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= 036083
(404 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3Q0C|X Chain X, Crystal Structure Of Suvh5 Sra-Fully Methylated Cg Dna
Complex In Space Group P6122
pdb|3Q0C|A Chain A, Crystal Structure Of Suvh5 Sra-Fully Methylated Cg Dna
Complex In Space Group P6122
pdb|3Q0F|X Chain X, Crystal Structure Of Suvh5 Sra- Methylated Chh Dna Complex
pdb|3Q0F|A Chain A, Crystal Structure Of Suvh5 Sra- Methylated Chh Dna Complex
pdb|3Q0D|X Chain X, Crystal Structure Of Suvh5 Sra- Hemi Methylated Cg Dna
Complex
pdb|3Q0D|A Chain A, Crystal Structure Of Suvh5 Sra- Hemi Methylated Cg Dna
Complex
Length = 167
Score = 132 bits (331), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 80/173 (46%), Positives = 103/173 (59%), Gaps = 15/173 (8%)
Query: 205 IGDIPGVHVGHQFYSRAEMVAVGFHSHWLNGIDYMGMSYKGDYKNYIFPLAVAIVLSGMY 264
IG +PGV VG +F R E+ +G H +GIDYM K D + A +IV SG Y
Sbjct: 3 IGTVPGVEVGDEFQYRMELNLLGIHRPSQSGIDYM----KDDGGELV---ATSIVSSGGY 55
Query: 265 EDDLDNAEDVVYTGQGGHNLTGDKRQ---IRDQKLERGNLALKNCVDQDLPVRVIRG--- 318
D LDN++ ++YTGQGG+ G K+ +DQ+L GNLALKN +++ PVRVIRG
Sbjct: 56 NDVLDNSDVLIYTGQGGN--VGKKKNNEPPKDQQLVTGNLALKNSINKKNPVRVIRGIKN 113
Query: 319 HDCSSSYTGKVYTYDGLYKVVKYWAEKGLSGFTVFKYRLRRLEGQPILTTNQV 371
SS K Y YDGLY V +YW E G G VFK++LRR+ GQP L +V
Sbjct: 114 TTLQSSVVAKNYVYDGLYLVEEYWEETGSHGKLVFKFKLRRIPGQPELPWKEV 166
>pdb|3Q0B|X Chain X, Crystal Structure Of Suvh5 Sra- Fully Methylated Cg Dna
Complex In Space Group P42212
Length = 167
Score = 129 bits (323), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 79/173 (45%), Positives = 102/173 (58%), Gaps = 15/173 (8%)
Query: 205 IGDIPGVHVGHQFYSRAEMVAVGFHSHWLNGIDYMGMSYKGDYKNYIFPLAVAIVLSGMY 264
IG +PGV VG +F R E+ +G H +GIDY K D + A +IV SG Y
Sbjct: 3 IGTVPGVEVGDEFQYRXELNLLGIHRPSQSGIDYX----KDDGGELV---ATSIVSSGGY 55
Query: 265 EDDLDNAEDVVYTGQGGHNLTGDKRQ---IRDQKLERGNLALKNCVDQDLPVRVIRG--- 318
D LDN++ ++YTGQGG+ G K+ +DQ+L GNLALKN +++ PVRVIRG
Sbjct: 56 NDVLDNSDVLIYTGQGGN--VGKKKNNEPPKDQQLVTGNLALKNSINKKNPVRVIRGIKN 113
Query: 319 HDCSSSYTGKVYTYDGLYKVVKYWAEKGLSGFTVFKYRLRRLEGQPILTTNQV 371
SS K Y YDGLY V +YW E G G VFK++LRR+ GQP L +V
Sbjct: 114 TTLQSSVVAKNYVYDGLYLVEEYWEETGSHGKLVFKFKLRRIPGQPELPWKEV 166
>pdb|3F8J|B Chain B, Mouse Uhrf1 Sra Domain Bound With Hemi-methylated Cpg,
Crystal Structure In Space Group C222(1)
Length = 212
