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= 025106
(258 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KXP|B Chain B, Solution Nmr Structure Of V-1 Bound To Capping Protein
(Cp)
Length = 270
Score = 241 bits (614), Expect = 4e-64, Method: Compositional matrix adjust.
Identities = 125/260 (48%), Positives = 168/260 (64%), Gaps = 18/260 (6%)
Query: 1 MEAAMGLMRRMPPKHSETXXXXXXXXXXXXXXXXXXQVDQPLQVLFDEESGKEFILCEYN 60
++ A+ LMRR+PP+ E VDQPL++ D+ GK+++LC+YN
Sbjct: 5 LDCALDLMRRLPPQQIEKNLSDLIDLVPSLCEDLLSSVDQPLKIARDKVVGKDYLLCDYN 64
Query: 61 RDADSYRSPWSNKYHPPLEDALYPPAELRKLEIEANEVFAIYRDQYYEGGISSVYMWEDD 120
RD DSYRSPWSNKY PPLED P A LRKLE+EAN F YRD Y+EGG+SSVY+W+ D
Sbjct: 65 RDGDSYRSPWSNKYDPPLEDGAMPSARLRKLEVEANNAFDQYRDLYFEGGVSSVYLWDLD 124
Query: 121 NEGFVACFLIKK--DGSKTAQGRRGHLEEGAWDAIHVIEVAPEEEG-IARYCLTSTVMLS 177
+ GF LIKK DGSK + G WD+IHV+EV + G A Y LTSTVML
Sbjct: 125 H-GFAGVILIKKAGDGSKKIK--------GCWDSIHVVEVQEKSSGRTAHYKLTSTVMLW 175
Query: 178 LTTDHESSGTFSLSGSIRRQMNMDLSVSEG--HLCNMGKMIEEMEGKLRNSLDQVYFGKT 235
L T+ SGT +L GS+ RQM D +VS+ H+ N+G+++E+ME K+R++L+++YFGKT
Sbjct: 176 LQTNKTGSGTMNLGGSLTRQMEKDETVSDSSPHIANIGRLVEDMENKIRSTLNEIYFGKT 235
Query: 236 KEMVCTLRPPSEVIMRLPDS 255
K++V LR I +PD+
Sbjct: 236 KDIVNGLRS----IDAIPDN 251
>pdb|1IZN|B Chain B, Crystal Structure Of Actin Filament Capping Protein Capz
pdb|1IZN|D Chain D, Crystal Structure Of Actin Filament Capping Protein Capz
pdb|3LK3|B Chain B, Crystal Structure Of Capz Bound To The Cpi And Csi
Uncapping Motifs From Carmil
pdb|3LK4|B Chain B, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|E Chain E, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|H Chain H, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|K Chain K, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|N Chain N, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|Q Chain Q, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|T Chain T, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|W Chain W, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|Z Chain Z, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|2 Chain 2, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|5 Chain 5, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|8 Chain 8, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|2KZ7|B Chain B, Solution Structure Of The Carmil Cah3aB DOMAIN BOUND TO
CAPPING Protein (Cp)
pdb|3AAA|B Chain B, Crystal Structure Of Actin Capping Protein In Complex With
V-1
pdb|3AAE|B Chain B, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|D Chain D, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|F Chain F, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|H Chain H, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|J Chain J, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
Length = 277
Score = 240 bits (613), Expect = 4e-64, Method: Compositional matrix adjust.
