: 60 AMKEVIDAFISENGWVEDY 78
>pdb|2F42|A Chain A, Dimerization And U-Box Domains Of Zebrafish C-Terminal Of
Hsp70 Interacting Protein
Length = 179
Score = 44.3 bits (103), Expect = 2e-04, Method: Composition-based stats.
Identities = 30/88 (34%), Positives = 44/88 (50%), Gaps = 6/88 (6%)
Query: 263 RRKKSASDANVPADFRC-PISLELMRNPVVVATGQTYDRQSISLWIESGHNTCPKTGQTL 321
+RKK +P D+ C IS ELMR P + +G TYDR+ I ++ + P T L
Sbjct: 97 KRKKR----EIP-DYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPL 151
Query: 322 AHTNLVTNTALKNLIALWCREQRIPFDY 349
L+ N A+K +I + +E DY
Sbjct: 152 TQDQLIPNLAMKEVIDAFIQENGWVEDY 179
>pdb|2OXQ|C Chain C, Structure Of The Ubch5 :chip U-Box Complex
pdb|2OXQ|D Chain D, Structure Of The Ubch5 :chip U-Box Complex
Length = 80
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 23/68 (33%), Positives = 35/68 (51%), Gaps = 1/68 (1%)
Query: 276 DFRC-PISLELMRNPVVVATGQTYDRQSISLWIESGHNTCPKTGQTLAHTNLVTNTALKN 334
D+ C IS ELM P + +G TYDR+ I ++ + P T L L+ N A+K
Sbjct: 12 DYLCGKISFELMAEPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPNLAMKE 71
Query: 335 LIALWCRE 342
+I + +E
Sbjct: 72 VIDAFIQE 79
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 38.5 bits (88), Expect = 0.012, Method: Composition-based stats.
Identities = 22/76 (28%), Positives = 37/76 (48%), Gaps = 6/76 (7%)
Query: 267 SASDANVPADFRCPISLELMRNPVVVATGQTYDRQSISLWIES------GHNTCPKTGQT 320
S S NV + CPI LEL+ P+ + G + R I++ + G ++CP G +
Sbjct: 3 SGSSGNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGIS 62
Query: 321 LAHTNLVTNTALKNLI 336
+ +L N L N++
Sbjct: 63 YSFEHLQANQHLANIV 78
>pdb|2KRE|A Chain A, Solution Structure Of E4bUFD2A U-Box Domain
pdb|3L1X|A Chain A, Crystal Structure Of U-Box Domain Of Human E4b Ubiquitin
Ligase
pdb|3L1Z|B Chain B, Crystal Structure Of The U-Box Domain Of Human E4b
Ubiquitin Ligase In Complex With Ubch5c E2 Ubiquitin
Conjugating Enzyme
Length = 100
Score = 38.1 bits (87), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 36/74 (48%), Gaps = 1/74 (1%)
Query: 271 ANVPADFRCPISLELMRNPVVVATGQTYDRQSISLWIESGHNTCPKTGQTLAHTNLVTNT 330
++ P +FR P+ LM +PV + +G DR SI L T P QTL + L
Sbjct: 24 SDAPDEFRDPLMDTLMTDPVRLPSGTIMDR-SIILRHLLNSPTDPFNRQTLTESMLEPVP 82
Query: 331 ALKNLIALWCREQR 344
LK I W RE++
Sbjct: 83 ELKEQIQAWMREKQ 96
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 36.6 bits (83), Expect = 0.045, Method: Composition-based stats.
Identities = 21/69 (30%), Positives = 31/69 (44%), Gaps = 5/69 (7%)
Query: 273 VPADFRCPISLELMRNPVVVATGQTYDRQSISLWIESGHNT-----CPKTGQTLAHTNLV 327
+ + CPI LEL++ PV ++ R I+L ES NT CP NL
Sbjct: 16 IKEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLK 75
Query: 328 TNTALKNLI 336
N + N++
Sbjct: 76 PNLHVANIV 84
>pdb|2KR4|A Chain A, U-Box Domain Of The E3 Ubiquitin Ligase E4b
Length = 85
Score = 34.3 bits (77), Expect = 0.24, Method: Composition-based stats.
