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= psy13138
(362 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Q33|A Chain A, Crystal Structure Of Human Adp-Ribose Pyrophosphatase
Nudt9
pdb|1QVJ|A Chain A, Structure Of Nudt9 Complexed With Ribose-5-Phosphate
Length = 292
Score = 211 bits (537), Expect = 5e-55, Method: Compositional matrix adjust.
Identities = 115/274 (41%), Positives = 162/274 (59%), Gaps = 8/274 (2%)
Query: 44 YPRSNVTRLKLPKEKYYVWEFALRSYNPEYFVHPSVIGQP-WADSE-NVNKYVNKFNELD 101
YP S V R ++P EK W + Y P + SV+ P WAD + + + + KFNE D
Sbjct: 12 YPGSKVERSQVPNEKVG-WLVEWQDYKPVEYTAVSVLAGPRWADPQISESNFSPKFNEKD 70
Query: 102 GYIDRRRCCNVKYELDYNTGRPLNPSGRTGICGRGLLGRWGPNHSAFLIVTRWFRDHNGD 161
G+++R+ N YE++ GRP NP+GRTG+ GRGLLGRWGPNH+A I+TRW RD +G+
Sbjct: 71 GHVERK-SKNGLYEIE--NGRPRNPAGRTGLVGRGLLGRWGPNHAADPIITRWKRDSSGN 127
Query: 162 KVTMPSSGKPLLEFVTVKFN--GEWGIPGGFIEGKETYMDRGRKEFLEEALNASNMTAKE 219
K+ P SGK +L+FV +K GEW IPGG ++ E ++EF EEALN+ T+ E
Sbjct: 128 KIXHPVSGKHILQFVAIKRKDCGEWAIPGGXVDPGEKISATLKREFGEEALNSLQKTSAE 187
Query: 220 SKSILKHLETVMDDNCHFVYRGYMKDERNTDNAWVEGAVTTVHDKKGEHFMALPLSPGDG 279
+ I + L + + +Y+GY+ D RNTDNAW E HD+ GE L L GD
Sbjct: 188 KREIEEKLHKLFSQDHLVIYKGYVDDPRNTDNAWXETEAVNYHDETGEIXDNLXLEAGDD 247
Query: 280 AEDVKWLIVHSDMTFNPTHKTFMKVVTDIHGAHW 313
A VKW+ ++ + +H F+K+V + AHW
Sbjct: 248 AGKVKWVDINDKLKLYASHSQFIKLVAEKRDAHW 281
>pdb|1U20|A Chain A, Crystal Structure Of Xenopus Laevis Nudix Hydrolase
Nuclear Snorna Decapping Protein X29
pdb|1U20|B Chain B, Crystal Structure Of Xenopus Laevis Nudix Hydrolase
Nuclear Snorna Decapping Protein X29
pdb|2A8T|A Chain A, 2.1 Angstrom Crystal Structure Of The Complex Between The
Nuclear U8 Snorna Decapping Nudix Hydrolase X29,
Manganese And M7g-Ppp-A
pdb|2A8T|B Chain B, 2.1 Angstrom Crystal Structure Of The Complex Between The
Nuclear U8 Snorna Decapping Nudix Hydrolase X29,
Manganese And M7g-Ppp-A
Length = 212
Score = 36.6 bits (83), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 26/44 (59%)
Query: 175 FVTVKFNGEWGIPGGFIEGKETYMDRGRKEFLEEALNASNMTAK 218
+ ++F+G G PGGF++ ++ ++ G K LEE L + T +
Sbjct: 59 LMMMRFDGRLGFPGGFVDTRDISLEEGLKRELEEELGPALATVE 102
>pdb|2A8P|A Chain A, 2.7 Angstrom Crystal Structure Of The Complex Between The
Nuclear Snorna Decapping Nudix Hydrolase X29 And
Manganese
pdb|2A8P|B Chain B, 2.7 Angstrom Crystal Structure Of The Complex Between The
Nuclear Snorna Decapping Nudix Hydrolase X29 And
Manganese
pdb|2A8Q|A Chain A, 2.6 Angstrom Crystal Structure Of The Complex Between The
Nuclear Snorna Decapping Nudix Hydrolase X29 And
Manganese In The Presence Of 7-Methyl-Gdp
pdb|2A8Q|B Chain B, 2.6 Angstrom Crystal Structure Of The Complex Between The
Nuclear Snorna Decapping Nudix Hydrolase X29 And
Manganese In The Presence Of 7-Methyl-Gdp
Length = 212
Score = 36.6 bits (83), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 26/44 (59%)
Query: 175 FVTVKFNGEWGIPGGFIEGKETYMDRGRKEFLEEALNASNMTAK 218
+ ++F+G G PGGF++ ++ ++ G K LEE L + T +
Sbjct: 59 LMMMRFDGRLGFPGGFVDTRDISLEEGLKRELEEELGPALATVE 102
>pdb|2A8R|A Chain A, 2.45 Angstrom Crystal Structure Of The Complex Between The
