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= 044813
(352 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 58.5 bits (140), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 28/65 (43%), Positives = 41/65 (63%), Gaps = 10/65 (15%)
Query: 287 GVSGRQPK----PNDNT-----CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNAS 337
G SG+ P PN++ C +C+ ++ +Q LR +P CNH FHA C+DKWL+ N +
Sbjct: 4 GSSGQLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRT 62
Query: 338 CPVCR 342
CP+CR
Sbjct: 63 CPICR 67
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 23/49 (46%), Positives = 30/49 (61%), Gaps = 1/49 (2%)
Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK 348
CP+C Y +++R +P CNH FH CI WL + SCPVCRK L +
Sbjct: 18 CPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQ 65
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 53.9 bits (128), Expect = 1e-07, Method: Composition-based stats.
Identities = 18/43 (41%), Positives = 29/43 (67%)
Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR 342
C +CL+ + + R +P+C H FHA C+D WL +++CP+CR
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|2L0B|A Chain A, Solution Nmr Structure Of Zinc Finger Domain Of E3
Ubiquitin-Protein Ligase Praja-1 From Homo Sapiens,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4710b
Length = 91
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 39/72 (54%), Gaps = 10/72 (13%)
Query: 275 KPTIESYPKTIV----GVSGRQPKPNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDK 330
K +I++ P+ +V G G++ CPIC S Y +P C+HYFH C+
Sbjct: 19 KESIDALPEILVTEDHGAVGQE-----MCCPICCSEYVKGDVATELP-CHHYFHKPCVSI 72
Query: 331 WLRMNASCPVCR 342
WL+ + +CPVCR
Sbjct: 73 WLQKSGTCPVCR 84
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKSP 350
C ICLS + + +R +P C H FH C+D+WL N CP+CR + + P
Sbjct: 17 CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQLP 66
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 45.8 bits (107), Expect = 4e-05, Method: Composition-based stats.
Identities = 22/56 (39%), Positives = 30/56 (53%), Gaps = 2/56 (3%)
Query: 287 GVSGRQPKPN-DNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVC 341
G SG+ + N C +CL +KP+ L P C H FH C+ KWL + CP+C
Sbjct: 4 GSSGKVKELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 4/55 (7%)
Query: 295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS 349
N+ C IC + TL C H F +YCI++W++ CP+CRK ++ K+
Sbjct: 51 ENELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDIKSKT 101
>pdb|4EPO|C Chain C, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|G Chain G, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|H Chain H, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|K Chain K, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|L Chain L, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
Length = 149
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 4/55 (7%)
Query: 295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS 349
N+ C IC + TL C H F +YCI++W++ CP+CRK ++ K+
Sbjct: 62 ENELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDIKSKT 112
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 4/55 (7%)
Query: 295 PNDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRLRFKS 349
N+ C IC + TL C H F +YCI++W++ CP+CRK ++ K+
Sbjct: 51 ENELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDIKSKT 101
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 38.1 bits (87), Expect = 0.007, Method: Composition-based stats.
Identities = 14/46 (30%), Positives = 25/46 (54%)
Query: 298 NTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRK 343
+ C C + K + + +CNH FH C+ W++ N CP+C++
Sbjct: 27 DACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQ 72
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 38.1 bits (87), Expect = 0.008, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 319 CNHYFHAYCIDKWLRMNASCPVCRKRLRFK 348
CNH FH +CI +WL+ CP+ + F+
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPLDNREWEFQ 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 = 37.7 bits (86), Expect = 0.011, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 319 CNHYFHAYCIDKWLRMNASCPVCRKRLRFK 348
CNH FH +CI +WL+ CP+ + F+
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPLDNREWEFQ 104
