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= 010464
(510 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2O3C|A Chain A, Crystal Structure Of Zebrafish Ape
pdb|2O3C|B Chain B, Crystal Structure Of Zebrafish Ape
pdb|2O3C|C Chain C, Crystal Structure Of Zebrafish Ape
Length = 282
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 47/95 (49%), Gaps = 13/95 (13%)
Query: 58 RRIFVVGDLNIAPAAID-------RCDAGPDFAKNEFRIWFRSMLVESGGSFFDVFRSKH 110
+ + + GDLN+A ID R +AG F E R F + L+E+G F D FR +
Sbjct: 168 KPLVLCGDLNVAHQEIDLKNPKGNRKNAG--FTPEE-REGF-TQLLEAG--FTDSFRELY 221
Query: 111 PERREAYTCWPSNTGAEQFNYGTRIDHILCAGPCL 145
P++ AYT W A N G R+D+ + + L
Sbjct: 222 PDQAYAYTFWTYMMNARSKNVGWRLDYFVLSSALL 256
>pdb|2JC4|A Chain A, 3'-5' Exonuclease (Nexo) From Neisseria Meningitidis
Length = 256
Score = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 31/88 (35%), Positives = 41/88 (46%), Gaps = 10/88 (11%)
Query: 59 RIFVVGDLNIAPAAIDRCDAGPDFAK----NEFRIWFRSMLVESGGSFFDVFRSKHPERR 114
++ ++GD NIAPA D D K + R WF+++L D R HPE
Sbjct: 140 KLVLLGDFNIAPADADCYDPEKWHEKIHCSSVERQWFQNLL---DLGLTDSLRQVHPE-- 194
Query: 115 EAYTCWPSNTGAE-QFNYGTRIDHILCA 141
A+ W GA Q G RIDHIL +
Sbjct: 195 GAFYTWFDYRGAMFQRKLGLRIDHILVS 222
>pdb|2J63|A Chain A, Crystal Structure Of Ap Endonuclease Lmap From Leishmania
Major
pdb|2J63|B Chain B, Crystal Structure Of Ap Endonuclease Lmap From Leishmania
Major
Length = 467
Score = 35.8 bits (81), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 37/87 (42%), Gaps = 11/87 (12%)
Query: 63 VGDLNIAPAAIDRCDAGP--------DFAKNEFRIWFRSMLVESGGSFFDVFRSKHPERR 114
GDLN+A DR AG FA E R+ FR + + D+FR +P+
Sbjct: 353 AGDLNVAERDYDRYYAGTFKSMQECSGFAPEE-RMSFRETMQRTNS--VDIFRQLYPQAG 409
Query: 115 EAYTCWPSNTGAEQFNYGTRIDHILCA 141
Y+ W N G R+D+ + +
Sbjct: 410 PVYSFWSQRINGRPRNLGWRLDYFVVS 436
>pdb|2JC5|A Chain A, Apurinic Apyrimidinic (Ap) Endonuclease (Nape) From
Neisseria Meningitidis
pdb|4B5F|A Chain A, Substrate Bound Neisseria Ap Endonuclease In Absence Of
Metal Ions (Crystal Form 1)
pdb|4B5G|A Chain A, Substrate Bound Neisseria Ap Endonuclease In Absence Of
Metal Ions (Crystal Form 2)
pdb|4B5G|B Chain B, Substrate Bound Neisseria Ap Endonuclease In Absence Of
Metal Ions (Crystal Form 2)
pdb|4B5G|C Chain C, Substrate Bound Neisseria Ap Endonuclease In Absence Of
Metal Ions (Crystal Form 2)
pdb|4B5I|A Chain A, Product Complex Of Neisseria Ap Endonuclease In Presence
Of Metal Ions
pdb|4B5J|A Chain A, Neisseria Ap Endonuclease Bound To The Substrate With An
Orphan Adenine Base
