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= 033041
(129 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 68.9 bits (167), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 29/48 (60%), Positives = 34/48 (70%)
Query: 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48
++CAVCL+E E+ E R LP C H FH C+DMW SHSTCPLCR V
Sbjct: 6 VECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 53.9 bits (128), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 22/44 (50%), Positives = 29/44 (65%), Gaps = 1/44 (2%)
Query: 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRT 46
C VC+ +FE + RVLP CNH FH C+D W ++ TCP+CR
Sbjct: 26 CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRA 68
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 50.1 bits (118), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
C +CLS EE E R LP C H FH C+D W ++ CP+CR +E
Sbjct: 17 CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIE 62
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 46.6 bits (109), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 21/45 (46%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR 45
++C VC ++ ES R LP CNH FH CI W H +CP+CR
Sbjct: 16 LECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCR 59
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/56 (41%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTAQPEDP 58
CAVCL +F+ + + P C H+FH C+ W CPLC PV L AQ P
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPV-LQLAQLSGP 71
>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 = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 26/45 (57%), Gaps = 1/45 (2%)
Query: 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR 45
M C +C SE+ + + LP C+H FH C+ +W TCP+CR
Sbjct: 41 MCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCR 84
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 25/43 (58%)
Query: 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR 45
C C +E ++ + V CNHSFH C+ +W ++ CPLC+
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71
>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 = 0.003, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVT 52
C +CL + + LP C H+F CI W + TCPLC+ PVE V
Sbjct: 8 CPICLED--PSNYSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVESVV 54
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 5/47 (10%)
Query: 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48
+C +C+ + + +LP C HSF CID W H CP+CR +
Sbjct: 17 ECCICM----DGRADLILP-CAHSFCQKCIDKWSDRHRNCPICRLQM 58
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 34.7 bits (78), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 4/49 (8%)
Query: 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
+ C +C F E V C HSF CI+ W CP+CR ++
Sbjct: 54 LQCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIK 98
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 4/49 (8%)
Query: 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
+ C +C F E V C HSF CI+ W CP+CR ++
Sbjct: 54 LQCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIK 98
>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 = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 4/49 (8%)
Query: 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
+ C +C F E V C HSF CI+ W CP+CR ++
Sbjct: 65 LQCIICSEYFIE----AVTLNCAHSFCSYCINEWMKRKIECPICRKDIK 109
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 32.7 bits (73), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 22 CNHSFHIGCIDMWFHSHSTCPL 43
CNH+FH CI W + CPL
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPL 88
>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 = 32.7 bits (73), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 22 CNHSFHIGCIDMWFHSHSTCPL 43
CNH+FH CI W + CPL
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 96
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 32.7 bits (73), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 22 CNHSFHIGCIDMWFHSHSTCPL 43
CNH+FH CI W + CPL
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPL 105
>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 = 32.7 bits (73), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 22 CNHSFHIGCIDMWFHSHSTCPL 43
CNH+FH CI W + CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 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 = 32.7 bits (73), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 22 CNHSFHIGCIDMWFHSHSTCPL 43
CNH+FH CI W + CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>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 = 32.3 bits (72), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 22 CNHSFHIGCIDMWFHSHSTCPL 43
CNH+FH CI W + CPL
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>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 = 32.3 bits (72), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 22 CNHSFHIGCIDMWFHSHSTCPL 43
CNH+FH CI W + CPL
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 27/61 (44%), Gaps = 10/61 (16%)
Query: 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH------STCPLCRTPVELVTAQ 54
+ C +CL +E S CNHSF CI + + S+ CP+CR P +
Sbjct: 20 VTCPICLELLKEPVSA----DCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLK 75
Query: 55 P 55
P
Sbjct: 76 P 76
>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 = 28.5 bits (62), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 3/48 (6%)
Query: 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48
+ C +C FE ++P C+H++ CI + + CP C V
Sbjct: 23 LRCGIC---FEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTV 67
>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 = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 11 EENESGRVLPGCNHSFHIGCIDMWF-HSHSTCPLCRTPVEL 50
E+ R+ P C+ CI W + CP CR P++L
Sbjct: 30 EKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL 70
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 1 MDCAVCLSEFEE-NESGRVLPG--CNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
+ C +C+ + E ++GR++ C H F C+ + +TCP CR +
Sbjct: 16 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 67
>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 = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 1 MDCAVCLSEFEE-NESGRVLPG--CNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
+ C +C+ + E ++GR++ C H F C+ + +TCP CR +
Sbjct: 11 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 62