Identities = 122/248 (49%), Positives = 163/248 (65%), Gaps = 14/248 (5%)
Query: 1 MEAAMGLMRRMPPKHSETXXXXXXXXXXXXXXXXXXQVDQPLQVLFDEESGKEFILCEYN 60
++ A+ LMRR+PP+ E VDQPL++ D+ GK+++LC+YN
Sbjct: 6 LDCALDLMRRLPPQQIEKNLSDLIDLVPSLCEDLLSSVDQPLKIARDKVVGKDYLLCDYN 65
Query: 61 RDADSYRSPWSNKYHPPLEDALYPPAELRKLEIEANEVFAIYRDQYYEGGISSVYMWEDD 120
RD DSYRSPWSNKY PPLED P A LRKLE+EAN F YRD Y+EGG+SSVY+W+ D
Sbjct: 66 RDGDSYRSPWSNKYDPPLEDGAMPSARLRKLEVEANNAFDQYRDLYFEGGVSSVYLWDLD 125
Query: 121 NEGFVACFLIKK--DGSKTAQGRRGHLEEGAWDAIHVIEVAPEEEG-IARYCLTSTVMLS 177
+ GF LIKK DGSK + G WD+IHV+EV + G A Y LTSTVML
Sbjct: 126 H-GFAGVILIKKAGDGSKKIK--------GCWDSIHVVEVQEKSSGRTAHYKLTSTVMLW 176
Query: 178 LTTDHESSGTFSLSGSIRRQMNMDLSVSEG--HLCNMGKMIEEMEGKLRNSLDQVYFGKT 235
L T+ SGT +L GS+ RQM D +VS+ H+ N+G+++E+ME K+R++L+++YFGKT
Sbjct: 177 LQTNKTGSGTMNLGGSLTRQMEKDETVSDSSPHIANIGRLVEDMENKIRSTLNEIYFGKT 236
Query: 236 KEMVCTLR 243
K++V LR
Sbjct: 237 KDIVNGLR 244
>pdb|3AA0|B Chain B, Crystal Structure Of Actin Capping Protein In Complex With
The Cp- Binding Motif Derived From Carmil
pdb|3AA1|B Chain B, Crystal Structure Of Actin Capping Protein In Complex With
The Cp- Binding Motif Derived From Ckip-1
pdb|3AA6|B Chain B, Crystal Structure Of Actin Capping Protein In Complex With
The Cp- Binding Motif Derived From Cd2ap
pdb|3AA7|B Chain B, Crystal Structure Of Actin Capping Protein
Length = 244
Score = 239 bits (611), Expect = 7e-64, Method: Compositional matrix adjust.
Identities = 122/248 (49%), Positives = 163/248 (65%), Gaps = 14/248 (5%)
Query: 1 MEAAMGLMRRMPPKHSETXXXXXXXXXXXXXXXXXXQVDQPLQVLFDEESGKEFILCEYN 60
++ A+ LMRR+PP+ E VDQPL++ D+ GK+++LC+YN
Sbjct: 6 LDCALDLMRRLPPQQIEKNLSDLIDLVPSLCEDLLSSVDQPLKIARDKVVGKDYLLCDYN 65
Query: 61 RDADSYRSPWSNKYHPPLEDALYPPAELRKLEIEANEVFAIYRDQYYEGGISSVYMWEDD 120
RD DSYRSPWSNKY PPLED P A LRKLE+EAN F YRD Y+EGG+SSVY+W+ D
Sbjct: 66 RDGDSYRSPWSNKYDPPLEDGAMPSARLRKLEVEANNAFDQYRDLYFEGGVSSVYLWDLD 125
Query: 121 NEGFVACFLIKK--DGSKTAQGRRGHLEEGAWDAIHVIEVAPEEEG-IARYCLTSTVMLS 177
+ GF LIKK DGSK + G WD+IHV+EV + G A Y LTSTVML
Sbjct: 126 H-GFAGVILIKKAGDGSKKIK--------GCWDSIHVVEVQEKSSGRTAHYKLTSTVMLW 176
Query: 178 LTTDHESSGTFSLSGSIRRQMNMDLSVSEG--HLCNMGKMIEEMEGKLRNSLDQVYFGKT 235
L T+ SGT +L GS+ RQM D +VS+ H+ N+G+++E+ME K+R++L+++YFGKT
Sbjct: 177 LQTNKTGSGTMNLGGSLTRQMEKDETVSDSSPHIANIGRLVEDMENKIRSTLNEIYFGKT 236
Query: 236 KEMVCTLR 243
K++V LR
Sbjct: 237 KDIVNGLR 244
>pdb|3LK2|B Chain B, Crystal Structure Of Capz Bound To The Uncapping Motif
From Carmil
Length = 243
Score = 238 bits (606), Expect = 4e-63, Method: Compositional matrix adjust.