pdb|4B5M|A Chain A, Neisseria Ap Endonuclease Bound To The Substrate With A
Cytosine Orphan Base
pdb|4B5M|B Chain B, Neisseria Ap Endonuclease Bound To The Substrate With A
Cytosine Orphan Base
pdb|4B5M|C Chain C, Neisseria Ap Endonuclease Bound To The Substrate With A
Cytosine Orphan Base
Length = 259
Score = 35.0 bits (79), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 31/112 (27%), Positives = 53/112 (47%), Gaps = 9/112 (8%)
Query: 33 RIQLEFNLSFSSSMYYRWEFLLCQGRRIFVVGDLNIAPAAIDRCDAGPDFAKNEF----R 88
R Q+++ F + Y E + +GR I V GD NIA ID + + + F R
Sbjct: 119 RQQVKYR--FLDAFYPMLEAMKNEGRDIVVCGDWNIAHQNIDLKNWKGNQKNSGFLPEER 176
Query: 89 IWFRSMLVESGGSFFDVFRSKHPERREAYTCWPSNTGAEQFNYGTRIDHILC 140
W ++ + G + D++R+ +P+ YT W + A + G RID+ +
Sbjct: 177 EWIGKVIHKLG--WTDMWRTLYPD-VPGYTWWSNRGQAYAKDVGWRIDYQMV 225
>pdb|2VOA|A Chain A, Structure Of An Ap Endonuclease From Archaeoglobus
Fulgidus
pdb|2VOA|B Chain B, Structure Of An Ap Endonuclease From Archaeoglobus
Fulgidus
Length = 257
Score = 33.9 bits (76), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 32/88 (36%), Positives = 40/88 (45%), Gaps = 13/88 (14%)
Query: 64 GDLNIAPAAIDRCDAGPDFAKN------EFRIWFRSMLVESGGSFFDVFRSKHPERREAY 117
GD+N+AP ID PD KN + R ++ +L E G F DV R HP R Y
Sbjct: 145 GDMNVAPEPIDV--HSPDKLKNHVXFHEDARRAYKKIL-ELG--FVDVLRKIHPNER-IY 198
Query: 118 TCWPSNT-GAEQFNYGTRIDHILCAGPC 144
T + GA + G R D IL P
Sbjct: 199 TFYDYRVKGAIERGLGWRGDAILATPPL 226
>pdb|1DE8|B Chain B, Human ApurinicAPYRIMIDINIC ENDONUCLEASE-1 (Ape1) Bound To
Abasic Dna
pdb|1DE8|A Chain A, Human ApurinicAPYRIMIDINIC ENDONUCLEASE-1 (Ape1) Bound To
Abasic Dna
pdb|1DE9|A Chain A, Human Ape1 Endonuclease With Bound Abasic Dna And Mn2+ Ion
pdb|1DE9|B Chain B, Human Ape1 Endonuclease With Bound Abasic Dna And Mn2+ Ion
Length = 276
Score = 33.1 bits (74), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 29/95 (30%), Positives = 40/95 (42%), Gaps = 12/95 (12%)
Query: 54 LCQGRRIFVVGDLNIAPAAID-------RCDAGPDFAKNEFRIWFRSMLVESGGSFFDVF 106
L + + + GDLN+A ID + +AG F E R F +L D F
Sbjct: 157 LASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAG--FTPQE-RQGFGELL--QAVPLADSF 211
Query: 107 RSKHPERREAYTCWPSNTGAEQFNYGTRIDHILCA 141
R +P AYT W A N G R+D+ L +
Sbjct: 212 RHLYPNTPYAYTFWTYMMNARSKNVGWRLDYFLLS 246
>pdb|4B5H|A Chain A, Substate Bound Inactive Mutant Of Neisseria Ap
Endonuclease In Presence Of Metal Ions
Length = 259
Score = 33.1 bits (74), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 30/112 (26%), Positives = 53/112 (47%), Gaps = 9/112 (8%)
Query: 33 RIQLEFNLSFSSSMYYRWEFLLCQGRRIFVVGDLNIAPAAIDRCDAGPDFAKNEF----R 88