Nuclear Snorna Decapping Nudix Hydrolase X29 And
Manganese In The Presence Of 7-Methyl-Gtp
pdb|2A8R|B Chain B, 2.45 Angstrom Crystal Structure Of The Complex Between The
Nuclear Snorna Decapping Nudix Hydrolase X29 And
Manganese In The Presence Of 7-Methyl-Gtp
pdb|2A8S|A Chain A, 2.45 Angstrom Crystal Structure Of The Complex Between The
Nuclear Snorna Decapping Nudix Hydrolase X29, Manganese
And Gtp
pdb|2A8S|B Chain B, 2.45 Angstrom Crystal Structure Of The Complex Between The
Nuclear Snorna Decapping Nudix Hydrolase X29, Manganese
And Gtp
Length = 212
Score = 36.6 bits (83), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 26/44 (59%)
Query: 175 FVTVKFNGEWGIPGGFIEGKETYMDRGRKEFLEEALNASNMTAK 218
+ ++F+G G PGGF++ ++ ++ G K LEE L + T +
Sbjct: 59 LMMMRFDGRLGFPGGFVDTRDISLEEGLKRELEEELGPALATVE 102
>pdb|3NZ8|A Chain A, Crystal Structure Of The Hiv-2 Neutralizing Fab Fragment
7c8
pdb|3NZ8|H Chain H, Crystal Structure Of The Hiv-2 Neutralizing Fab Fragment
7c8
Length = 221
Score = 35.8 bits (81), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 40/88 (45%), Gaps = 4/88 (4%)
Query: 197 YMDRGRKEFLEEALNASNMTA-KESKSILKHLETVMDDN--CHFVYRGYMKDERNTDNAW 253
Y G ++ E+ + + +T K S + HL ++ +N +F RGY K+ D W
Sbjct: 52 YPGDGSNKYNEKFKDKATLTVDKSSSTAYMHLSSLTSENSAVYFCARGYGKNVYAMDY-W 110
Query: 254 VEGAVTTVHDKKGEHFMALPLSPGDGAE 281
+G TV K PL+PG A+
Sbjct: 111 GQGTSVTVSSAKTTPPSVYPLAPGSAAQ 138
>pdb|2QJT|B Chain B, Crystal Structure Of A Bifunctional Nmn
AdenylyltransferaseADP RIBOSE PYROPHOSPHATASE COMPLEXED
With Amp And Mn Ion From Francisella Tularensis
pdb|2QJT|A Chain A, Crystal Structure Of A Bifunctional Nmn
AdenylyltransferaseADP RIBOSE PYROPHOSPHATASE COMPLEXED
With Amp And Mn Ion From Francisella Tularensis
pdb|2R5W|B Chain B, Crystal Structure Of A Bifunctional Nmn
AdenylyltransferaseADP RIBOSE PYROPHOSPHATASE FROM
Francisella Tularensis
pdb|2R5W|A Chain A, Crystal Structure Of A Bifunctional Nmn
AdenylyltransferaseADP RIBOSE PYROPHOSPHATASE FROM
Francisella Tularensis
Length = 352
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 31/110 (28%), Positives = 49/110 (44%), Gaps = 19/110 (17%)
Query: 184 WGIPGGFIEGKETYMDRGRKEFLEEALNASNMTAKESKSILKHLETVMDDNCHFVYRGYM 243
W +PGGF+E ET +E EE N+T E +I K E V D
Sbjct: 235 WALPGGFLECDETIAQAIIRELFEET--NINLT-HEQLAIAKRCEKVFD----------- 280
Query: 244 KDERNTDNAWVEGAVTTVHDKKGEHFMALP-LSPGDGAEDVKWLIVHSDM 292
+R+ + V D+ + +LP ++ D A+DVKW+ + S++
Sbjct: 281 YPDRSVRGRTISHVGLFVFDQ----WPSLPEINAADDAKDVKWISLGSNI 326
>pdb|3CNG|A Chain A, Crystal Structure Of Nudix Hydrolase From Nitrosomonas
Europaea
pdb|3CNG|B Chain B, Crystal Structure Of Nudix Hydrolase From Nitrosomonas
Europaea
pdb|3CNG|C Chain C, Crystal Structure Of Nudix Hydrolase From Nitrosomonas
Europaea
pdb|3CNG|D Chain D, Crystal Structure Of Nudix Hydrolase From Nitrosomonas
Europaea
Length = 189
Score = 32.3 bits (72), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 20/38 (52%)
Query: 172 LLEFVTVKFNGEWGIPGGFIEGKETYMDRGRKEFLEEA 209
L + + G+W +P GF E ET + +E LEEA
Sbjct: 55 LCKRAIAPYRGKWTLPAGFXENNETLVQGAARETLEEA 92