Identities = 25/74 (33%), Positives = 35/74 (47%), Gaps = 1/74 (1%)
Query: 271 ANVPADFRCPISLELMRNPVVVATGQTYDRQSISLWIESGHNTCPKTGQTLAHTNLVTNT 330
++ P +FR P+ LM +PV + +G DR SI L T P Q L + L
Sbjct: 9 SDAPDEFRDPLMDTLMTDPVRLPSGTVMDR-SIILRHLLNSPTDPFNRQMLTESMLEPVP 67
Query: 331 ALKNLIALWCREQR 344
LK I W RE++
Sbjct: 68 ELKEQIQAWMREKQ 81
>pdb|2YU4|A Chain A, Solution Structure Of The Sp-Ring Domain In Non-Smc
Element 2 Homolog (Mms21, S. Cerevisiae)
Length = 94
Score = 32.3 bits (72), Expect = 0.92, Method: Composition-based stats.
Identities = 22/69 (31%), Positives = 34/69 (49%), Gaps = 9/69 (13%)
Query: 277 FRCPISLELMRNPVV-VATGQTYDRQSISLWIESGHNT-----CPKTGQT---LAHTNLV 327
F CPI+ E M+ PV G TY+ +I IES CP+ G + + ++L+
Sbjct: 8 FTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDLI 67
Query: 328 TNTALKNLI 336
+ AL+ I
Sbjct: 68 QDEALRRAI 76
>pdb|2ECV|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Tripartite Motif-Containing Protein 5
Length = 85
Score = 31.6 bits (70), Expect = 1.3, Method: Composition-based stats.
Identities = 16/70 (22%), Positives = 34/70 (48%), Gaps = 5/70 (7%)
Query: 272 NVPADFRCPISLELMRNPVVVATGQTYDRQSISL-----WIESGHNTCPKTGQTLAHTNL 326
NV + CPI LEL+ P+ + G ++ + ++ ++ G ++CP + N+
Sbjct: 15 NVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENI 74
Query: 327 VTNTALKNLI 336
N + N++
Sbjct: 75 RPNRHVANIV 84
>pdb|3H3I|A Chain A, Crystal Structure Of A Putative Lipid Binding Protein
(Bt_2261) From Bacteroides Thetaiotaomicron Vpi-5482 At
2.20 A Resolution
pdb|3H3I|B Chain B, Crystal Structure Of A Putative Lipid Binding Protein
(Bt_2261) From Bacteroides Thetaiotaomicron Vpi-5482 At
2.20 A Resolution
pdb|3H3I|C Chain C, Crystal Structure Of A Putative Lipid Binding Protein
(Bt_2261) From Bacteroides Thetaiotaomicron Vpi-5482 At
2.20 A Resolution
Length = 150
Score = 31.6 bits (70), Expect = 1.5, Method: Composition-based stats.
Identities = 20/74 (27%), Positives = 34/74 (45%)
Query: 324 TNLVTNTALKNLIALWCREQRIPFDYAASSEKVNGVVTNKAALEATKMTASFLINKLATS 383
+N T L +L W + ++ +YAA + G V N K+T ++ K AT+
Sbjct: 52 SNSETEXWLDDLGNFWEYKLKVNVNYAARTFSTTGFVDNVTYESKVKITDGKVLEKAATT 111
Query: 384 QSMEAANDAVYELR 397
S A+ VY ++
Sbjct: 112 PSGXPADSIVYXVQ 125
>pdb|3NOW|A Chain A, Unc-45 From Drosophila Melanogaster
Length = 810
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 36/137 (26%), Positives = 58/137 (42%), Gaps = 11/137 (8%)
Query: 505 VKGLMDLVKGGPTSSKRDALVAILNLAGDRETVGRLVERGIVEIVAEAMDVLPEE-SVTI 563
+ LMDL +GG S + +NL E L E ++E+ A +PEE +
Sbjct: 423 IHALMDLARGGNQSCLYGVVTTFVNLCNAYEKQEMLPE--MIELAKFAKQHIPEEHELDD 480
Query: 564 LEAVVKRGGLTAIVAAYNTIKKLCILLREGSDTSRESAAATLVTICRKGGSEMVADIAAV 623
++ + KR ++A LC L + S S+E A L +C G E+ +
Sbjct: 481 VDFINKR---ITVLANEGITTALCALAKTESHNSQELIARVLNAVC--GLKELRGKVVQE 535
Query: 624 PGIE---RVIWELMESG 637
G++ R+ E E G
Sbjct: 536 GGVKALLRMALEGTEKG 552
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 30.4 bits (67), Expect = 3.1, Method: Composition-based stats.