Identities = 121/247 (48%), Positives = 162/247 (65%), Gaps = 14/247 (5%)
Query: 1 MEAAMGLMRRMPPKHSETXXXXXXXXXXXXXXXXXXQVDQPLQVLFDEESGKEFILCEYN 60
++ A+ LMRR+PP+ E VDQPL++ D+ GK+++LC+YN
Sbjct: 6 LDCALDLMRRLPPQQIEKNLSDLIDLVPSLCEDLLSSVDQPLKIARDKVVGKDYLLCDYN 65
Query: 61 RDADSYRSPWSNKYHPPLEDALYPPAELRKLEIEANEVFAIYRDQYYEGGISSVYMWEDD 120
RD DSYRSPWSNKY PPLED P A LRKLE+EAN F YRD Y+EGG+SSVY+W+ D
Sbjct: 66 RDGDSYRSPWSNKYDPPLEDGAMPSARLRKLEVEANNAFDQYRDLYFEGGVSSVYLWDLD 125
Query: 121 NEGFVACFLIKK--DGSKTAQGRRGHLEEGAWDAIHVIEVAPEEEG-IARYCLTSTVMLS 177
+ GF LIKK DGSK + G WD+IHV+EV + G A Y LTSTVML
Sbjct: 126 H-GFAGVILIKKAGDGSKKIK--------GCWDSIHVVEVQEKSSGRTAHYKLTSTVMLW 176
Query: 178 LTTDHESSGTFSLSGSIRRQMNMDLSVSEG--HLCNMGKMIEEMEGKLRNSLDQVYFGKT 235
L T+ SGT +L GS+ RQM D +VS+ H+ N+G+++E+ME K+R++L+++YFGKT
Sbjct: 177 LQTNKTGSGTMNLGGSLTRQMEKDETVSDSSPHIANIGRLVEDMENKIRSTLNEIYFGKT 236
Query: 236 KEMVCTL 242
K++V L
Sbjct: 237 KDIVNGL 243
>pdb|4AKR|B Chain B, Crystal Structure Of The Cytoplasmic Actin Capping Protein
Cap32_34 From Dictyostelium Discoideum
pdb|4AKR|D Chain D, Crystal Structure Of The Cytoplasmic Actin Capping Protein
Cap32_34 From Dictyostelium Discoideum
Length = 290
Score = 236 bits (601), Expect = 1e-62, Method: Compositional matrix adjust.
Identities = 117/246 (47%), Positives = 162/246 (65%), Gaps = 8/246 (3%)
Query: 1 MEAAMGLMRRMPPKHSETXXXXXXXXXXXXXXXXXXQVDQPLQVLFDEESGKEFILCEYN 60
+ + LMRR+PP E +DQPL+V +D S K+++LC+YN
Sbjct: 24 LSCCLDLMRRLPPSQIEDNLAGLLDLVPDLTEDLLSSIDQPLKVAYDAVSKKDYLLCDYN 83
Query: 61 RDADSYRSPWSNKYHPPLEDALYPPAELRKLEIEANEVFAIYRDQYYEGGISSVYMWE-D 119
RDADSYRSPWSNKY PPL A YP ++LR +E++ANE+F IY + Y+EGG+SSVY W+ D
Sbjct: 84 RDADSYRSPWSNKYDPPLSGACYPSSKLRDIEVQANEIFEIYLNLYFEGGVSSVYCWDLD 143
Query: 120 DNEGFVACFLIKKDGSKTAQGRRGHLEEGAWDAIHVIEVAPEEEGIARYCLTSTVMLSLT 179
DN F A L+KK Q ++G G WD+IHV+EV ++ A Y LTSTVMLS+
Sbjct: 144 DN--FAAVVLMKK---TQDQSKKGQPMRGTWDSIHVVEVKLGKKDKAVYKLTSTVMLSIE 198
Query: 180 TDHESSGTFSLSGSIRRQMNMDLSVSE--GHLCNMGKMIEEMEGKLRNSLDQVYFGKTKE 237
TD++++G +L+GS+ RQ + + +E H N+GKM+E+ME KLR +L+ +YFGKTKE
Sbjct: 199 TDNDNTGKVNLAGSLTRQDEKEYTFNEVDTHCVNIGKMVEDMESKLRQTLETIYFGKTKE 258
Query: 238 MVCTLR 243
+V TLR
Sbjct: 259 VVNTLR 264
>pdb|3OM4|A Chain A, Crystal Structure Of B. Megaterium Levansucrase Mutant
K373a
pdb|3OM4|B Chain B, Crystal Structure Of B. Megaterium Levansucrase Mutant
K373a
pdb|3OM4|C Chain C, Crystal Structure Of B. Megaterium Levansucrase Mutant
K373a
pdb|3OM4|D Chain D, Crystal Structure Of B. Megaterium Levansucrase Mutant
K373a
Length = 456
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 116 MWEDDNEGFVACFLIKKDGSKTAQGRRGHLEEG 148
+ED++ F FL+ DGSKT+ + LE+G
Sbjct: 417 FYEDNHSTFAPSFLVNIDGSKTSVVKDRVLEQG 449
>pdb|4A0L|A Chain A, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|C Chain C, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 1144
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 44/100 (44%), Gaps = 12/100 (12%)
Query: 111 ISSVYMWEDDN----EGFVACFLIKKDGSKTAQGRRGHLEEGAWDAIHVIEVAPEEEGIA 166
+S+V + +DDN E F+ +KD + T R HL+E H+ E +
Sbjct: 958 MSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGL--FHLGEF------VN 1009
Query: 167 RYCLTSTVMLSLTTDHESSGTFSLSGSIRRQMNMDLSVSE 206
+C S VM +L + L G++ + + S+SE
Sbjct: 1010 VFCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSE 1049