>pdb|3NAA|H Chain H, Crystal Structure Of Fab15 Mut5
pdb|3NCJ|H Chain H, Crystal Structure Of Fab15 Mut8
Length = 225
Score = 31.6 bits (70), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 42/90 (46%), Gaps = 6/90 (6%)
Query: 189 GFIEGKETYMDRGRKEFLEEALNA--SNMTAKESKSILKHLETVMDDNCHFVYRGYMKDE 246
GFI+ ++Y + + ++A S TA S LK +T M +Y+GYM
Sbjct: 49 GFIDPSDSYTNYAPSFQGQVTISADKSISTAYLQWSSLKASDTAMYYCARQLYQGYM--- 105
Query: 247 RNTDNAWVEGAVTTVHDKKGEHFMALPLSP 276
+T ++W +G + TV + PL+P
Sbjct: 106 -DTFDSWGQGTLVTVSSASTKGPSVFPLAP 134
>pdb|1MHH|B Chain B, Antibody-Antigen Complex
pdb|1MHH|D Chain D, Antibody-Antigen Complex
Length = 217
Score = 31.6 bits (70), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 37/91 (40%), Gaps = 12/91 (13%)
Query: 193 GKETYMD--RGRKEFLEEALNASNMTAKESKSILKHLETVMDDNCHFVYRGYMKDERNTD 250
G+ TY D +GR F +L S TA + LK+ +T F+ R Y
Sbjct: 56 GEPTYADDFKGRFAF---SLETSASTAYLQINSLKNEDTATYFCARFLLRQYF------- 105
Query: 251 NAWVEGAVTTVHDKKGEHFMALPLSPGDGAE 281
+ W G TV K PL+PG A+
Sbjct: 106 DVWGAGTTVTVSSAKTTPPSVYPLAPGSAAQ 136
>pdb|1N64|H Chain H, Crystal Structure Analysis Of The Immunodominant Antigenic
Site On Hepatitis C Virus Protein Bound To Mab 19d9d6
pdb|1NLB|H Chain H, Crystal Structure Of Anti-Hcv Monoclonal Antibody 19d9d6
pdb|1XCQ|B Chain B, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCQ|D Chain D, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCQ|F Chain F, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCQ|H Chain H, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCT|B Chain B, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (D55a, L57h,
Y64w) In Space Group P21212
pdb|1XCT|D Chain D, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (D55a, L57h,
Y64w) In Space Group P21212
pdb|1XF5|B Chain B, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (H74c,
Y64w)in Space Group P21212
pdb|1XF5|D Chain D, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (H74c,
Y64w)in Space Group P21212
pdb|1YMH|B Chain B, Anti-hcv Fab 19d9d6 Complexed With Protein L (ppl) Mutant
A66w
pdb|1YMH|D Chain D, Anti-hcv Fab 19d9d6 Complexed With Protein L (ppl) Mutant
A66w
Length = 218
Score = 31.6 bits (70), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 37/91 (40%), Gaps = 12/91 (13%)
Query: 193 GKETYMD--RGRKEFLEEALNASNMTAKESKSILKHLETVMDDNCHFVYRGYMKDERNTD 250
G+ TY D +GR F +L S TA + LK+ +T F+ R Y
Sbjct: 56 GEPTYADDFKGRFAF---SLETSASTAYLQINSLKNEDTATYFCARFLLRQYF------- 105
Query: 251 NAWVEGAVTTVHDKKGEHFMALPLSPGDGAE 281
+ W G TV K PL+PG A+
Sbjct: 106 DVWGAGTTVTVSSAKTTPPSVYPLAPGSAAQ 136
>pdb|2OJZ|H Chain H, Anti-Dna Antibody Ed10
pdb|2OJZ|I Chain I, Anti-Dna Antibody Ed10
pdb|2OK0|H Chain H, Fab Ed10-Dna Complex
Length = 216
Score = 31.6 bits (70), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 40/82 (48%), Gaps = 2/82 (2%)
Query: 201 GRKEFLEEALNASNMTAKESKSIL-KHLETVMDDNCHFVYRGYMKDERNTDNAWVEGAVT 259
G ++ E+ + + +TA S SI+ HL ++ D+ + VY ++ + W EG +
Sbjct: 54 GSIKYNEKFKDKATLTADTSSSIVYMHLSSLTSDD-NAVYFCTRWTYGSSFDYWGEGTLL 112
Query: 260 TVHDKKGEHFMALPLSPGDGAE 281
TV K PL+PG A+
