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= 042698
(203 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 = 66.6 bits (161), Expect = 9e-12, Method: Composition-based stats.
Identities = 24/44 (54%), Positives = 31/44 (70%)
Query: 111 ECVICLSDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKCR 154
EC +CL++ GE R LP+C HGFH C+D WL S+S+CP CR
Sbjct: 7 ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 59.7 bits (143), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 23/43 (53%), Positives = 33/43 (76%), Gaps = 1/43 (2%)
Query: 112 CVICLSDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKCR 154
CV+C+ DF + +R+LP CNH FH +C+DKWL++N +CP CR
Sbjct: 26 CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 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 = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 30/66 (45%), Positives = 36/66 (54%), Gaps = 5/66 (7%)
Query: 111 ECVICLSDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKCRHCLIESCKKIEGSTQP 170
EC +C D+A GE VR LP CNH FH CI WL + SCP CR L +T P
Sbjct: 17 ECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQ----NTATNP 71
Query: 171 SSLSGI 176
L+G+
Sbjct: 72 PGLTGV 77
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 50.8 bits (120), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 24/44 (54%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 111 ECVICLSDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKCR 154
+C ICLS GE VR LP C H FH C+D+WL +N CP CR
Sbjct: 16 KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 58
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 100 SGELKLPGLDNECVICLSDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKC 153
SG++K L C +CL DF P + + I P C H FH +C+ KWL CP C
Sbjct: 6 SGKVKELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58
>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 = 9e-05, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 38/74 (51%), Gaps = 1/74 (1%)
Query: 81 LAKTGIKKKALKAFTIVKYSGELKLPGLDNECVICLSDFAPGERVRILPKCNHGFHVRCI 140
+A K+++ A + + + G + C IC S++ G+ LP C+H FH C+
Sbjct: 12 VANPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCV 70
Query: 141 DKWLRSNSSCPKCR 154
WL+ + +CP CR
Sbjct: 71 SIWLQKSGTCPVCR 84
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 29/55 (52%), Gaps = 5/55 (9%)
Query: 100 SGELKLPGLDNECVICLSDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKCR 154
SG +K + EC IC+ G ILP C H F +CIDKW + +CP CR
Sbjct: 6 SGRVKQLTDEEECCICMD----GRADLILP-CAHSFCQKCIDKWSDRHRNCPICR 55
>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 = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 112 CVICLSDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKCR 154
C ICL D P LP C H F CI +W+R N +CP C+
Sbjct: 8 CPICLED--PSNYSMALP-CLHAFCYVCITRWIRQNPTCPLCK 47
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 36.2 bits (82), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 39/90 (43%), Gaps = 6/90 (6%)
Query: 68 LEYSGPRANSSTPLAKTGIKKK---ALKAFTIVKYSGELKLPGLDNECVICLSDFAPG-- 122
+ G NS + +KK AL A+ IV + + + + C+ C ++ A
Sbjct: 15 FQGGGRGTNSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATS 74
Query: 123 -ERVRILPKCNHGFHVRCIDKWLRSNSSCP 151
E CNH FH CI +WL++ CP
Sbjct: 75 EECTVAWGVCNHAFHFHCISRWLKTRQVCP 104
>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 = 35.4 bits (80), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 37/82 (45%), Gaps = 6/82 (7%)
Query: 76 NSSTPLAKTGIKKK---ALKAFTIVKYSGELKLPGLDNECVICLSDFAPG---ERVRILP 129
NS + +KK AL A+ IV + + + + C+ C ++ A E
Sbjct: 12 NSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIXDLCIECQANQASATSEECTVAWG 71
Query: 130 KCNHGFHVRCIDKWLRSNSSCP 151
CNH FH CI +WL++ CP
Sbjct: 72 VCNHAFHFHCISRWLKTRQVCP 93
>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 = 35.4 bits (80), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 37/82 (45%), Gaps = 6/82 (7%)
