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= 015207
(411 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 22/58 (37%), Positives = 31/58 (53%), Gaps = 6/58 (10%)
Query: 25 IEPSSGLACSICLDLVSE---NGIRSRAKLQCGHEFHLDCIGSAFNMKGAMQCPNCRR 79
+ PS ++C IC+D SE NG R +CGH F C+ + +K A CP CR+
Sbjct: 10 LRPSGTVSCPICMDGYSEIVQNG-RLIVSTECGHVFCSQCLRDS--LKNANTCPTCRK 64
>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 = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 22/58 (37%), Positives = 31/58 (53%), Gaps = 6/58 (10%)
Query: 25 IEPSSGLACSICLDLVSE---NGIRSRAKLQCGHEFHLDCIGSAFNMKGAMQCPNCRR 79
+ PS ++C IC+D SE NG R +CGH F C+ + +K A CP CR+
Sbjct: 5 LRPSGTVSCPICMDGYSEIVQNG-RLIVSTECGHVFCSQCLRDS--LKNANTCPTCRK 59
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 36.2 bits (82), Expect = 0.031, Method: Composition-based stats.
Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 6/55 (10%)
Query: 28 SSGLACSICLDLVSE---NGIRSRAKLQCGHEFHLDCIGSAFNMKGAMQCPNCRR 79
S ++C IC+D SE NG R +CGH F C+ + +K A CP CR+
Sbjct: 5 SGTVSCPICMDGYSEIVQNG-RLIVSTECGHVFCSQCLRDS--LKNANTCPTCRK 56
Score = 36.2 bits (82), Expect = 0.031, Method: Composition-based stats.
Identities = 21/55 (38%), Positives = 29/55 (52%), Gaps = 6/55 (10%)
Query: 28 SSGLACSICLDLVSE---NGIRSRAKLQCGHEFHLDCIGSAFNMKGAMQCPNCRR 79
S ++C IC+D SE NG R +CGH F C+ + +K A CP CR+
Sbjct: 70 SGTVSCPICMDGYSEIVQNG-RLIVSTECGHVFCSQCLRDS--LKNANTCPTCRK 121
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 36.2 bits (82), Expect = 0.038, Method: Composition-based stats.
Identities = 20/52 (38%), Positives = 28/52 (53%), Gaps = 6/52 (11%)
Query: 31 LACSICLDLVSE---NGIRSRAKLQCGHEFHLDCIGSAFNMKGAMQCPNCRR 79
++C IC+D SE NG R +CGH F C+ + +K A CP CR+
Sbjct: 4 VSCPICMDGYSEIVQNG-RLIVSTECGHVFCSQCLRDS--LKNANTCPTCRK 52
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 35.4 bits (80), Expect = 0.057, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 3/49 (6%)
Query: 30 GLACSICLDLVSENGIRSRAKLQCGHEFHLDCIGSAFNMKGAMQCPNCR 78
G+ C++CL + E+G +R +CGH FH +C+ CP CR
Sbjct: 5 GVECAVCLAEL-EDGEEARFLPRCGHGFHAECVDMWLGSHST--CPLCR 50
>pdb|1V87|A Chain A, Solution Structure Of The Ring-H2 Finger Domain Of Mouse
Deltex Protein 2
Length = 114
Score = 34.3 bits (77), Expect = 0.14, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 21/32 (65%), Gaps = 3/32 (9%)
Query: 52 QCGHEFHLDCIGSAF---NMKGAMQCPNCRRI 80
+C H FHL C+ + + N G++QCP+C+ I
Sbjct: 60 KCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTI 91
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 32.7 bits (73), Expect = 0.34, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 6/47 (12%)
Query: 33 CSICLDLVSENGIRSRAKLQCGHEFHLDCIGSAFNMK-GAMQCPNCR 78
C ICLD+ ++ + CGH F L CI G +CP C+
Sbjct: 23 CPICLDI-----LQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCK 64
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 32.7 bits (73), Expect = 0.38, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 23/49 (46%), Gaps = 6/49 (12%)
Query: 31 LACSICLDLVSENGIRSRAKLQCGHEFHLDCIGSAFNM-KGAMQCPNCR 78
L C ICL+L+ E +C H F C+ N KG QCP C+
Sbjct: 22 LECPICLELIKEP-----VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCK 65
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 32.0 bits (71), Expect = 0.64, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 6/46 (13%)