Sbjct: 113 TVSSAKTTPPSVYPLAPGSAAQ 134
>pdb|3NA9|H Chain H, Crystal Structure Of Fab15
pdb|3ULU|H Chain H, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|H Chain H, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 225
Score = 31.2 bits (69), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 42/90 (46%), Gaps = 6/90 (6%)
Query: 189 GFIEGKETYMDRGRKEFLEEALNA--SNMTAKESKSILKHLETVMDDNCHFVYRGYMKDE 246
GFI+ ++Y + + ++A S TA S LK +T M +Y+GYM
Sbjct: 49 GFIDPSDSYTNYAPSFQGQVTISADKSISTAYLQWSSLKASDTAMYYCARELYQGYM--- 105
Query: 247 RNTDNAWVEGAVTTVHDKKGEHFMALPLSP 276
+T ++W +G + TV + PL+P
Sbjct: 106 -DTFDSWGQGTLVTVSSASTKGPSVFPLAP 134
>pdb|1FIG|H Chain H, Routes To Catalysis: Structure Of A Catalytic Antibody And
Comparison With Its Natural Counterpart
Length = 216
Score = 31.2 bits (69), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 27/64 (42%)
Query: 218 KESKSILKHLETVMDDNCHFVYRGYMKDERNTDNAWVEGAVTTVHDKKGEHFMALPLSPG 277
K S ++ HL ++ ++ Y +D W +G + TV K PL+PG
Sbjct: 74 KSSSTLYMHLTSLQSEDSAVYYCARRRDGNYGFTYWGQGTLVTVSAAKTTPPSVYPLAPG 133
Query: 278 DGAE 281
A+
Sbjct: 134 SAAQ 137
>pdb|2UYL|B Chain B, Crystal Structure Of A Monoclonal Antibody Directed
Against An Antigenic Determinant Common To Ogawa And
Inaba Serotypes Of Vibrio Cholerae O1
pdb|2UYL|N Chain N, Crystal Structure Of A Monoclonal Antibody Directed
Against An Antigenic Determinant Common To Ogawa And
Inaba Serotypes Of Vibrio Cholerae O1
pdb|2UYL|W Chain W, Crystal Structure Of A Monoclonal Antibody Directed
Against An Antigenic Determinant Common To Ogawa And
Inaba Serotypes Of Vibrio Cholerae O1
pdb|2UYL|Y Chain Y, Crystal Structure Of A Monoclonal Antibody Directed
Against An Antigenic Determinant Common To Ogawa And
Inaba Serotypes Of Vibrio Cholerae O1
Length = 221
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 26/63 (41%)
Query: 219 ESKSILKHLETVMDDNCHFVYRGYMKDERNTDNAWVEGAVTTVHDKKGEHFMALPLSPGD 278
S + L ++ D+ Y G + R + W +G + TV K PL+PG
Sbjct: 75 SSSTAYMQLSSLTSDDSAVYYCGREETVRASFGNWGQGTLVTVSAAKTTPPSVYPLAPGS 134
Query: 279 GAE 281
A+
Sbjct: 135 AAQ 137
>pdb|2R4R|H Chain H, Crystal Structure Of The Human Beta2 Adrenoceptor
pdb|2R4S|H Chain H, Crystal Structure Of The Human Beta2 Adrenoceptor
pdb|3KJ6|H Chain H, Crystal Structure Of A Methylated Beta2 Adrenergic
Receptor- Fab Complex
Length = 217
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 36/91 (39%), Gaps = 13/91 (14%)
Query: 195 ETYMDRGRKEFLEEALNASNMTAKESKSI----LKHLETVMDDNCHFVYRGYMKDERNTD 250
E Y G ++ E + + +TA +S S L L T D +F RG+
Sbjct: 50 EIYPGSGNIDYNERFKDKATLTADKSSSTAYMQLSSL-TSEDSAVYFCVRGF-------- 100
Query: 251 NAWVEGAVTTVHDKKGEHFMALPLSPGDGAE 281
W +G TV K PL+PG A+
Sbjct: 101 GYWGQGTTLTVSSAKTTPPSVYPLAPGSAAQ 131
>pdb|3I9X|A Chain A, Crystal Structure Of A Mutt/nudix Family Protein From
Listeria Innocua
Length = 187
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 6/42 (14%)
Query: 167 SSGKPLLEFVTVKFNGEWGIPGGFIEGKETYMDRGRKEFLEE 208
+ GKP +E G+W +PGGF++ E+ +E EE
Sbjct: 58 AEGKPNME------GGKWAVPGGFVDENESAEQAAERELEEE 93
>pdb|4F2M|A Chain A, Crystal Structure Of A Tgev Coronavirus Spike Fragment In