R Q+++ F + Y E + +GR I V G+ NIA ID + + + F R
Sbjct: 119 RQQVKYR--FLDAFYPMLEAMKNEGRDIVVCGNWNIAHQNIDLKNWKGNQKNSGFLPEER 176
Query: 89 IWFRSMLVESGGSFFDVFRSKHPERREAYTCWPSNTGAEQFNYGTRIDHILC 140
W ++ + G + D++R+ +P+ YT W + A + G RID+ +
Sbjct: 177 EWIGKVIHKLG--WTDMWRTLYPD-VPGYTWWSNRGQAYAKDVGWRIDYQMV 225
>pdb|2O3H|A Chain A, Crystal Structure Of The Human C65a Ape
Length = 285
Score = 33.1 bits (74), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 29/95 (30%), Positives = 40/95 (42%), Gaps = 12/95 (12%)
Query: 54 LCQGRRIFVVGDLNIAPAAID-------RCDAGPDFAKNEFRIWFRSMLVESGGSFFDVF 106
L + + + GDLN+A ID + +AG F E R F +L D F
Sbjct: 166 LASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAG--FTPQE-RQGFGELL--QAVPLADSF 220
Query: 107 RSKHPERREAYTCWPSNTGAEQFNYGTRIDHILCA 141
R +P AYT W A N G R+D+ L +
Sbjct: 221 RHLYPNTPYAYTFWTYMMNARSKNVGWRLDYFLLS 255
>pdb|1BIX|A Chain A, The Crystal Structure Of The Human Dna Repair Endonuclease
Hap1 Suggests The Recognition Of Extra-Helical
Deoxyribose At Dna Abasic Sites
Length = 287
Score = 33.1 bits (74), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 29/95 (30%), Positives = 40/95 (42%), Gaps = 12/95 (12%)
Query: 54 LCQGRRIFVVGDLNIAPAAID-------RCDAGPDFAKNEFRIWFRSMLVESGGSFFDVF 106
L + + + GDLN+A ID + +AG F E R F +L D F
Sbjct: 168 LASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAG--FTPQE-RQGFGELL--QAVPLADSF 222
Query: 107 RSKHPERREAYTCWPSNTGAEQFNYGTRIDHILCA 141
R +P AYT W A N G R+D+ L +
Sbjct: 223 RHLYPNTPYAYTFWTYMMNARSKNVGWRLDYFLLS 257
>pdb|1DEW|A Chain A, Crystal Structure Of Human Ape1 Bound To Abasic Dna
pdb|1DEW|B Chain B, Crystal Structure Of Human Ape1 Bound To Abasic Dna
Length = 279
Score = 33.1 bits (74), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 29/95 (30%), Positives = 40/95 (42%), Gaps = 12/95 (12%)
Query: 54 LCQGRRIFVVGDLNIAPAAID-------RCDAGPDFAKNEFRIWFRSMLVESGGSFFDVF 106
L + + + GDLN+A ID + +AG F E R F +L D F
Sbjct: 160 LASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAG--FTPQE-RQGFGELL--QAVPLADSF 214
Query: 107 RSKHPERREAYTCWPSNTGAEQFNYGTRIDHILCA 141
R +P AYT W A N G R+D+ L +
Sbjct: 215 RHLYPNTPYAYTFWTYMMNARSKNVGWRLDYFLLS 249
>pdb|2ISI|A Chain A, Crystal Structure Of Ape1 From Homo Sapiens In A New
Crystal Form Complexed With A Ligand
pdb|2ISI|B Chain B, Crystal Structure Of Ape1 From Homo Sapiens In A New
Crystal Form Complexed With A Ligand
pdb|2ISI|C Chain C, Crystal Structure Of Ape1 From Homo Sapiens In A New
Crystal Form Complexed With A Ligand