Score = 105 bits (263), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 75/192 (39%), Positives = 96/192 (50%), Gaps = 31/192 (16%)
Query: 199 LYSAKRIGDIPGVHVGHQFYSRAEMVAVGFHSHWLNGIDYMGMSYKGDYKNYIFPLAVAI 258
+ A G IPGV VG + R ++ G H + GI G S G Y ++
Sbjct: 1 IVPANHFGPIPGVPVGTMWRFRVQVSESGVHRPHVAGI--HGRSNDGAY---------SL 49
Query: 259 VLSGMYEDDLDNAEDVVYTGQGGHNLTGDKR---QIRDQKLERGNLALK-NCVD------ 308
VL+G YEDD+DN YTG GG +L+G+KR Q DQKL N AL NC
Sbjct: 50 VLAGGYEDDVDNGNYFTYTGSGGRDLSGNKRTAGQSSDQKLTNNNRALALNCHSPINEKG 109
Query: 309 -------QDLPVRVIR---GHDCSSSYTGKVYTYDGLYKVVKYWAEKGLSGFTVFKYRLR 358
Q PVRV+R G S + YDG+YKVVKYW E+G SGF V++Y LR
Sbjct: 110 AEAEDWRQGKPVRVVRNMKGGKHSKYAPAEGNRYDGIYKVVKYWPERGKSGFLVWRYLLR 169
Query: 359 RLEGQPILTTNQ 370
R + +P T +
Sbjct: 170 RDDTEPEPWTRE 181
>pdb|2ZO0|B Chain B, Mouse Np95 Sra Domain Dna Specific Complex 1
pdb|2ZO1|B Chain B, Mouse Np95 Sra Domain Dna Specific Complex 2
pdb|2ZO2|B Chain B, Mouse Np95 Sra Domain Non-Specific Dna Complex
pdb|3F8I|A Chain A, Mouse Uhrf1 Sra Domain Bound With Hemi-Methylated Cpg,
Crystal Structure In Space Group P21
pdb|3F8I|B Chain B, Mouse Uhrf1 Sra Domain Bound With Hemi-Methylated Cpg,
Crystal Structure In Space Group P21
pdb|3FDE|A Chain A, Mouse Uhrf1 Sra Domain Bound With Hemi-Methylated Cpg Dna,
Crystal Structure In Space Group C222(1) At 1.4 A
Resolution
pdb|3FDE|B Chain B, Mouse Uhrf1 Sra Domain Bound With Hemi-Methylated Cpg Dna,
Crystal Structure In Space Group C222(1) At 1.4 A
Resolution
Length = 212
Score = 105 bits (262), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 75/190 (39%), Positives = 95/190 (50%), Gaps = 31/190 (16%)
Query: 201 SAKRIGDIPGVHVGHQFYSRAEMVAVGFHSHWLNGIDYMGMSYKGDYKNYIFPLAVAIVL 260
A G IPGV VG + R ++ G H + GI G S G Y ++VL
Sbjct: 3 PANHFGPIPGVPVGTMWRFRVQVSESGVHRPHVAGI--HGRSNDGAY---------SLVL 51
Query: 261 SGMYEDDLDNAEDVVYTGQGGHNLTGDKR---QIRDQKLERGNLALK-NCVD-------- 308
+G YEDD+DN YTG GG +L+G+KR Q DQKL N AL NC
Sbjct: 52 AGGYEDDVDNGNYFTYTGSGGRDLSGNKRTAGQSSDQKLTNNNRALALNCHSPINEKGAE 111
Query: 309 -----QDLPVRVIR---GHDCSSSYTGKVYTYDGLYKVVKYWAEKGLSGFTVFKYRLRRL 360
Q PVRV+R G S + YDG+YKVVKYW E+G SGF V++Y LRR
Sbjct: 112 AEDWRQGKPVRVVRNMKGGKHSKYAPAEGNRYDGIYKVVKYWPERGKSGFLVWRYLLRRD 171
Query: 361 EGQPILTTNQ 370
+ +P T +
Sbjct: 172 DTEPEPWTRE 181
>pdb|2ZKD|A Chain A, Crystal Structure Of The Sra Domain Of Mouse Np95 In
Complex With Hemi-Methylated Cpg Dna