Complex With The Tgev Neutralizing Monoclonal Antibody
1af10
pdb|4F2M|C Chain C, Crystal Structure Of A Tgev Coronavirus Spike Fragment In
Complex With The Tgev Neutralizing Monoclonal Antibody
1af10
Length = 221
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 34/84 (40%), Gaps = 4/84 (4%)
Query: 197 YMDRGRKEFLEEALNASNMTA-KESKSILKHLE--TVMDDNCHFVYRG-YMKDERNTDNA 252
Y G + E+ + +TA K S + HL T +D +F RG Y D +
Sbjct: 52 YPGDGETNYSEKFKGKATLTADKSSSTAYMHLSSLTSVDSAVYFCARGGYRYDPYYAMDY 111
Query: 253 WVEGAVTTVHDKKGEHFMALPLSP 276
W +G TV K PL+P
Sbjct: 112 WGQGTSVTVSSAKTTAPSVYPLAP 135
>pdb|3TNM|H Chain H, Crystal Structure Of A32 Fab, An Adcc Mediating Anti-Hiv-1
Antibody
pdb|3TNM|A Chain A, Crystal Structure Of A32 Fab, An Adcc Mediating Anti-Hiv-1
Antibody
Length = 231
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 33/74 (44%), Gaps = 1/74 (1%)
Query: 206 LEEALNASNMTAKESKSILKHLETVMDDNCHFVYRGY-MKDERNTDNAWVEGAVTTVHDK 264
L+ + S T++ S+ + TV D ++ RG ++ RN + W +G + TV
Sbjct: 65 LKSRITISQHTSENQFSLKLNSVTVADTAVYYCARGTRLRTLRNAFDIWGQGTMVTVSSA 124
Query: 265 KGEHFMALPLSPGD 278
+ PL+P
Sbjct: 125 STKGPSVFPLAPSS 138
>pdb|3DKU|A Chain A, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3DKU|B Chain B, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3DKU|C Chain C, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3DKU|D Chain D, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3DKU|E Chain E, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3DKU|F Chain F, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3DKU|G Chain G, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3DKU|H Chain H, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|A Chain A, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|B Chain B, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|C Chain C, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|D Chain D, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|E Chain E, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|F Chain F, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|G Chain G, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|H Chain H, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|I Chain I, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|J Chain J, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|K Chain K, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
pdb|3SHD|L Chain L, Crystal Structure Of Nudix Hydrolase Orf153, Ymfb, From
Escherichia Coli K-1
Length = 153
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 24/54 (44%)
Query: 155 FRDHNGDKVTMPSSGKPLLEFVTVKFNGEWGIPGGFIEGKETYMDRGRKEFLEE 208
F+ H + + GK L+ T+ W P G +E ET ++ +E EE
Sbjct: 2 FKPHVTVACVVHAEGKFLVVEETINGKALWNQPAGHLEADETLVEAAARELWEE 55
>pdb|2AZW|A Chain A, Crystal Structure Of The Mutt/nudix Family Protein From
Enterococcus Faecalis
Length = 148
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 18/28 (64%)
Query: 181 NGEWGIPGGFIEGKETYMDRGRKEFLEE 208
NG + +PGG IEG ET + +E LEE
Sbjct: 40 NGAYFLPGGEIEGTETKEEAIHREVLEE 67
>pdb|3COU|A Chain A, Crystal Structure Of Human Nudix Motif 16 (Nudt16)