Query: 76 NSSTPLAKTGIKKK---ALKAFTIVKYSGELKLPGLDNECVICLSDFAPG---ERVRILP 129
NS + +KK AL A+ IV + + + + C+ C ++ A E
Sbjct: 4 NSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWG 63
Query: 130 KCNHGFHVRCIDKWLRSNSSCP 151
CNH FH CI +WL++ CP
Sbjct: 64 VCNHAFHFHCISRWLKTRQVCP 85
>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 = 35.0 bits (79), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 31/65 (47%), Gaps = 3/65 (4%)
Query: 90 ALKAFTIVKYSGELKLPGLDNECVICLSDFAPG---ERVRILPKCNHGFHVRCIDKWLRS 146
AL A+ IV + + + + C+ C ++ A E CNH FH CI +WL++
Sbjct: 13 ALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT 72
Query: 147 NSSCP 151
CP
Sbjct: 73 RQVCP 77
>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 = 35.0 bits (79), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 31/65 (47%), Gaps = 3/65 (4%)
Query: 90 ALKAFTIVKYSGELKLPGLDNECVICLSDFAPG---ERVRILPKCNHGFHVRCIDKWLRS 146
AL A+ IV + + + + C+ C ++ A E CNH FH CI +WL++
Sbjct: 31 ALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKT 90
Query: 147 NSSCP 151
CP
Sbjct: 91 RQVCP 95
>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 = 35.0 bits (79), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 37/82 (45%), Gaps = 6/82 (7%)
Query: 76 NSSTPLAKTGIKKK---ALKAFTIVKYSGELKLPGLDNECVICLSDFAPG---ERVRILP 129
NS + +KK AL A+ IV + + + + C+ C ++ A E
Sbjct: 12 NSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWG 71
Query: 130 KCNHGFHVRCIDKWLRSNSSCP 151
CNH FH CI +WL++ CP
Sbjct: 72 VCNHAFHFHCISRWLKTRQVCP 93
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 35.0 bits (79), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 26/46 (56%)
Query: 110 NECVICLSDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKCRH 155
+ C+ C ++ + V + +CNH FH C+ W++ N+ CP C+
Sbjct: 27 DACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQ 72
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 34.3 bits (77), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 131 CNHGFHVRCIDKWLRSNSSCP 151
CNH FH CI +WL++ CP
Sbjct: 67 CNHAFHFHCISRWLKTRQVCP 87
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 34.3 bits (77), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 6/49 (12%)
Query: 108 LDNE--CVICLSDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKCR 154
L+NE C+IC F + C H F CI++W++ CP CR
Sbjct: 50 LENELQCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICR 94
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 34.3 bits (77), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 6/49 (12%)
Query: 108 LDNE--CVICLSDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKCR 154
L+NE C+IC F + C H F CI++W++ CP CR
Sbjct: 50 LENELQCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICR 94
>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 = 0.065, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 6/49 (12%)
Query: 108 LDNE--CVICLSDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKCR 154
L+NE C+IC F + C H F CI++W++ CP CR
Sbjct: 61 LENELQCIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICR 105
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 31.2 bits (69), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 19/44 (43%)
Query: 112 CVICLSDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKCRH 155
C ICL D V + C H H C ++ L+ CP C H
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCMH 51
>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 = 30.8 bits (68), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 3/42 (7%)
Query: 112 CVICLSDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKC 153
C IC F I+P+C+H + CI K+L + CP C
Sbjct: 25 CGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
>pdb|1B0J|A Chain A, Crystal Structure Of Aconitase With Isocitrate
Length = 754
Score = 29.3 bits (64), Expect = 1.7, Method: Composition-based stats.