pdb|2ZKD|B Chain B, Crystal Structure Of The Sra Domain Of Mouse Np95 In
Complex With Hemi-Methylated Cpg Dna
pdb|2ZKE|A Chain A, Crystal Structure Of The Sra Domain Of Mouse Np95 In
Complex With Hemi-Methylated Cpg Dna
pdb|2ZKF|A Chain A, Crystal Structure Of The Sra Domain Of Mouse Np95 In
Complex With Hemi-Methylated Cpg Dna
pdb|2ZKG|A Chain A, Crystal Structure Of Unliganded Sra Domain Of Mouse Np95
pdb|2ZKG|B Chain B, Crystal Structure Of Unliganded Sra Domain Of Mouse Np95
pdb|2ZKG|C Chain C, Crystal Structure Of Unliganded Sra Domain Of Mouse Np95
pdb|2ZKG|D Chain D, Crystal Structure Of Unliganded Sra Domain Of Mouse Np95
Length = 210
Score = 105 bits (262), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 75/193 (38%), Positives = 96/193 (49%), Gaps = 31/193 (16%)
Query: 198 ILYSAKRIGDIPGVHVGHQFYSRAEMVAVGFHSHWLNGIDYMGMSYKGDYKNYIFPLAVA 257
+ A G IPGV VG + R ++ G H + GI G S G Y +
Sbjct: 13 TIVPANHFGPIPGVPVGTMWRFRVQVSESGVHRPHVAGI--HGRSNDGAY---------S 61
Query: 258 IVLSGMYEDDLDNAEDVVYTGQGGHNLTGDKR---QIRDQKLERGNLALK-NCVD----- 308
+VL+G YEDD+DN YTG GG +L+G+KR Q DQKL N AL NC
Sbjct: 62 LVLAGGYEDDVDNGNYFTYTGSGGRDLSGNKRTAGQSSDQKLTNNNRALALNCHSPINEK 121
Query: 309 --------QDLPVRVIR---GHDCSSSYTGKVYTYDGLYKVVKYWAEKGLSGFTVFKYRL 357
Q PVRV+R G S + YDG+YKVVKYW E+G SGF V++Y L
Sbjct: 122 GAEAEDWRQGKPVRVVRNMKGGKHSKYAPAEGNRYDGIYKVVKYWPERGKSGFLVWRYLL 181
Query: 358 RRLEGQPILTTNQ 370
RR + +P T +
Sbjct: 182 RRDDTEPEPWTRE 194
>pdb|2PB7|A Chain A, Crystal Structure Of The Sra Domain Of The Human Uhrf1
Protein
Length = 239
Score = 101 bits (251), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 74/186 (39%), Positives = 96/186 (51%), Gaps = 32/186 (17%)
Query: 206 GDIPGVHVGHQFYSRAEMVAVGFHSHWLNGIDYMGMSYKGDYKNYIFPLAVAIVLSGMYE 265
G IPG+ VG + R ++ G H + GI G S G Y ++VL+G YE
Sbjct: 15 GPIPGIPVGTMWRFRVQVSESGVHRPHVAGI--HGRSNDGAY---------SLVLAGGYE 63
Query: 266 DDLDNAEDVVYTGQGGHNLTGDKR---QIRDQKLERGNLALK-NCV----DQD------- 310
DD+D+ YTG GG +L+G+KR Q DQKL N AL NC DQ+
Sbjct: 64 DDVDHGNFFTYTGSGGRDLSGNKRTAEQSCDQKLTNTNRALALNCFAPINDQEGAEAKDW 123
Query: 311 ---LPVRVIR---GHDCSSSYTGKVYTYDGLYKVVKYWAEKGLSGFTVFKYRLRRLEGQP 364
PVRV+R G S + YDG+YKVVKYW EKG SGF V++Y LRR + +P
Sbjct: 124 RSGKPVRVVRNVKGGKNSKYAPAEGNRYDGIYKVVKYWPEKGKSGFLVWRYLLRRDDDEP 183
Query: 365 ILTTNQ 370
T +
Sbjct: 184 GPWTKE 189
>pdb|3BI7|A Chain A, Crystal Structure Of The Sra Domain Of E3