pdb|2XSQ|A Chain A, Crystal Structure Of Human Nudix Motif 16 (Nudt16) In
Complex With Imp And Magnesium
Length = 217
Score = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 11/39 (28%), Positives = 22/39 (56%)
Query: 175 FVTVKFNGEWGIPGGFIEGKETYMDRGRKEFLEEALNAS 213
+ ++F+G G PGGF++ ++ ++ G L E L +
Sbjct: 68 LMQMRFDGRLGFPGGFVDTQDRSLEDGLNRELREELGEA 106
>pdb|3MGM|A Chain A, Crystal Structure Of Human Nudt16
pdb|3MGM|B Chain B, Crystal Structure Of Human Nudt16
Length = 200
Score = 28.9 bits (63), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 11/39 (28%), Positives = 22/39 (56%)
Query: 175 FVTVKFNGEWGIPGGFIEGKETYMDRGRKEFLEEALNAS 213
+ ++F+G G PGGF++ ++ ++ G L E L +
Sbjct: 47 LMQMRFDGRLGFPGGFVDTQDRSLEDGLNRELREELGEA 85
>pdb|2I9L|B Chain B, Structure Of Fab 7d11 From A Neutralizing Antibody Against
The Poxvirus L1 Protein
pdb|2I9L|D Chain D, Structure Of Fab 7d11 From A Neutralizing Antibody Against
The Poxvirus L1 Protein
pdb|2I9L|F Chain F, Structure Of Fab 7d11 From A Neutralizing Antibody Against
The Poxvirus L1 Protein
pdb|2I9L|H Chain H, Structure Of Fab 7d11 From A Neutralizing Antibody Against
The Poxvirus L1 Protein
Length = 219
Score = 28.5 bits (62), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 18/82 (21%), Positives = 35/82 (42%), Gaps = 1/82 (1%)
Query: 201 GRKEFLEEALNASNMTA-KESKSILKHLETVMDDNCHFVYRGYMKDERNTDNAWVEGAVT 259
G E+ ++ + + +TA K S ++ L ++ ++ Y + W +G +
Sbjct: 56 GYTEYNQKFKDKATLTADKSSSTVYMQLSSLTSEDSAVYYCARTTVDGYDFAYWGQGTLV 115
Query: 260 TVHDKKGEHFMALPLSPGDGAE 281
TV K PL+PG A+
Sbjct: 116 TVSAAKTTAPSVYPLAPGSAAQ 137
>pdb|2AJS|H Chain H, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Heptaethylene Glycol
pdb|2AJU|H Chain H, Cyrstal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
pdb|2AJV|H Chain H, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Cocaine
pdb|2AJX|H Chain H, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Transition State Analog
pdb|2AJY|H Chain H, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Ecgonine Methyl Ester And Benzoic Acid
pdb|2AJZ|H Chain H, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Ecgonine Methyl Ester
pdb|2AJZ|B Chain B, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Ecgonine Methyl Ester
pdb|2AK1|H Chain H, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Benzoic Acid
Length = 219
Score = 28.1 bits (61), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 32/142 (22%), Positives = 54/142 (38%), Gaps = 16/142 (11%)
Query: 226 HLETVMDDNCHFVYRGYMKDERNTDNAWVEGAVTTVHDKKGEHFMALPLSPGDGAEDVKW 285
L +V ++ Y NT + W +G TV K PL+PG A
Sbjct: 82 QLNSVTTEDTATYYCARYDYYGNTGDYWGQGTSVTVSSAKTTPPSVYPLAPGTAA----- 136
Query: 286 LIVHSDMTFNPTHKTFMKVVTDI--------HGAHWYAYVIGLNSWNLTSA-TVSNSDWL 336
+ S +T K + + G H + V+ + + LTS+ TV +S W
Sbjct: 137 -LKSSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLTSSVTVPSSTWP 195
Query: 337 IVNIRHSLSQPCPKQN-DQKLV 357
+ +++ P D+K+V
Sbjct: 196 SQTVTCNVAHPASSTKVDKKIV 217
>pdb|3DIF|B Chain B, Crystal Structure Of Fabox117
pdb|3DIF|D Chain D, Crystal Structure Of Fabox117