>pdb|3OM5|A Chain A, Crystal Structure Of B. Megaterium Levansucrase Mutant
N252a
pdb|3OM5|B Chain B, Crystal Structure Of B. Megaterium Levansucrase Mutant
N252a
pdb|3OM5|C Chain C, Crystal Structure Of B. Megaterium Levansucrase Mutant
N252a
pdb|3OM5|D Chain D, Crystal Structure Of B. Megaterium Levansucrase Mutant
N252a
Length = 456
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 116 MWEDDNEGFVACFLIKKDGSKTAQGRRGHLEEG 148
+ED++ F FL+ DGSKT+ + LE+G
Sbjct: 417 FYEDNHSTFAPSFLVNIDGSKTSVVKDRVLEQG 449
>pdb|3EI1|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 14 Bp 6-4 Photoproduct
Containing Dna-Duplex
pdb|3EI2|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Abasic Site
Containing Dna-Duplex
pdb|3EI3|A Chain A, Structure Of The Hsddb1-Drddb2 Complex
Length = 1158
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 44/100 (44%), Gaps = 12/100 (12%)
Query: 111 ISSVYMWEDDN----EGFVACFLIKKDGSKTAQGRRGHLEEGAWDAIHVIEVAPEEEGIA 166
+S+V + +DDN E F+ +KD + T R HL+E H+ E +
Sbjct: 972 MSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGL--FHLGEF------VN 1023
Query: 167 RYCLTSTVMLSLTTDHESSGTFSLSGSIRRQMNMDLSVSE 206
+C S VM +L + L G++ + + S+SE
Sbjct: 1024 VFCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSE 1063
>pdb|4A08|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 13 Bp Cpd-Duplex (
Purine At D-1 Position) At 3.0 A Resolution (Cpd 1)
pdb|4A09|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 15 Bp Cpd-Duplex
(Purine At D-1 Position) At 3.1 A Resolution (Cpd 2)
Length = 1159
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 44/100 (44%), Gaps = 12/100 (12%)
Query: 111 ISSVYMWEDDN----EGFVACFLIKKDGSKTAQGRRGHLEEGAWDAIHVIEVAPEEEGIA 166
+S+V + +DDN E F+ +KD + T R HL+E H+ E +
Sbjct: 973 MSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGL--FHLGEF------VN 1024
Query: 167 RYCLTSTVMLSLTTDHESSGTFSLSGSIRRQMNMDLSVSE 206
+C S VM +L + L G++ + + S+SE
Sbjct: 1025 VFCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSE 1064
>pdb|3OM2|A Chain A, Crystal Structure Of B. Megaterium Levansucrase Mutant
D257a
Length = 456
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 116 MWEDDNEGFVACFLIKKDGSKTAQGRRGHLEEG 148
+ED++ F FL+ DGSKT+ + LE+G
Sbjct: 417 FYEDNHSTFAPSFLVNIDGSKTSVVKDRVLEQG 449
>pdb|3E0C|A Chain A, Crystal Structure Of Dna Damage-Binding Protein 1(Ddb1)
Length = 1140
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 44/100 (44%), Gaps = 12/100 (12%)
Query: 111 ISSVYMWEDDN----EGFVACFLIKKDGSKTAQGRRGHLEEGAWDAIHVIEVAPEEEGIA 166
+S+V + +DDN E F+ +KD + T R HL+E H+ E +
Sbjct: 954 MSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGL--FHLGEF------VN 1005
Query: 167 RYCLTSTVMLSLTTDHESSGTFSLSGSIRRQMNMDLSVSE 206
+C S VM +L + L G++ + + S+SE
Sbjct: 1006 VFCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSE 1045
>pdb|4E54|A Chain A, Damaged Dna Induced Uv-Damaged Dna-Binding Protein (Uv-Ddb)
Dimerization And Its Roles In Chromatinized Dna Repair
pdb|4E5Z|A Chain A, Damaged Dna Induced Uv-Damaged Dna-Binding Protein (Uv-Ddb)
Dimerization And Its Roles In Chromatinized Dna Repair
Length = 1150
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 44/100 (44%), Gaps = 12/100 (12%)
Query: 111 ISSVYMWEDDN----EGFVACFLIKKDGSKTAQGRRGHLEEGAWDAIHVIEVAPEEEGIA 166
+S+V + +DDN E F+ +KD + T R HL+E H+ E +