Ubiquitin-Protein Ligase Uhrf1
Length = 212
Score = 100 bits (249), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 74/186 (39%), Positives = 96/186 (51%), Gaps = 32/186 (17%)
Query: 206 GDIPGVHVGHQFYSRAEMVAVGFHSHWLNGIDYMGMSYKGDYKNYIFPLAVAIVLSGMYE 265
G IPG+ VG + R ++ G H + GI G S G Y ++VL+G YE
Sbjct: 7 GPIPGIPVGTXWRFRVQVSESGVHRPHVAGI--HGRSNDGAY---------SLVLAGGYE 55
Query: 266 DDLDNAEDVVYTGQGGHNLTGDKR---QIRDQKLERGNLALK-NCV----DQD------- 310
DD+D+ YTG GG +L+G+KR Q DQKL N AL NC DQ+
Sbjct: 56 DDVDHGNFFTYTGSGGRDLSGNKRTAEQSCDQKLTNTNRALALNCFAPINDQEGAEAKDW 115
Query: 311 ---LPVRVIR---GHDCSSSYTGKVYTYDGLYKVVKYWAEKGLSGFTVFKYRLRRLEGQP 364
PVRV+R G S + YDG+YKVVKYW EKG SGF V++Y LRR + +P
Sbjct: 116 RSGKPVRVVRNVKGGKNSKYAPAEGNRYDGIYKVVKYWPEKGKSGFLVWRYLLRRDDDEP 175
Query: 365 ILTTNQ 370
T +
Sbjct: 176 GPWTKE 181
>pdb|3CLZ|A Chain A, The Set And Ring Associated (Sra) Domain Of Uhrf1 Bound To
Methylated Dna
pdb|3CLZ|B Chain B, The Set And Ring Associated (Sra) Domain Of Uhrf1 Bound To
Methylated Dna
pdb|3CLZ|C Chain C, The Set And Ring Associated (Sra) Domain Of Uhrf1 Bound To
Methylated Dna
pdb|3CLZ|D Chain D, The Set And Ring Associated (Sra) Domain Of Uhrf1 Bound To
Methylated Dna
Length = 212
Score = 100 bits (248), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 74/186 (39%), Positives = 96/186 (51%), Gaps = 32/186 (17%)
Query: 206 GDIPGVHVGHQFYSRAEMVAVGFHSHWLNGIDYMGMSYKGDYKNYIFPLAVAIVLSGMYE 265
G IPG+ VG + R ++ G H + GI G S G Y ++VL+G YE
Sbjct: 7 GPIPGIPVGTMWRFRVQVSESGVHRPHVAGI--HGRSNDGAY---------SLVLAGGYE 55
Query: 266 DDLDNAEDVVYTGQGGHNLTGDKR---QIRDQKLERGNLALK-NCV----DQD------- 310
DD+D+ YTG GG +L+G+KR Q DQKL N AL NC DQ+
Sbjct: 56 DDVDHGNFFTYTGSGGRDLSGNKRTAEQSCDQKLTNTNRALALNCFAPINDQEGAEAKDW 115
Query: 311 ---LPVRVIR---GHDCSSSYTGKVYTYDGLYKVVKYWAEKGLSGFTVFKYRLRRLEGQP 364
PVRV+R G S + YDG+YKVVKYW EKG SGF V++Y LRR + +P
Sbjct: 116 RSGKPVRVVRNVKGGKNSKYAPAEGNRYDGIYKVVKYWPEKGKSGFLVWRYLLRRDDDEP 175
Query: 365 ILTTNQ 370
T +
Sbjct: 176 GPWTKE 181
>pdb|3DWH|A Chain A, Structural And Functional Analysis Of Sra Domain
Length = 208
Score = 99.8 bits (247), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 74/186 (39%), Positives = 96/186 (51%), Gaps = 32/186 (17%)
Query: 206 GDIPGVHVGHQFYSRAEMVAVGFHSHWLNGIDYMGMSYKGDYKNYIFPLAVAIVLSGMYE 265
G IPG+ VG + R ++ G H + GI G S G Y ++VL+G YE
Sbjct: 10 GPIPGIPVGTMWRFRVQVSESGVHRPHVAGI--HGRSNDGAY---------SLVLAGGYE 58