Length = 229
Score = 28.1 bits (61), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 37/93 (39%), Gaps = 15/93 (16%)
Query: 197 YMDRGRKEFLEEALNASNMTAKESKSI----LKHLETVMDDNCHFVYRGYMKDERNTDNA 252
+ G ++ E+ + +TA S S L L T D +F RG N D A
Sbjct: 52 FPGSGNTKYNEKFKGKATLTADTSSSTAYMQLSSL-TSEDSAVYFCARG------NYDRA 104
Query: 253 WV----EGAVTTVHDKKGEHFMALPLSPGDGAE 281
W +G + TV K PL+PG A+
Sbjct: 105 WFAYWGQGTLVTVSAAKTTPPSVYPLAPGSAAQ 137
>pdb|1K4D|A Chain A, Potassium Channel Kcsa-Fab Complex In Low Concentration Of
K+
pdb|1K4C|A Chain A, Potassium Channel Kcsa-Fab Complex In High Concentration
Of K+
pdb|1R3I|H Chain H, Potassium Channel Kcsa-Fab Complex In Rb+
pdb|1R3J|B Chain B, Potassium Channel Kcsa-Fab Complex In High Concentration
Of Tl+
pdb|1R3K|B Chain B, Potassium Channel Kcsa-Fab Complex In Low Concentration Of
Tl+
pdb|1R3L|B Chain B, Potassium Channel Kcsa-Fab Complex In Cs+
pdb|1S5H|B Chain B, Potassium Channel Kcsa-Fab Complex T75c Mutant In K+
pdb|2BOB|A Chain A, Potassium Channel Kcsa-Fab Complex In Thallium With
Tetrabutylammonium (Tba)
pdb|2BOC|A Chain A, Potassium Channel Kcsa-Fab Complex In Thallium With
Tetraethylarsonium (Teas)
pdb|1ZWI|A Chain A, Structure Of Mutant Kcsa Potassium Channel
pdb|2ATK|A Chain A, Structure Of A Mutant Kcsa K+ Channel
pdb|2H8P|A Chain A, Structure Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
pdb|2HFE|A Chain A, Rb+ Complex Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
pdb|2HG5|A Chain A, Cs+ Complex Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
pdb|2HJF|A Chain A, Potassium Channel Kcsa-Fab Complex With Tetrabutylammonium
(Tba)
pdb|2IH1|A Chain A, Ion Selectivity In A Semi-Synthetic K+ Channel Locked In
The Conductive Conformation
pdb|2IH3|A Chain A, Ion Selectivity In A Semi-Synthetic K+ Channel Locked In
The Conductive Conformation
pdb|2DWD|A Chain A, Crystal Structure Of Kcsa-Fab-Tba Complex In Tl+
pdb|2DWE|A Chain A, Crystal Structure Of Kcsa-Fab-Tba Complex In Rb+
pdb|2HVJ|A Chain A, Crystal Structure Of Kcsa-fab-tba Complex In Low K+
pdb|2HVK|A Chain A, Crystal Structure Of The Kcsa-Fab-Tba Complex In High K+
pdb|2ITC|A Chain A, Potassium Channel Kcsa-Fab Complex In Sodium Chloride
pdb|2ITD|A Chain A, Potassium Channel Kcsa-Fab Complex In Barium Chloride
pdb|2NLJ|B Chain B, Potassium Channel Kcsa(M96v)-Fab Complex In Kcl
pdb|2P7T|A Chain A, Crystal Structure Of Kcsa Mutant
pdb|2JK5|A Chain A, Potassium Channel Kcsa In Complex With Tetrabutylammonium
In High K
pdb|2W0F|A Chain A, Potassium Channel Kcsa-Fab Complex With Tetraoctylammonium
pdb|3GB7|A Chain A, Potassium Channel Kcsa-Fab Complex In Li+
pdb|3IGA|A Chain A, Potassium Channel Kcsa-Fab Complex In Li+ And K+
pdb|3F5W|A Chain A, Kcsa Potassium Channel In The Open-Inactivated State With
32 A Opening At T112
pdb|3F7V|A Chain A, Kcsa Potassium Channel In The Open-Inactivated State With
23 A Opening At T112
pdb|3F7Y|A Chain A, Kcsa Potassium Channel In The Partially Open State With 17
A Opening At T112
pdb|3FB5|A Chain A, Kcsa Potassium Channel In The Partially Open State With