>pdb|2WYL|A Chain A, Apo Structure Of A Metallo-B-Lactamase
pdb|2WYL|B Chain B, Apo Structure Of A Metallo-B-Lactamase
pdb|2WYL|C Chain C, Apo Structure Of A Metallo-B-Lactamase
pdb|2WYL|D Chain D, Apo Structure Of A Metallo-B-Lactamase
pdb|2WYL|E Chain E, Apo Structure Of A Metallo-B-Lactamase
pdb|2WYL|F Chain F, Apo Structure Of A Metallo-B-Lactamase
Length = 360
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 16/34 (47%)
Query: 11 EENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLC 44
EE E +V PG + +GC +W S +C
Sbjct: 26 EEIEQEQVAPGTFAXWWLGCTGIWLKSEGGTNVC 59
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 26.2 bits (56), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 1 MDCAVCLSEFEE-NESGRVLPG--CNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
+ C +C+ + E ++GR++ C H F C+ + +TCP CR +
Sbjct: 8 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 59
Score = 26.2 bits (56), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 1 MDCAVCLSEFEE-NESGRVLPG--CNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
+ C +C+ + E ++GR++ C H F C+ + +TCP CR +
Sbjct: 73 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 124
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 25.8 bits (55), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 1 MDCAVCLSEFEE-NESGRVLPG--CNHSFHIGCIDMWFHSHSTCPLCRTPVE 49
+ C +C+ + E ++GR++ C H F C+ + +TCP CR +
Sbjct: 4 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 55
>pdb|2WYM|C Chain C, Structure Of A Metallo-B-Lactamase
pdb|2WYM|F Chain F, Structure Of A Metallo-B-Lactamase
Length = 360
Score = 25.8 bits (55), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 16/34 (47%)
Query: 11 EENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLC 44
EE E +V PG + +GC +W S +C
Sbjct: 26 EEIEQEQVAPGTFAMWWLGCTGIWLKSEGGTNVC 59
>pdb|2WYM|A Chain A, Structure Of A Metallo-B-Lactamase
pdb|2WYM|B Chain B, Structure Of A Metallo-B-Lactamase
pdb|2WYM|D Chain D, Structure Of A Metallo-B-Lactamase
pdb|2WYM|E Chain E, Structure Of A Metallo-B-Lactamase
Length = 360
Score = 25.8 bits (55), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 11/34 (32%), Positives = 16/34 (47%)
Query: 11 EENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLC 44
EE E +V PG + +GC +W S +C
Sbjct: 26 EEIEQEQVAPGTFAMWWLGCTGIWLKSEGGTNVC 59
>pdb|2GSH|A Chain A, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium
pdb|2GSH|B Chain B, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium
Length = 414
Score = 25.8 bits (55), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 12/57 (21%)
Query: 35 FHSHSTCPLCRTPV-ELVTAQPE--------DPVQPDNPVPVRVSVHEPGSSSIDEP 82
+ H+ TP E + P+ DP+ D PVPV +H+ S +D+P
Sbjct: 335 YSHHAVITFTNTPFSEFLMTSPDCSTLRPQFDPILLDEPVPVNGRIHK---SVLDKP 388
>pdb|3D46|A Chain A, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And L-Tartrate
pdb|3D46|B Chain B, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And L-Tartrate
pdb|3D46|C Chain C, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And L-Tartrate
pdb|3D46|D Chain D, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And L-Tartrate
pdb|3D46|E Chain E, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And L-Tartrate
pdb|3D46|F Chain F, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And L-Tartrate
pdb|3D46|G Chain G, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And L-Tartrate
pdb|3D46|H Chain H, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And L-Tartrate
pdb|3D47|A Chain A, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And D-Malate
pdb|3D47|B Chain B, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And D-Malate
pdb|3D47|C Chain C, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And D-Malate
pdb|3D47|D Chain D, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And D-Malate
pdb|3D47|E Chain E, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And D-Malate
pdb|3D47|F Chain F, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And D-Malate
pdb|3D47|G Chain G, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And D-Malate
pdb|3D47|H Chain H, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And D-Malate
Length = 405
Score = 25.8 bits (55), Expect = 7.3, Method: Composition-based stats.
Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 12/57 (21%)
Query: 35 FHSHSTCPLCRTPV-ELVTAQPE--------DPVQPDNPVPVRVSVHEPGSSSIDEP 82
+ H+ TP E + P+ DP+ D PVPV +H+ S +D+P
Sbjct: 334 YSHHAVITFTNTPFSEFLMTSPDCSTLRPQFDPILLDEPVPVNGRIHK---SVLDKP 387
>pdb|2P3Z|A Chain A, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium
pdb|2P3Z|B Chain B, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium
pdb|3BOX|A Chain A, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg
pdb|3BOX|B Chain B, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg
pdb|3CXO|A Chain A, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And 3-Deoxy-L-
Rhamnonate
pdb|3CXO|B Chain B, Crystal Structure Of L-Rhamnonate Dehydratase From
Salmonella Typhimurium Complexed With Mg And 3-Deoxy-L-
Rhamnonate
Length = 415
Score = 25.8 bits (55), Expect = 7.3, Method: Composition-based stats.
Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 12/57 (21%)
Query: 35 FHSHSTCPLCRTPV-ELVTAQPE--------DPVQPDNPVPVRVSVHEPGSSSIDEP 82
+ H+ TP E + P+ DP+ D PVPV +H+ S +D+P
Sbjct: 336 YSHHAVITFTNTPFSEFLMTSPDCSTLRPQFDPILLDEPVPVNGRIHK---SVLDKP 389
>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 = 25.4 bits (54), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 19/46 (41%), Gaps = 2/46 (4%)
Query: 3 CAVCLSEFEENES-GRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTP 47
C +CL + + VLP C H H C + CPLC P
Sbjct: 8 CPICLEDIHTSRVVAHVLP-CGHLLHRTCYEEMLKEGYRCPLCSGP 52
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
0.316 0.134 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,885,463
Number of Sequences: 62578
Number of extensions: 129401
Number of successful extensions: 301
Number of sequences better than 100.0: 42
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 265
Number of HSP's gapped (non-prelim): 43
length of query: 129
length of database: 14,973,337
effective HSP length: 88
effective length of query: 41
effective length of database: 9,466,473
effective search space: 388125393
effective search space used: 388125393
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)