Identities = 11/42 (26%), Positives = 22/42 (52%)
Query: 267 SASDANVPADFRCPISLELMRNPVVVATGQTYDRQSISLWIE 308
S + N+ + C + LE ++ PV++ G + + I+ W E
Sbjct: 6 SGALENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWE 47
>pdb|3PAF|A Chain A, M. Jannaschii L7ae Mutant
pdb|3PAF|B Chain B, M. Jannaschii L7ae Mutant
Length = 117
Score = 29.6 bits (65), Expect = 5.6, Method: Composition-based stats.
Identities = 24/77 (31%), Positives = 36/77 (46%), Gaps = 1/77 (1%)
Query: 522 DALVAILNLAGDRETVGRLVERGIVEIVAEAMDVLPEESVTILEAVVKRGGLT-AIVAAY 580
DA+ + V + VERGI ++V A DV PEE V L + + G+ A VA+
Sbjct: 19 DAVAKAQQIKKGANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASK 78
Query: 581 NTIKKLCILLREGSDTS 597
+ K + R S +
Sbjct: 79 QDLGKAAGVSRPASSVA 95
>pdb|1RA4|A Chain A, Crystal Structure Of The Methanococcus Jannaschii L7ae
Protein
pdb|1XBI|A Chain A, High Resolution Structure Of Methanocaldococcus Jannaschii
L7ae
Length = 120
Score = 29.6 bits (65), Expect = 6.0, Method: Composition-based stats.
Identities = 29/95 (30%), Positives = 42/95 (44%), Gaps = 11/95 (11%)
Query: 522 DALVAILNLAGDRETVGRLVERGIVEIVAEAMDVLPEESVTILEAVVKRGGLT-AIVAAY 580
DA+ + V + VERGI ++V A DV PEE V L + + G+ A VA+
Sbjct: 22 DAVAKAQKIKKGANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASK 81
Query: 581 NTIKKLCILLREGSDTSRESAAATLVTICRKGGSE 615
+ K L AA+ V I +G +E
Sbjct: 82 QDLGKAAGL----------EVAASSVAIINEGDAE 106
>pdb|1SDS|A Chain A, Structure Of Protein L7ae Bound To A K-Turn Derived From
An Archaeal Box HACA SRNA
pdb|1SDS|B Chain B, Structure Of Protein L7ae Bound To A K-Turn Derived From
An Archaeal Box HACA SRNA
pdb|1SDS|C Chain C, Structure Of Protein L7ae Bound To A K-Turn Derived From
An Archaeal Box HACA SRNA
Length = 117
Score = 29.3 bits (64), Expect = 7.4, Method: Composition-based stats.
Identities = 29/95 (30%), Positives = 42/95 (44%), Gaps = 11/95 (11%)
Query: 522 DALVAILNLAGDRETVGRLVERGIVEIVAEAMDVLPEESVTILEAVVKRGGLT-AIVAAY 580
DA+ + V + VERGI ++V A DV PEE V L + + G+ A VA+
Sbjct: 19 DAVAKAQKIKKGANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASK 78
Query: 581 NTIKKLCILLREGSDTSRESAAATLVTICRKGGSE 615
+ K L AA+ V I +G +E
Sbjct: 79 QDLGKAAGL----------EVAASSVAIINEGDAE 103
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
0.318 0.131 0.364
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,764,067
Number of Sequences: 62578
Number of extensions: 558930
Number of successful extensions: 1629
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 1610
Number of HSP's gapped (non-prelim): 37
length of query: 683
length of database: 14,973,337
effective HSP length: 105
effective length of query: 578
effective length of database: 8,402,647
effective search space: 4856729966
effective search space used: 4856729966
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)