Query: 266 DDLDNAEDVVYTGQGGHNLTGDKR---QIRDQKLERGNLALK-NCV----DQD------- 310
DD+D+ YTG GG +L+G+KR Q DQKL N AL NC DQ+
Sbjct: 59 DDVDHGNFFTYTGSGGRDLSGNKRTAEQSCDQKLTNTNRALALNCFAPINDQEGAEAKDW 118
Query: 311 ---LPVRVIR---GHDCSSSYTGKVYTYDGLYKVVKYWAEKGLSGFTVFKYRLRRLEGQP 364
PVRV+R G S + YDG+YKVVKYW EKG SGF V++Y LRR + +P
Sbjct: 119 RSGKPVRVVRNVKGGKNSKYAPAEGNRYDGIYKVVKYWPEKGKSGFLVWRYLLRRDDDEP 178
Query: 365 ILTTNQ 370
T +
Sbjct: 179 GPWTKE 184
>pdb|3OLN|A Chain A, Crystal Structure Of The Sra Domain Of E3
Ubiquitin-Protein Ligase Uhrf2
pdb|3OLN|B Chain B, Crystal Structure Of The Sra Domain Of E3
Ubiquitin-Protein Ligase Uhrf2
Length = 231
Score = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 67/187 (35%), Positives = 89/187 (47%), Gaps = 33/187 (17%)
Query: 206 GDIPGVHVGHQFYSRAEMVAVGFHSHWLNGIDYMGMSYKGDYKNYIFPLAVAIVLSGMYE 265
G IPG+ VG + R ++ G H + GI G S G Y ++VL+G +
Sbjct: 31 GPIPGIPVGSTWRFRVQVSEAGVHRPHVGGI--HGRSNDGAY---------SLVLAGGFA 79
Query: 266 DDLDNAEDVVYTGQGGHNLTGDKR---QIRDQKLERGNLALKNCVDQDL----------- 311
D++D ++ YTG GG NL G+KR DQ L N AL D L
Sbjct: 80 DEVDRGDEFTYTGSGGKNLAGNKRIGAPSADQTLTNMNRALALNCDAPLDDKIGAESRNW 139
Query: 312 ----PVRVIR---GHDCSSSYTGKVYTYDGLYKVVKYWAEKGLS-GFTVFKYRLRRLEGQ 363
PVRVIR G S + YDG+YKVVKYW E S GF V++Y LRR + +
Sbjct: 140 RAGKPVRVIRSFKGRKISKYAPEEGNRYDGIYKVVKYWPEISSSHGFLVWRYLLRRDDVE 199
Query: 364 PILTTNQ 370
P T++
Sbjct: 200 PAPWTSE 206
>pdb|1UOK|A Chain A, Crystal Structure Of B. Cereus Oligo-1,6-Glucosidase
Length = 558
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 28/45 (62%), Gaps = 3/45 (6%)
Query: 335 LYKVVKYWAEKGLSGF--TVFKYRLRRLEGQPILTTNQVRFINGR 377
+Y+++K+W EKG+ GF V + + + EG P + T + +++G
Sbjct: 181 VYEMMKFWLEKGIDGFRMDVINF-ISKEEGLPTVETEEEGYVSGH 224
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
0.319 0.136 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,462,917
Number of Sequences: 62578
Number of extensions: 381534
Number of successful extensions: 800
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 767
Number of HSP's gapped (non-prelim): 11
length of query: 404
length of database: 14,973,337
effective HSP length: 101
effective length of query: 303
effective length of database: 8,652,959
effective search space: 2621846577
effective search space used: 2621846577
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: 53 (25.0 bits)