Identities = 25/91 (27%), Positives = 41/91 (45%), Gaps = 14/91 (15%)
Query: 72 GPRANSSTPLAK---TGIKKKALKAFTIVKYSGELKLPGLDNECVICLSDFAPGERVRIL 128
G RA + A+ T +KK+ L T + K+ +D + L DFAPG+ ++ +
Sbjct: 655 GGRAIITKSFARIHETNLKKQGLLPLTFADPADYNKIHPVDKLTIQGLKDFAPGKPLKCI 714
Query: 129 PK----------CNHGFHVRCIDKWLRSNSS 149
K NH F+ I+ W R+ S+
Sbjct: 715 IKHPNGTQETILLNHTFNETQIE-WFRAGSA 744
>pdb|1C97|A Chain A, S642a:isocitrate Complex Of Aconitase
pdb|1B0K|A Chain A, S642a:fluorocitrate Complex Of Aconitase
Length = 753
Score = 29.3 bits (64), Expect = 1.8, Method: Composition-based stats.
Identities = 25/91 (27%), Positives = 41/91 (45%), Gaps = 14/91 (15%)
Query: 72 GPRANSSTPLAK---TGIKKKALKAFTIVKYSGELKLPGLDNECVICLSDFAPGERVRIL 128
G RA + A+ T +KK+ L T + K+ +D + L DFAPG+ ++ +
Sbjct: 654 GGRAIITKSFARIHETNLKKQGLLPLTFADPADYNKIHPVDKLTIQGLKDFAPGKPLKCI 713
Query: 129 PK----------CNHGFHVRCIDKWLRSNSS 149
K NH F+ I+ W R+ S+
Sbjct: 714 IKHPNGTQETILLNHTFNETQIE-WFRAGSA 743
>pdb|5ACN|A Chain A, Structure Of Activated Aconitase. Formation Of The
(4fe-4s) Cluster In The Crystal
pdb|6ACN|A Chain A, Structure Of Activated Aconitase. Formation Of The
(4fe-4s) Cluster In The Crystal
pdb|7ACN|A Chain A, Crystal Structures Of Aconitase With Isocitrate And
Nitroisocitrate Bound
Length = 754
Score = 28.9 bits (63), Expect = 1.8, Method: Composition-based stats.
Identities = 25/91 (27%), Positives = 41/91 (45%), Gaps = 14/91 (15%)
Query: 72 GPRANSSTPLAK---TGIKKKALKAFTIVKYSGELKLPGLDNECVICLSDFAPGERVRIL 128
G RA + A+ T +KK+ L T + K+ +D + L DFAPG+ ++ +
Sbjct: 655 GGRAIITKSFARIHETNLKKQGLLPLTFADPADYNKIHPVDKLTIQGLKDFAPGKPLKCI 714
Query: 129 PK----------CNHGFHVRCIDKWLRSNSS 149
K NH F+ I+ W R+ S+
Sbjct: 715 IKHPNGTQETILLNHTFNETQIE-WFRAGSA 744
>pdb|1C96|A Chain A, S642a:citrate Complex Of Aconitase
Length = 753
Score = 28.9 bits (63), Expect = 1.8, Method: Composition-based stats.
Identities = 25/91 (27%), Positives = 41/91 (45%), Gaps = 14/91 (15%)
Query: 72 GPRANSSTPLAK---TGIKKKALKAFTIVKYSGELKLPGLDNECVICLSDFAPGERVRIL 128
G RA + A+ T +KK+ L T + K+ +D + L DFAPG+ ++ +
Sbjct: 654 GGRAIITKSFARIHETNLKKQGLLPLTFADPADYNKIHPVDKLTIQGLKDFAPGKPLKCI 713
Query: 129 PK----------CNHGFHVRCIDKWLRSNSS 149
K NH F+ I+ W R+ S+
Sbjct: 714 IKHPNGTQETILLNHTFNETQIE-WFRAGSA 743
>pdb|1B0M|A Chain A, Aconitase R644q:fluorocitrate Complex
Length = 753
Score = 28.9 bits (63), Expect = 1.8, Method: Composition-based stats.