pdb|4IEM|A Chain A, Human Apurinic/apyrimidinic Endonuclease (ape1) With
Product Dna And Mg2+
pdb|4IEM|B Chain B, Human Apurinic/apyrimidinic Endonuclease (ape1) With
Product Dna And Mg2+
pdb|4IEM|C Chain C, Human Apurinic/apyrimidinic Endonuclease (ape1) With
Product Dna And Mg2+
pdb|4IEM|D Chain D, Human Apurinic/apyrimidinic Endonuclease (ape1) With
Product Dna And Mg2+
Length = 317
Score = 33.1 bits (74), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 29/95 (30%), Positives = 40/95 (42%), Gaps = 12/95 (12%)
Query: 54 LCQGRRIFVVGDLNIAPAAID-------RCDAGPDFAKNEFRIWFRSMLVESGGSFFDVF 106
L + + + GDLN+A ID + +AG F E R F +L D F
Sbjct: 198 LASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAG--FTPQE-RQGFGELL--QAVPLADSF 252
Query: 107 RSKHPERREAYTCWPSNTGAEQFNYGTRIDHILCA 141
R +P AYT W A N G R+D+ L +
Sbjct: 253 RHLYPNTPYAYTFWTYMMNARSKNVGWRLDYFLLS 287
>pdb|1E9N|A Chain A, A Second Divalent Metal Ion In The Active Site Of A New
Crystal Form Of Human ApurinicAPYRIMIDINIC ENDONUCLEASE,
Ape1, And Its Implications For The Catalytic Mechanism
pdb|1E9N|B Chain B, A Second Divalent Metal Ion In The Active Site Of A New
Crystal Form Of Human ApurinicAPYRIMIDINIC ENDONUCLEASE,
Ape1, And Its Implications For The Catalytic Mechanism
pdb|1HD7|A Chain A, A Second Divalent Metal Ion In The Active Site Of A New
Crystal Form Of Human ApurinicAPYRIDINIMIC ENDONUCLEASE,
Ape1, And Its Implications For The Catalytic Mechanism
pdb|3U8U|A Chain A, Crystal Structure Of Human ApurinicAPYRIDINIMIC
ENDONUCLEASE, APE1 IN A New Crystal Form
pdb|3U8U|B Chain B, Crystal Structure Of Human ApurinicAPYRIDINIMIC
ENDONUCLEASE, APE1 IN A New Crystal Form
pdb|3U8U|C Chain C, Crystal Structure Of Human ApurinicAPYRIDINIMIC
ENDONUCLEASE, APE1 IN A New Crystal Form
pdb|3U8U|D Chain D, Crystal Structure Of Human ApurinicAPYRIDINIMIC
ENDONUCLEASE, APE1 IN A New Crystal Form
pdb|3U8U|E Chain E, Crystal Structure Of Human ApurinicAPYRIDINIMIC
ENDONUCLEASE, APE1 IN A New Crystal Form
pdb|3U8U|F Chain F, Crystal Structure Of Human ApurinicAPYRIDINIMIC
ENDONUCLEASE, APE1 IN A New Crystal Form
Length = 318
Score = 33.1 bits (74), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 29/95 (30%), Positives = 40/95 (42%), Gaps = 12/95 (12%)
Query: 54 LCQGRRIFVVGDLNIAPAAID-------RCDAGPDFAKNEFRIWFRSMLVESGGSFFDVF 106
L + + + GDLN+A ID + +AG F E R F +L D F
Sbjct: 199 LASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAG--FTPQE-RQGFGELL--QAVPLADSF 253
Query: 107 RSKHPERREAYTCWPSNTGAEQFNYGTRIDHILCA 141
R +P AYT W A N G R+D+ L +
Sbjct: 254 RHLYPNTPYAYTFWTYMMNARSKNVGWRLDYFLLS 288