Query: 33 CSICLDLVSENGIRSRAKLQCGHEFHLDCIGSAFNMK-GAMQCPNC 77
C ICLD+ ++ + CGH F L CI G +CP C
Sbjct: 23 CPICLDI-----LQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63
>pdb|3NW0|A Chain A, Crystal Structure Of Mageg1 And Nse1 Complex
Length = 238
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 4/51 (7%)
Query: 27 PSSGLACSICLDLVSENGIRSRAKLQCGHEFHLDCIGSAFNMKGAMQCPNC 77
P + C+IC L+ I+ ++ CG HL C+ F +CP+C
Sbjct: 177 PDAVKICNICHSLL----IQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHC 223
>pdb|2CT0|A Chain A, Solution Structure Of The Ring Domain Of The Non-Smc
Element 1 Protein
Length = 74
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 4/59 (6%)
Query: 19 GHDDDDIEPSSGLACSICLDLVSENGIRSRAKLQCGHEFHLDCIGSAFNMKGAMQCPNC 77
G + P + C+IC L+ I+ ++ CG HL C+ F +CP+C
Sbjct: 4 GSSGRETYPDAVKICNICHSLL----IQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHC 58
>pdb|1UWL|A Chain A, 1.76a Structure Of Urocanate Hydratase From Pseudomonas
Putida
pdb|1UWL|B Chain B, 1.76a Structure Of Urocanate Hydratase From Pseudomonas
Putida
Length = 557
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 11/74 (14%)
Query: 77 CRRIEKGQWLYANGSTRSL--PELSMEDWIPDE----DFYDL-----SYSEMPFRVHWCP 125
CR + +W +G + + +++ IPD+ + D+ S+ +P R+ W
Sbjct: 355 CRGVGPFRWAALSGEAEDIYKTDAKVKELIPDDAHLHRWLDMARERISFQGLPARICWVG 414
Query: 126 FGEFAQLGSSFEEV 139
G A+LG +F E+
Sbjct: 415 LGLRAKLGLAFNEM 428
>pdb|1UWK|A Chain A, The High Resolution Structure Of Urocanate Hydratase From
Pseudomonas Putida In Complex With Urocanate
pdb|1UWK|B Chain B, The High Resolution Structure Of Urocanate Hydratase From
Pseudomonas Putida In Complex With Urocanate
Length = 557
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 11/74 (14%)
Query: 77 CRRIEKGQWLYANGSTRSL--PELSMEDWIPDE----DFYDL-----SYSEMPFRVHWCP 125
CR + +W +G + + +++ IPD+ + D+ S+ +P R+ W
Sbjct: 355 CRGVGPFRWAALSGEAEDIYKTDAKVKELIPDDAHLHRWLDMARERISFQGLPARICWVG 414
Query: 126 FGEFAQLGSSFEEV 139
G A+LG +F E+
Sbjct: 415 LGLRAKLGLAFNEM 428
>pdb|1W1U|A Chain A, Inactive Urocanase-Sa Cocrystallized With Urocanate
pdb|1W1U|B Chain B, Inactive Urocanase-Sa Cocrystallized With Urocanate
Length = 557
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 11/74 (14%)
Query: 77 CRRIEKGQWLYANGSTRSL--PELSMEDWIPDED----FYDL-----SYSEMPFRVHWCP 125
CR + +W +G + + +++ IPD+ + D+ S+ +P R+ W
Sbjct: 355 CRGVGPFRWAALSGEAEDIYKTDAKVKELIPDDAHLHRWLDMARERISFQGLPARICWVG 414
Query: 126 FGEFAQLGSSFEEV 139
G A+LG +F E+
Sbjct: 415 LGLRAKLGLAFNEM 428
>pdb|2V7G|A Chain A, Crystal Structure Of An Engineered Urocanase Tetramer
pdb|2V7G|B Chain B, Crystal Structure Of An Engineered Urocanase Tetramer
pdb|2V7G|C Chain C, Crystal Structure Of An Engineered Urocanase Tetramer
pdb|2V7G|D Chain D, Crystal Structure Of An Engineered Urocanase Tetramer
Length = 557
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 35/74 (47%), Gaps = 11/74 (14%)
Query: 77 CRRIEKGQWLYANGSTRSL--PELSMEDWIPDE----DFYDL-----SYSEMPFRVHWCP 125
CR + +W +G + + +++ IPD+ + D+ S+ +P R+ W
Sbjct: 355 CRGVGPFRWAALSGEAEDIYKTDAKVKELIPDDAHLHRWLDMARERISFQGLPARICWVG 414
Query: 126 FGEFAQLGSSFEEV 139
G A+LG +F E+
Sbjct: 415 LGLRAKLGLAFNEM 428
>pdb|1GEH|A Chain A, Crystal Structure Of Archaeal Rubisco (Ribulose
1,5-Bisphosphate CarboxylaseOXYGENASE)
pdb|1GEH|B Chain B, Crystal Structure Of Archaeal Rubisco (Ribulose