Identities = 25/91 (27%), Positives = 41/91 (45%), Gaps = 14/91 (15%)
Query: 72 GPRANSSTPLAK---TGIKKKALKAFTIVKYSGELKLPGLDNECVICLSDFAPGERVRIL 128
G RA + A+ T +KK+ L T + K+ +D + L DFAPG+ ++ +
Sbjct: 654 GGRAIITKSFARIHETNLKKQGLLPLTFADPADYNKIHPVDKLTIQGLKDFAPGKPLKCI 713
Query: 129 PK----------CNHGFHVRCIDKWLRSNSS 149
K NH F+ I+ W R+ S+
Sbjct: 714 IKHPNGTQETILLNHTFNETQIE-WFRAGSA 743
>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 = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 18/42 (42%)
Query: 112 CVICLSDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKC 153
C ICL D V + C H H C ++ L+ CP C
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|1V87|A Chain A, Solution Structure Of The Ring-H2 Finger Domain Of Mouse
Deltex Protein 2
Length = 114
Score = 28.5 bits (62), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 33/78 (42%), Gaps = 20/78 (25%)
Query: 96 IVKYSGELKLPGLDNECVICLSDFAPGER--------------VRILPKCNHGFHVRC-I 140
I KY+ ELK+ + +C+IC+ A V L KC+H FH+ C +
Sbjct: 13 IRKYTEELKV-APEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLL 71
Query: 141 DKWLRSNSS----CPKCR 154
+ N CP C+
Sbjct: 72 AMYCNGNKDGSLQCPSCK 89
>pdb|2NZ2|A Chain A, Crystal Structure Of Human Argininosuccinate Synthase In
Complex With Aspartate And Citrulline
Length = 413
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 149 SCPKCRHCLIESCKKIEGSTQPSSLSG 175
C RHC+ +S +++EG Q S L G
Sbjct: 331 ECEFVRHCIAKSQERVEGKVQVSVLKG 357
>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 = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 112 CVICL---SDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKCR 154
C IC+ S+ R+ + +C H F +C+ L++ ++CP CR
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 58
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 112 CVICL---SDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKCR 154
C IC+ S+ R+ + +C H F +C+ L++ ++CP CR
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 51
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 112 CVICL---SDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKCR 154
C IC+ S+ R+ + +C H F +C+ L++ ++CP CR
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 63
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 28.1 bits (61), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 112 CVICL---SDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKCR 154
C IC+ S+ R+ + +C H F +C+ L++ ++CP CR
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 55
Score = 28.1 bits (61), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 112 CVICL---SDFAPGERVRILPKCNHGFHVRCIDKWLRSNSSCPKCR 154
C IC+ S+ R+ + +C H F +C+ L++ ++CP CR
Sbjct: 75 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 120
>pdb|1NIS|A Chain A, Crystal Structure Of Aconitase With Trans-Aconitate And
Nitrocitrate Bound
pdb|1NIT|A Chain A, Crystal Structure Of Aconitase With Trans-Aconitate And
Nitrocitrate Bound
Length = 754
Score = 28.1 bits (61), Expect = 3.9, Method: Composition-based stats.
Identities = 25/93 (26%), Positives = 41/93 (44%), Gaps = 14/93 (15%)
Query: 70 YSGPRANSSTPLAK---TGIKKKALKAFTIVKYSGELKLPGLDNECVICLSDFAPGERVR 126
+ G RA + A+ T +KK+ L T + K+ +D + L DFAPG+ +
Sbjct: 653 FLGGRAIITKSFARIHETNLKKQGLLPLTFADPADYNKIHPVDKLTIQGLKDFAPGKPLT 712
Query: 127 ILPK----------CNHGFHVRCIDKWLRSNSS 149
+ K NH F+ I+ W R+ S+
Sbjct: 713 CIIKHPNGTQETILLNHTFNETQIE-WFRAGSA 744
>pdb|1AMI|A Chain A, Steric And Conformational Features Of The Aconitase
Mechanism
pdb|1AMJ|A Chain A, Steric And Conformational Features Of The Aconitase
Mechanism
Length = 754
Score = 28.1 bits (61), Expect = 3.9, Method: Composition-based stats.