>pdb|1AKO|A Chain A, Exonuclease Iii From Escherichia Coli
Length = 268
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 39/93 (41%), Gaps = 9/93 (9%)
Query: 60 IFVVGDLNIAPAAIDRCDAGPDFAKNEFRIWFRSMLVES--------GGSFFDVFRSKHP 111
+ ++GD+NI+P +D G + K R S L E D FR +P
Sbjct: 146 VLIMGDMNISPTDLD-IGIGEENRKRWLRTGKCSFLPEEREWMDRLMSWGLVDTFRHANP 204
Query: 112 ERREAYTCWPSNTGAEQFNYGTRIDHILCAGPC 144
+ + ++ + + N G RID +L + P
Sbjct: 205 QTADRFSWFDYRSKGFDDNRGLRIDLLLASQPL 237
>pdb|3FZI|A Chain A, 1.9 Angstrom Structure Of The Thermophilic Exonuclease Iii
Homologue Mth0212
pdb|3G0A|A Chain A, Mth0212 With Two Bound Manganese Ions
pdb|3G1K|A Chain A, Mth0212 (Wt) Crystallized In A Monoclinic Space Group
pdb|3G1K|B Chain B, Mth0212 (Wt) Crystallized In A Monoclinic Space Group
pdb|3G2C|A Chain A, Mth0212 In Complex With A Short Ssdna (Cgta)
pdb|3G2C|B Chain B, Mth0212 In Complex With A Short Ssdna (Cgta)
pdb|3G3C|A Chain A, Mth0212 (Wt) In Complex With A 6bp Dsdna Containing A
Single One Nucleotide Long 3'-Overhang
pdb|3G3C|B Chain B, Mth0212 (Wt) In Complex With A 6bp Dsdna Containing A
Single One Nucleotide Long 3'-Overhang
pdb|3G3Y|A Chain A, Mth0212 In Complex With Ssdna In Space Group P32
pdb|3G3Y|B Chain B, Mth0212 In Complex With Ssdna In Space Group P32
pdb|3G4T|A Chain A, Mth0212 (Wt) In Complex With A 7bp Dsdna
pdb|3G4T|B Chain B, Mth0212 (Wt) In Complex With A 7bp Dsdna
Length = 265
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 38/88 (43%), Gaps = 8/88 (9%)
Query: 57 GRRIFVVGDLNIAPAAIDRCDAGPDFAKNEF----RIWFRSMLVESGGSFFDVFRSKHPE 112
GR + + GD N A ID + + F R W +E+G + D FR + +
Sbjct: 143 GRNVIICGDFNTAHREIDLARPKENSNVSGFLPVERAWI-DKFIENG--YVDTFRMFNSD 199
Query: 113 RREAYTCWPSNTGAEQFNYGTRIDHILC 140
+ YT W T A + N G R+D+
Sbjct: 200 PGQ-YTWWSYRTRARERNVGWRLDYFFV 226
>pdb|3G91|A Chain A, 1.2 Angstrom Structure Of The Exonuclease Iii Homologue
Mth0212
Length = 265
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 38/88 (43%), Gaps = 8/88 (9%)
Query: 57 GRRIFVVGDLNIAPAAIDRCDAGPDFAKNEF----RIWFRSMLVESGGSFFDVFRSKHPE 112
GR + + GD N A ID + + F R W +E+G + D FR + +
Sbjct: 143 GRNVIICGDFNTAHREIDLARPKENSNVSGFLPVERAWI-DKFIENG--YVDTFRMFNSD 199
Query: 113 RREAYTCWPSNTGAEQFNYGTRIDHILC 140
+ YT W T A + N G R+D+
Sbjct: 200 PGQ-YTWWSYRTRARERNVGWRLDYFFV 226
>pdb|1NYP|A Chain A, 4th Lim Domain Of Pinch Protein
pdb|1U5S|B Chain B, Nmr Structure Of The Complex Between Nck-2 Sh3 Domain And
Pinch-1 Lim4 Domain
Length = 66
Score = 30.8 bits (68), Expect = 1.9, Method: Composition-based stats.