>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 = 37.4 bits (85), Expect = 0.011, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 319 CNHYFHAYCIDKWLRMNASCPVCRKRLRFK 348
CNH FH +CI +WL+ CP+ + F+
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPLDNREWEFQ 94
>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 = 37.4 bits (85), Expect = 0.012, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 319 CNHYFHAYCIDKWLRMNASCPVCRKRLRFK 348
CNH FH +CI +WL+ CP+ + F+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPLDNREWEFQ 102
>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 = 37.4 bits (85), Expect = 0.014, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 319 CNHYFHAYCIDKWLRMNASCPVCRKRLRFK 348
CNH FH +CI +WL+ CP+ + F+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPLDNREWEFQ 102
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 23/50 (46%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLRFK 348
CPICL K T + +C H F A CI LR N CP CRK+L K
Sbjct: 56 CPICLDMLKNTMTTK---ECLHRFCADCIITALRSGNKECPTCRKKLVSK 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 = 37.0 bits (84), Expect = 0.015, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 319 CNHYFHAYCIDKWLRMNASCPVCRKRLRFK 348
CNH FH +CI +WL+ CP+ + F+
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPLDNREWEFQ 86
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 37.0 bits (84), Expect = 0.018, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 319 CNHYFHAYCIDKWLRMNASCPVCRKRLRFK 348
CNH FH +CI +WL+ CP+ + F+
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPLDNREWEFQ 96
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 23/50 (46%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRLRFK 348
CPICL K T + +C H F A CI LR N CP CRK+L K
Sbjct: 57 CPICLDMLKNTMTTK---ECLHRFCADCIITALRSGNKECPTCRKKLVSK 103
>pdb|1CHC|A Chain A, Structure Of The C3hc4 Domain By 1h-Nuclear Magnetic
Resonance Spectroscopy; A New Structural Class Of Zinc-
Finger
Length = 68
Score = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCR 342
CPICL P +P C H F CI +W+R N +CP+C+
Sbjct: 8 CPICLE--DPSNYSMALP-CLHAFCYVCITRWIRQNPTCPLCK 47
>pdb|3NG2|A Chain A, Crystal Structure Of The Rnf4 Ring Domain Dimer
pdb|3NG2|B Chain B, Crystal Structure Of The Rnf4 Ring Domain Dimer
Length = 71
Score = 36.6 bits (83), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 33/65 (50%), Gaps = 4/65 (6%)
Query: 287 GVSGRQPKPNDNTCPICLSRYKP-KQTLRTI--PKCNHYFHAYCIDKWLRMNASCPVCRK 343
G +G +P +CPIC+ Y Q R I +C H F + C+ L+ +CP CRK
Sbjct: 1 GTTGLRPS-GTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 59
Query: 344 RLRFK 348
++ K
Sbjct: 60 KINHK 64
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 36.2 bits (82), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRM-NASCPVCRKRL 345
CPICL K T + +C H F A CI LR N CP CRK+L
Sbjct: 37 CPICLDMLKNTMTTK---ECLHRFCADCIITALRSGNKECPTCRKKL 80
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 35.4 bits (80), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 3/53 (5%)
Query: 299 TCPICLSRYKP-KQTLRTI--PKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK 348
+CPIC+ Y Q R I +C H F + C+ L+ +CP CRK++ K
Sbjct: 17 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 69
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 35.0 bits (79), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 3/53 (5%)
Query: 299 TCPICLSRYKP-KQTLRTI--PKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK 348
+CPIC+ Y Q R I +C H F + C+ L+ +CP CRK++ K
Sbjct: 9 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 61
Score = 35.0 bits (79), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 3/53 (5%)
Query: 299 TCPICLSRYKP-KQTLRTI--PKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK 348
+CPIC+ Y Q R I +C H F + C+ L+ +CP CRK++ K
Sbjct: 74 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 126
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 34.7 bits (78), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 3/53 (5%)
Query: 299 TCPICLSRYKP-KQTLRTI--PKCNHYFHAYCIDKWLRMNASCPVCRKRLRFK 348
+CPIC+ Y Q R I +C H F + C+ L+ +CP CRK++ K
Sbjct: 5 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 57
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 34.7 bits (78), Expect = 0.090, Method: Composition-based stats.