Sbjct: 964 MSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGL--FHLGEF------VN 1015
Query: 167 RYCLTSTVMLSLTTDHESSGTFSLSGSIRRQMNMDLSVSE 206
+C S VM +L + L G++ + + S+SE
Sbjct: 1016 VFCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSE 1055
>pdb|4A0B|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.8 A Resolution (Cpd 4)
pdb|4A0B|C Chain C, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.8 A Resolution (Cpd 4)
Length = 1159
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 44/100 (44%), Gaps = 12/100 (12%)
Query: 111 ISSVYMWEDDN----EGFVACFLIKKDGSKTAQGRRGHLEEGAWDAIHVIEVAPEEEGIA 166
+S+V + +DDN E F+ +KD + T R HL+E H+ E +
Sbjct: 973 MSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGL--FHLGEF------VN 1024
Query: 167 RYCLTSTVMLSLTTDHESSGTFSLSGSIRRQMNMDLSVSE 206
+C S VM +L + L G++ + + S+SE
Sbjct: 1025 VFCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSE 1064
>pdb|3OM6|A Chain A, Crystal Structure Of B. Megaterium Levansucrase Mutant
Y247a
pdb|3OM6|B Chain B, Crystal Structure Of B. Megaterium Levansucrase Mutant
Y247a
pdb|3OM6|C Chain C, Crystal Structure Of B. Megaterium Levansucrase Mutant
Y247a
pdb|3OM6|D Chain D, Crystal Structure Of B. Megaterium Levansucrase Mutant
Y247a
Length = 456
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 116 MWEDDNEGFVACFLIKKDGSKTAQGRRGHLEEG 148
+ED++ F FL+ DGSKT+ + LE+G
Sbjct: 417 FYEDNHSTFAPSFLVNIDGSKTSVVKDRVLEQG 449
>pdb|4A11|A Chain A, Structure Of The Hsddb1-Hscsa Complex
pdb|4A0K|C Chain C, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 1159
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 44/100 (44%), Gaps = 12/100 (12%)
Query: 111 ISSVYMWEDDN----EGFVACFLIKKDGSKTAQGRRGHLEEGAWDAIHVIEVAPEEEGIA 166
+S+V + +DDN E F+ +KD + T R HL+E H+ E +
Sbjct: 973 MSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGL--FHLGEF------VN 1024
Query: 167 RYCLTSTVMLSLTTDHESSGTFSLSGSIRRQMNMDLSVSE 206
+C S VM +L + L G++ + + S+SE
Sbjct: 1025 VFCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSE 1064
>pdb|4A0A|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.6 A Resolution (Cpd 3)
Length = 1159
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 44/100 (44%), Gaps = 12/100 (12%)
Query: 111 ISSVYMWEDDN----EGFVACFLIKKDGSKTAQGRRGHLEEGAWDAIHVIEVAPEEEGIA 166
+S+V + +DDN E F+ +KD + T R HL+E H+ E +
Sbjct: 973 MSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGL--FHLGEF------VN 1024
Query: 167 RYCLTSTVMLSLTTDHESSGTFSLSGSIRRQMNMDLSVSE 206
+C S VM +L + L G++ + + S+SE
Sbjct: 1025 VFCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSE 1064
>pdb|3I7H|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Hbx
pdb|3I7K|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Whx
pdb|3I7L|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Ddb2
pdb|3I7N|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdtc1
pdb|3I7O|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Iqwd1
pdb|3I7P|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdr40a
pdb|3I89|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdr22
pdb|3I8C|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdr21a
pdb|3I8E|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdr42a
pdb|3I8E|B Chain B, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdr42a
Length = 1143
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 44/100 (44%), Gaps = 12/100 (12%)