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 454 IPLCKGHKEPCVARVVKKPGPTFGRRFFVCARAEGP 489
+P+C + P RVV G + FVCA+ E P
Sbjct: 5 VPICGACRRPIEGRVVNAMGKQWHVEHFVCAKCEKP 40
>pdb|1EZV|X Chain X, Structure Of The Yeast Cytochrome Bc1 Complex Co-
Crystallized With An Antibody Fv-Fragment
pdb|1KYO|J Chain J, Yeast Cytochrome Bc1 Complex With Bound Substrate
Cytochrome C
pdb|1KYO|U Chain U, Yeast Cytochrome Bc1 Complex With Bound Substrate
Cytochrome C
pdb|1KB9|J Chain J, Yeast Cytochrome Bc1 Complex
pdb|1P84|J Chain J, Hdbt Inhibited Yeast Cytochrome Bc1 Complex
pdb|2IBZ|X Chain X, Yeast Cytochrome Bc1 Complex With Stigmatellin
pdb|3CX5|J Chain J, Structure Of Complex Iii With Bound Cytochrome C In
Reduced State And Definition Of A Minimal Core Interface
For Electron Transfer.
pdb|3CX5|U Chain U, Structure Of Complex Iii With Bound Cytochrome C In
Reduced State And Definition Of A Minimal Core Interface
For Electron Transfer.
pdb|3CXH|J Chain J, Structure Of Yeast Complex Iii With Isoform-2 Cytochrome C
Bound And Definition Of A Minimal Core Interface For
Electron Transfer.
pdb|3CXH|U Chain U, Structure Of Yeast Complex Iii With Isoform-2 Cytochrome C
Bound And Definition Of A Minimal Core Interface For
Electron Transfer
Length = 127
Score = 30.0 bits (66), Expect = 3.2, Method: Composition-based stats.
Identities = 19/68 (27%), Positives = 31/68 (45%), Gaps = 5/68 (7%)
Query: 41 SFSSSMYYRWEFLLCQGRRIFV-----VGDLNIAPAAIDRCDAGPDFAKNEFRIWFRSML 95
S +S Y+ W L + +V VGD N P+ DR D +KN+F + S+
Sbjct: 28 SITSGYYWNWIRLFPGNKLEWVGYISNVGDNNYNPSLKDRLSITRDTSKNQFFLKLNSVT 87
Query: 96 VESGGSFF 103
E +++
Sbjct: 88 TEDTATYY 95
>pdb|3PVL|A Chain A, Structure Of Myosin Viia Myth4-Ferm-Sh3 In Complex With
The Cen1 Of Sans
Length = 655
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 46/100 (46%), Gaps = 8/100 (8%)
Query: 203 LGEVPEIPQHSTPSLASRYLPIIRGVQQTLVSVLMKREV-AKQGKSCKFSGSLPAESNST 261
+G++PE H+ S S +P++ + +TL KRE+ A QG+ ES
Sbjct: 85 MGDLPEPKYHTAMSDGSEKIPVMTKIYETLGKKTYKRELQALQGEGEVTKRLNDGESTVQ 144
Query: 262 GDT--EDCSENVDRSLNNYCDSGILQG-----VYCSSSNQ 294
G++ ED + L+ +GIL+ +YC S Q
Sbjct: 145 GNSMLEDRPTSNLEKLHFIIGNGILRPALRDEIYCQISKQ 184
>pdb|3N75|A Chain A, X-Ray Crystal Structure Of The Escherichia Coli Inducible
Lysine Decarboxylase Ldci
pdb|3N75|B Chain B, X-Ray Crystal Structure Of The Escherichia Coli Inducible
Lysine Decarboxylase Ldci
pdb|3N75|C Chain C, X-Ray Crystal Structure Of The Escherichia Coli Inducible
Lysine Decarboxylase Ldci
pdb|3N75|D Chain D, X-Ray Crystal Structure Of The Escherichia Coli Inducible
Lysine Decarboxylase Ldci
pdb|3N75|E Chain E, X-Ray Crystal Structure Of The Escherichia Coli Inducible
Lysine Decarboxylase Ldci