Identities = 25/93 (26%), Positives = 41/93 (44%), Gaps = 14/93 (15%)
Query: 70 YSGPRANSSTPLAK---TGIKKKALKAFTIVKYSGELKLPGLDNECVICLSDFAPGERVR 126
+ G RA + A+ T +KK+ L T + K+ +D + L DFAPG+ +
Sbjct: 653 FLGGRAIITKSFARIHETNLKKQGLLPLTFADPADYNKIHPVDKLTIQGLKDFAPGKPLT 712
Query: 127 ILPK----------CNHGFHVRCIDKWLRSNSS 149
+ K NH F+ I+ W R+ S+
Sbjct: 713 CIIKHPNGTQETILLNHTFNETQIE-WFRAGSA 744
>pdb|1ACO|A Chain A, Crystal Structure Of Aconitase With Transaconitate Bound
pdb|1FGH|A Chain A, Complex With 4-Hydroxy-Trans-Aconitate
pdb|8ACN|A Chain A, Crystal Structures Of Aconitase With Isocitrate And
Nitroisocitrate Bound
Length = 754
Score = 27.7 bits (60), Expect = 4.0, Method: Composition-based stats.
Identities = 25/93 (26%), Positives = 41/93 (44%), Gaps = 14/93 (15%)
Query: 70 YSGPRANSSTPLAK---TGIKKKALKAFTIVKYSGELKLPGLDNECVICLSDFAPGERVR 126
+ G RA + A+ T +KK+ L T + K+ +D + L DFAPG+ +
Sbjct: 653 FLGGRAIITKSFARIHETNLKKQGLLPLTFADPADYNKIHPVDKLTIQGLKDFAPGKPLT 712
Query: 127 ILPK----------CNHGFHVRCIDKWLRSNSS 149
+ K NH F+ I+ W R+ S+
Sbjct: 713 CIIKHPNGTQETILLNHTFNETQIE-WFRAGSA 744
>pdb|1EXK|A Chain A, Solution Structure Of The Cysteine-Rich Domain Of The
Escherichia Coli Chaperone Protein Dnaj
Length = 79
Score = 27.7 bits (60), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 102 ELKLPGLDNECVICLSDFA-PGERVRILPKCNHGFHVRCIDKWLRSNSSCPKCR 154
E+++P L+ EC +C A PG + + P C+ V+ + +CP C+
Sbjct: 5 EIRIPTLE-ECDVCHGSGAKPGTQPQTCPTCHGSGQVQMRQGFFAVQQTCPHCQ 57
>pdb|2VBE|A Chain A, Tailspike Protein Of Bacteriophage Sf6
Length = 514
Score = 26.6 bits (57), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 50 CSLGLHFLIRCILVSWSRLEYSGPRANSS 78
C +GLHFL +C+ VS S +S R N S
Sbjct: 208 CRVGLHFLGQCVSVSVSSCHFS--RGNYS 234
>pdb|2VBK|A Chain A, Native Tailspike Protein Of Bacteriophage Sf6
pdb|2VBM|A Chain A, Tailspike Protein Of Bacteriophage Sf6 Complexed With
Tetrasaccharide
Length = 514
Score = 26.6 bits (57), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 18/29 (62%), Gaps = 2/29 (6%)
Query: 50 CSLGLHFLIRCILVSWSRLEYSGPRANSS 78
C +GLHFL +C+ VS S +S R N S
Sbjct: 208 CRVGLHFLGQCVSVSVSSCHFS--RGNYS 234
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
0.321 0.137 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,103,189
Number of Sequences: 62578
Number of extensions: 229998
Number of successful extensions: 522
Number of sequences better than 100.0: 52
Number of HSP's better than 100.0 without gapping: 35
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 480
Number of HSP's gapped (non-prelim): 54
length of query: 203
length of database: 14,973,337
effective HSP length: 94
effective length of query: 109
effective length of database: 9,091,005
effective search space: 990919545
effective search space used: 990919545
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: 49 (23.5 bits)