Identities = 21/60 (35%), Positives = 28/60 (46%), Gaps = 6/60 (10%)
Query: 287 GVSGRQPKPNDNT-CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVCRKRL 345
G SGR + D C IC+ I C H F CIDKW + +CP+CR ++
Sbjct: 4 GSSGRVKQLTDEEECCICMD-----GRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQM 58
>pdb|2ECM|A Chain A, Solution Structure Of The Ring Domain Of The Ring Finger
And Chy Zinc Finger Domain-Containing Protein 1 From Mus
Musculus
Length = 55
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 21/46 (45%)
Query: 296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVC 341
+ CPICL + + + C H H C ++ L+ CP+C
Sbjct: 4 GSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 21/46 (45%)
Query: 296 NDNTCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVC 341
+ CPICL + + + C H H C ++ L+ CP+C
Sbjct: 4 SQQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 32.3 bits (72), Expect = 0.43, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 9/54 (16%)
Query: 300 CPICLSRYK-PKQTLRTIPKCNHYFHAYCIDKWLRMN---ASCPVCRKRLRFKS 349
CPICL K P T KC+H F +C+ K L + CP+C+ + +S
Sbjct: 24 CPICLELIKEPVST-----KCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS 72
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 31.6 bits (70), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 3/53 (5%)
Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNAS---CPVCRKRLRFKS 349
CPIC+ + +Q + C H C++K L + + CP C K R S
Sbjct: 18 CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITS 70
>pdb|3IXQ|A Chain A, Structure Of Ribose 5-Phosphate Isomerase A From
Methanocaldococcus Jannaschii
pdb|3IXQ|B Chain B, Structure Of Ribose 5-Phosphate Isomerase A From
Methanocaldococcus Jannaschii
pdb|3IXQ|C Chain C, Structure Of Ribose 5-Phosphate Isomerase A From
Methanocaldococcus Jannaschii
pdb|3IXQ|D Chain D, Structure Of Ribose 5-Phosphate Isomerase A From
Methanocaldococcus Jannaschii
Length = 226
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 26/45 (57%), Gaps = 7/45 (15%)
Query: 198 FTNDDTSLVVGCSNSGKESVKY--DAIIIGIGFGTPGALFIIALG 240
+N+D L V KE+VK D ++IG+G G+ ALFI LG
Sbjct: 1 MSNEDLKLKVA-----KEAVKLVKDGMVIGLGTGSTAALFIRELG 40
>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 = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 300 CPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNASCPVC 341
C IC + IP+C+H + + CI K+L CP C
Sbjct: 25 CGICFEYFNIAMI---IPQCSHNYCSLCIRKFLSYKTQCPTC 63
>pdb|3HOS|A Chain A, Crystal Structure Of The Mariner Mos1 Paired End Complex
With Mg
pdb|3HOS|B Chain B, Crystal Structure Of The Mariner Mos1 Paired End Complex
With Mg
pdb|3HOT|A Chain A, Crystal Structure Of The Mos1 Mariner Paired End Complex
With Mn
pdb|3HOT|B Chain B, Crystal Structure Of The Mos1 Mariner Paired End Complex
With Mn
Length = 345
Score = 28.1 bits (61), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 17/29 (58%)
Query: 288 VSGRQPKPNDNTCPICLSRYKPKQTLRTI 316
++ RQ + NTC I LSRYK K L I
Sbjct: 124 LNERQMERRKNTCEILLSRYKRKSFLHRI 152
>pdb|2F7T|A Chain A, Crystal Structure Of The Catalytic Domain Of Mos1 Mariner
Transposase
Length = 227
Score = 28.1 bits (61), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 17/29 (58%)
Query: 288 VSGRQPKPNDNTCPICLSRYKPKQTLRTI 316
++ RQ + NTC I LSRYK K L I
Sbjct: 6 LNERQMERRKNTCEILLSRYKRKSFLHRI 34
>pdb|2D7V|A Chain A, Structure Of Osmc-Like Protein Of Unknown Function Vca0330
From Vibrio Cholerae O1 Biovar Eltor Str. N16961
pdb|2D7V|B Chain B, Structure Of Osmc-Like Protein Of Unknown Function Vca0330
From Vibrio Cholerae O1 Biovar Eltor Str. N16961
Length = 162
Score = 28.1 bits (61), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 5/63 (7%)
Query: 270 VASLDKPTIESYPKTIVGVSGRQPKPNDNTCPICLS-----RYKPKQTLRTIPKCNHYFH 324
+A+ + +ESY VG+ G+ K + + L K TL+ + K +H H
Sbjct: 84 IAAKQRYLVESYTDNAVGILGKNSKGKTSVTKVVLRPQVVFSGTSKPTLQQLEKXHHLAH 143
Query: 325 AYC 327
C
Sbjct: 144 ENC 146
>pdb|4GY5|A Chain A, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|B Chain B, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|C Chain C, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|D Chain D, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
Length = 241
Score = 27.7 bits (60), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 6/49 (12%)
Query: 299 TCPICLSRYKPKQTLRTIPKCNHYFHAYCIDKWLRMNAS-----CPVCR 342
C +C R P + L +C+ FH YC+D L S CP CR
Sbjct: 192 ACHLCGGRQDPDKQL-MCDECDMAFHIYCLDPPLSSVPSEDEWYCPECR 239
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
0.323 0.139 0.451
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,820,570
Number of Sequences: 62578
Number of extensions: 445183
Number of successful extensions: 833
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 32
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 794
Number of HSP's gapped (non-prelim): 55
length of query: 352
length of database: 14,973,337
effective HSP length: 100
effective length of query: 252
effective length of database: 8,715,537
effective search space: 2196315324
effective search space used: 2196315324
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)