Query: 111 ISSVYMWEDDN----EGFVACFLIKKDGSKTAQGRRGHLEEGAWDAIHVIEVAPEEEGIA 166
+S+V + +DDN E F+ +KD + T R HL+E H+ E +
Sbjct: 957 MSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGL--FHLGEF------VN 1008
Query: 167 RYCLTSTVMLSLTTDHESSGTFSLSGSIRRQMNMDLSVSE 206
+C S VM +L + L G++ + + S+SE
Sbjct: 1009 VFCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSE 1048
>pdb|3EI4|A Chain A, Structure Of The Hsddb1-Hsddb2 Complex
pdb|3EI4|C Chain C, Structure Of The Hsddb1-Hsddb2 Complex
pdb|3EI4|E Chain E, Structure Of The Hsddb1-Hsddb2 Complex
Length = 1158
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 44/100 (44%), Gaps = 12/100 (12%)
Query: 111 ISSVYMWEDDN----EGFVACFLIKKDGSKTAQGRRGHLEEGAWDAIHVIEVAPEEEGIA 166
+S+V + +DDN E F+ +KD + T R HL+E H+ E +
Sbjct: 972 MSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGL--FHLGEF------VN 1023
Query: 167 RYCLTSTVMLSLTTDHESSGTFSLSGSIRRQMNMDLSVSE 206
+C S VM +L + L G++ + + S+SE
Sbjct: 1024 VFCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSE 1063
>pdb|2B5L|A Chain A, Crystal Structure Of Ddb1 In Complex With Simian Virus 5 V
Protein
pdb|2B5L|B Chain B, Crystal Structure Of Ddb1 In Complex With Simian Virus 5 V
Protein
pdb|2B5M|A Chain A, Crystal Structure Of Ddb1
pdb|2HYE|A Chain A, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 1140
Score = 28.1 bits (61), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 44/100 (44%), Gaps = 12/100 (12%)
Query: 111 ISSVYMWEDDN----EGFVACFLIKKDGSKTAQGRRGHLEEGAWDAIHVIEVAPEEEGIA 166
+S+V + +DDN E F+ +KD + T R HL+E H+ E +
Sbjct: 954 MSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGL--FHLGEF------VN 1005
Query: 167 RYCLTSTVMLSLTTDHESSGTFSLSGSIRRQMNMDLSVSE 206
+C S VM +L + L G++ + + S+SE
Sbjct: 1006 VFCHGSLVMQNLGETSTPTQGSVLFGTVNGMIGLVTSLSE 1045
>pdb|3OM7|C Chain C, Crystal Structure Of B. Megaterium Levansucrase Mutant
Y247w
pdb|3OM7|A Chain A, Crystal Structure Of B. Megaterium Levansucrase Mutant
Y247w
pdb|3OM7|B Chain B, Crystal Structure Of B. Megaterium Levansucrase Mutant
Y247w
pdb|3OM7|D Chain D, Crystal Structure Of B. Megaterium Levansucrase Mutant
Y247w
Length = 456
Score = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 116 MWEDDNEGFVACFLIKKDGSKTAQGRRGHLEEG 148
+ED++ F FL+ DGSKT+ + LE+G
Sbjct: 417 FYEDNHSTFAPSFLVNIDGSKTSVVKDRVLEQG 449
>pdb|1I1N|A Chain A, Human Protein L-Isoaspartate O-Methyltransferase With S-
Adenosyl Homocysteine
pdb|1KR5|A Chain A, Crystal Structure Of Human L-Isoaspartyl Methyltransferase
Length = 226
Score = 27.7 bits (60), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 137 TAQGRRGHLEEGAWDAIHVIEVAP 160
GR G+ EE +DAIHV AP
Sbjct: 139 VGDGRMGYAEEAPYDAIHVGAAAP 162
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 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,402,562
Number of Sequences: 62578
Number of extensions: 294631
Number of successful extensions: 658
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 627
Number of HSP's gapped (non-prelim): 28
length of query: 258
length of database: 14,973,337
effective HSP length: 97
effective length of query: 161
effective length of database: 8,903,271
effective search space: 1433426631
effective search space used: 1433426631
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: 50 (23.9 bits)