pdb|3Q16|A Chain A, Linkage Between The Bacterial Acid Stress And Stringent
Responses: The Structure Of The Inducible Lysine
Decarboxylase
pdb|3Q16|B Chain B, Linkage Between The Bacterial Acid Stress And Stringent
Responses: The Structure Of The Inducible Lysine
Decarboxylase
pdb|3Q16|C Chain C, Linkage Between The Bacterial Acid Stress And Stringent
Responses: The Structure Of The Inducible Lysine
Decarboxylase
pdb|3Q16|D Chain D, Linkage Between The Bacterial Acid Stress And Stringent
Responses: The Structure Of The Inducible Lysine
Decarboxylase
pdb|3Q16|E Chain E, Linkage Between The Bacterial Acid Stress And Stringent
Responses: The Structure Of The Inducible Lysine
Decarboxylase
Length = 715
Score = 29.6 bits (65), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 86 EFRIWFRSMLVESGGSFFDVFRSKHPERREAYTCWP 121
+FR + + ES G FFDV++ H + E CWP
Sbjct: 434 KFRKEIKRLRTESDGWFFDVWQPDHIDTTE---CWP 466
>pdb|3G00|A Chain A, Mth0212 In Complex With A 9bp Blunt End Dsdna At 1.7
Angstrom
pdb|3G00|B Chain B, Mth0212 In Complex With A 9bp Blunt End Dsdna At 1.7
Angstrom
pdb|3G0R|A Chain A, Complex Of Mth0212 And An 8bp Dsdna With Distorted Ends
pdb|3G0R|B Chain B, Complex Of Mth0212 And An 8bp Dsdna With Distorted Ends
pdb|3G2D|A Chain A, Complex Of Mth0212 And A 4 Bp Dsdna With 3'-Overhang
pdb|3G2D|B Chain B, Complex Of Mth0212 And A 4 Bp Dsdna With 3'-Overhang
pdb|3G38|A Chain A, The Catalytically Inactive Mutant Mth0212 (D151n) In
Complex With An 8 Bp Dsdna
pdb|3G8V|A Chain A, The Rationally Designed Catalytically Inactive Mutant
Mth0212(D151n)
pdb|3GA6|A Chain A, Mth0212 In Complex With Two Dna Helices
pdb|3GA6|B Chain B, Mth0212 In Complex With Two Dna Helices
Length = 265
Score = 29.3 bits (64), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 38/88 (43%), Gaps = 8/88 (9%)
Query: 57 GRRIFVVGDLNIAPAAIDRCDAGPDFAKNEF----RIWFRSMLVESGGSFFDVFRSKHPE 112
GR + + G+ N A ID + + F R W +E+G + D FR + +
Sbjct: 143 GRNVIICGNFNTAHREIDLARPKENSNVSGFLPVERAWI-DKFIENG--YVDTFRMFNSD 199
Query: 113 RREAYTCWPSNTGAEQFNYGTRIDHILC 140
+ YT W T A + N G R+D+
Sbjct: 200 PGQ-YTWWSYRTRARERNVGWRLDYFFV 226
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 0.133 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,509,351
Number of Sequences: 62578
Number of extensions: 644181
Number of successful extensions: 1236
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1225
Number of HSP's gapped (non-prelim): 21
length of query: 510
length of database: 14,973,337
effective HSP length: 103
effective length of query: 407
effective length of database: 8,527,803
effective search space: 3470815821
effective search space used: 3470815821
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: 54 (25.4 bits)