1,5-Bisphosphate CarboxylaseOXYGENASE)
pdb|1GEH|C Chain C, Crystal Structure Of Archaeal Rubisco (Ribulose
1,5-Bisphosphate CarboxylaseOXYGENASE)
pdb|1GEH|D Chain D, Crystal Structure Of Archaeal Rubisco (Ribulose
1,5-Bisphosphate CarboxylaseOXYGENASE)
pdb|1GEH|E Chain E, Crystal Structure Of Archaeal Rubisco (Ribulose
1,5-Bisphosphate CarboxylaseOXYGENASE)
Length = 444
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 24/102 (23%), Positives = 39/102 (38%), Gaps = 7/102 (6%)
Query: 260 LHPLVFDHGSGPRAGNSFVSVFPRRPGSGALTRERIHAFHHRQSSSNSPGLPTTVVPGLR 319
++ D G P ++VF P G + A ++ +S G TT+ P
Sbjct: 8 IYDYYVDKGYEPSKKRDIIAVFRVTPAEGYTIEQAAGAV----AAESSTGTWTTLYP--- 60
Query: 320 RFDSPRSLPAAVPAPPQHDQNGGFYILPPSSPGHTVHEAENP 361
++ R + A HD G +I+ + P H EA P
Sbjct: 61 WYEQERWADLSAKAYDFHDMGDGSWIVRIAYPFHAFEEANLP 102
>pdb|3A12|A Chain A, Crystal Structure Of Type Iii Rubisco Complexed With
2-Cabp
pdb|3A12|B Chain B, Crystal Structure Of Type Iii Rubisco Complexed With
2-Cabp
pdb|3A12|C Chain C, Crystal Structure Of Type Iii Rubisco Complexed With
2-Cabp
pdb|3A12|D Chain D, Crystal Structure Of Type Iii Rubisco Complexed With
2-Cabp
pdb|3A12|E Chain E, Crystal Structure Of Type Iii Rubisco Complexed With
2-Cabp
pdb|3A12|F Chain F, Crystal Structure Of Type Iii Rubisco Complexed With
2-Cabp
pdb|3A12|G Chain G, Crystal Structure Of Type Iii Rubisco Complexed With
2-Cabp
pdb|3A12|H Chain H, Crystal Structure Of Type Iii Rubisco Complexed With
2-Cabp
pdb|3A12|I Chain I, Crystal Structure Of Type Iii Rubisco Complexed With
2-Cabp
pdb|3A12|J Chain J, Crystal Structure Of Type Iii Rubisco Complexed With
2-Cabp
Length = 444
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 24/102 (23%), Positives = 39/102 (38%), Gaps = 7/102 (6%)
Query: 260 LHPLVFDHGSGPRAGNSFVSVFPRRPGSGALTRERIHAFHHRQSSSNSPGLPTTVVPGLR 319
++ D G P ++VF P G + A ++ +S G TT+ P
Sbjct: 8 IYDYYVDKGYEPSKKRDIIAVFRVTPAEGYTIEQAAGAV----AAESSTGTWTTLYP--- 60
Query: 320 RFDSPRSLPAAVPAPPQHDQNGGFYILPPSSPGHTVHEAENP 361
++ R + A HD G +I+ + P H EA P
Sbjct: 61 WYEQERWADLSAKAYDFHDMGDGSWIVRIAYPFHAFEEANLP 102
>pdb|3A13|A Chain A, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp And Activated With Ca
pdb|3A13|B Chain B, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp And Activated With Ca
pdb|3A13|C Chain C, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp And Activated With Ca
pdb|3A13|D Chain D, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp And Activated With Ca
pdb|3A13|E Chain E, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp And Activated With Ca
pdb|3A13|F Chain F, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp And Activated With Ca
pdb|3A13|G Chain G, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp And Activated With Ca
pdb|3A13|H Chain H, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp And Activated With Ca
pdb|3A13|I Chain I, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp And Activated With Ca
pdb|3A13|J Chain J, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp And Activated With Ca
pdb|3KDN|A Chain A, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp
pdb|3KDN|B Chain B, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp
pdb|3KDN|C Chain C, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp
pdb|3KDN|D Chain D, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp
pdb|3KDN|E Chain E, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp
pdb|3KDN|F Chain F, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp
pdb|3KDN|G Chain G, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp
pdb|3KDN|H Chain H, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp
pdb|3KDN|I Chain I, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp
pdb|3KDN|J Chain J, Crystal Structure Of Type Iii Rubisco Sp4 Mutant Complexed
With 2-Cabp
Length = 444
Score = 28.5 bits (62), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 24/102 (23%), Positives = 39/102 (38%), Gaps = 7/102 (6%)
Query: 260 LHPLVFDHGSGPRAGNSFVSVFPRRPGSGALTRERIHAFHHRQSSSNSPGLPTTVVPGLR 319
++ D G P ++VF P G + A ++ +S G TT+ P
Sbjct: 8 IYDYYVDKGYEPSKKRDIIAVFRVTPAEGYTIEQAAGAV----AAESSTGTWTTLYPW-- 61
Query: 320 RFDSPRSLPAAVPAPPQHDQNGGFYILPPSSPGHTVHEAENP 361
++ R + A HD G +I+ + P H EA P
Sbjct: 62 -YEQERWADLSAKAYDFHDMGDGSWIVRIAYPFHAFEEANLP 102
>pdb|3KDO|A Chain A, Crystal Structure Of Type Iii Rubisco Sp6 Mutant Complexed
With 2-Cabp
pdb|3KDO|B Chain B, Crystal Structure Of Type Iii Rubisco Sp6 Mutant Complexed
With 2-Cabp
pdb|3KDO|C Chain C, Crystal Structure Of Type Iii Rubisco Sp6 Mutant Complexed
With 2-Cabp
pdb|3KDO|D Chain D, Crystal Structure Of Type Iii Rubisco Sp6 Mutant Complexed
With 2-Cabp
pdb|3KDO|E Chain E, Crystal Structure Of Type Iii Rubisco Sp6 Mutant Complexed
With 2-Cabp
pdb|3KDO|F Chain F, Crystal Structure Of Type Iii Rubisco Sp6 Mutant Complexed
With 2-Cabp
pdb|3KDO|G Chain G, Crystal Structure Of Type Iii Rubisco Sp6 Mutant Complexed
With 2-Cabp
pdb|3KDO|H Chain H, Crystal Structure Of Type Iii Rubisco Sp6 Mutant Complexed
With 2-Cabp
pdb|3KDO|I Chain I, Crystal Structure Of Type Iii Rubisco Sp6 Mutant Complexed
With 2-Cabp
pdb|3KDO|J Chain J, Crystal Structure Of Type Iii Rubisco Sp6 Mutant Complexed
With 2-Cabp
Length = 444
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 24/102 (23%), Positives = 39/102 (38%), Gaps = 7/102 (6%)
Query: 260 LHPLVFDHGSGPRAGNSFVSVFPRRPGSGALTRERIHAFHHRQSSSNSPGLPTTVVPGLR 319
++ D G P ++VF P G + A ++ +S G TT+ P
Sbjct: 8 IYDYYVDKGYEPSKKRDIIAVFRVTPAEGYTIEQAAGAV----AAESSTGTWTTLYP--- 60
Query: 320 RFDSPRSLPAAVPAPPQHDQNGGFYILPPSSPGHTVHEAENP 361
++ R + A HD G +I+ + P H EA P
Sbjct: 61 WYEQERWADLSAKAYDFHDMGDGSWIVRIAYPFHAFEEANLP 102
>pdb|2G6Q|A Chain A, Crystal Structure Of Ing2 Phd Domain In Complex With
H3k4me3 Peptide
Length = 62
Score = 28.1 bits (61), Expect = 8.8, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 52 QCGHE-FHLDCIGSAFNMKGAMQCPNCR 78
QC E FH C+ + KG CP CR
Sbjct: 31 QCPIEWFHFSCVSLTYKPKGKWYCPKCR 58
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 0.133 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,357,188
Number of Sequences: 62578
Number of extensions: 633658
Number of successful extensions: 1563
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 1553
Number of HSP's gapped (non-prelim): 31
length of query: 411
length of database: 14,973,337
effective HSP length: 101
effective length of query: 310
effective length of database: 8,652,959
effective search space: 2682417290
effective search space used: 2682417290
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: 53 (25.0 bits)