14.5 A Opening At T112
pdb|3FB6|A Chain A, Kcsa Potassium Channel In The Partially Open State With 16
A Opening At T112
pdb|3FB8|A Chain A, Kcsa Potassium Channel In The Open-Conductive State With
20 At T112 In The Presence Of Rb+ Ion
pdb|3HPL|A Chain A, Kcsa E71h-F103a Mutant In The Closed State
pdb|3FB7|A Chain A, Open Kcsa Potassium Channel In The Presence Of Rb+ Ion
pdb|3OR6|A Chain A, On The Structural Basis Of Modal Gating Behavior In
K+channels - E71q
pdb|3OR7|A Chain A, On The Structural Basis Of Modal Gating Behavior In
K+channels - E71i
pdb|3OGC|A Chain A, Kcsa E71a Variant In Presence Of Na+
pdb|3STL|A Chain A, Kcsa Potassium Channel Mutant Y82c With Cadmium Bound
pdb|3STZ|A Chain A, Kcsa Potassium Channel Mutant Y82c With Nitroxide Spin
Label
Length = 219
Score = 28.1 bits (61), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 34/84 (40%), Gaps = 6/84 (7%)
Query: 201 GRKEFLEEALNASNMTA-KESKSILKHLETVMDDNCHFVYRGYMKDERNTD--NAWVEGA 257
GR + E+ + +TA K S + L ++ ++ VY Y ER W G
Sbjct: 56 GRANYNEKIQKKATLTADKSSSTAFMQLSSLTSED-SAVY--YCARERGDGYFAVWGAGT 112
Query: 258 VTTVHDKKGEHFMALPLSPGDGAE 281
TV K PL+PG A+
Sbjct: 113 TVTVSSAKTTPPSVYPLAPGSAAQ 136
>pdb|2NTF|H Chain H, Crystal Structure Of A Quorum-Quenching Antibody In
Complex With An N- Acyl-L-Homoserine Lactone Analog
pdb|2NTF|B Chain B, Crystal Structure Of A Quorum-Quenching Antibody In
Complex With An N- Acyl-L-Homoserine Lactone Analog
pdb|2OP4|H Chain H, Crystal Structure Of Quorum-Quenching Antibody 1g9
Length = 222
Score = 28.1 bits (61), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 41/173 (23%), Positives = 65/173 (37%), Gaps = 21/173 (12%)
Query: 196 TYMDRGRKEFLEEALNASNMTAKESKSILKHLETVMDDNCHFVYRGYMK-DERNTDNAWV 254
TY D K ++ S+ TA S L T D +F RG + + W
Sbjct: 58 TYYDEKFKNKATLTVDTSSSTAFMQLSSL----TSEDSAVYFCTRGSLYYNNYGWFGYWG 113
Query: 255 EGAVTTVHDKKGEHFMALPLSPGDGAEDVKWLIVHSDMTFNPTHKTFMKVVTDI------ 308
+G + TV K PL+PG A S +T K + +
Sbjct: 114 QGTLVTVSAAKTTPPSVYPLAPGSNAAS------QSMVTLGCLVKGYFPEPVTVTWNSGS 167
Query: 309 --HGAHWYAYVIGLNSWNLTSA-TVSNSDWLIVNIRHSLSQPCPKQN-DQKLV 357
G H + V+ + + LTS+ TV +S W + +++ P D+K+V
Sbjct: 168 LSSGVHTFPAVLQSDLYTLTSSVTVPSSTWPSQTVTCNVAHPASSTKVDKKIV 220
>pdb|3S96|A Chain A, Crystal Structure Of 3b5h10
pdb|3S96|C Chain C, Crystal Structure Of 3b5h10
Length = 220
Score = 27.7 bits (60), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 40/92 (43%), Gaps = 11/92 (11%)
Query: 192 EGKETYMD--RGRKEFLEEALNASNMTAKESKSILKHLETVMDDNCHFVYRGYMKDERNT 249
G TY+D +GR F +L S TA + LK+ +T + +F RG D
Sbjct: 55 SGVPTYVDDFKGRFAF---SLETSASTAYLQINNLKNEDTAV----YFCARG--GDNYLW 105
Query: 250 DNAWVEGAVTTVHDKKGEHFMALPLSPGDGAE 281
W +G + TV K PL+PG A+
Sbjct: 106 FAYWGQGTLVTVSAAKTTPPSVYPLAPGSAAQ 137
>pdb|1A0Q|H Chain H, 29g11 Complexed With Phenyl [1-(1-N-Succinylamino)pentyl]
Phosphonate
Length = 217
Score = 27.7 bits (60), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 36/85 (42%), Gaps = 7/85 (8%)
Query: 201 GRKEFLEEALNASNMTAKESKSI----LKHLETVMDDNCHFVYRGYMKDERNTDNAWVEG 256
G ++ E+ + +TA +S S L L T D + RGY R+ + W +G
Sbjct: 56 GDIKYNEKFKGKATLTADKSSSTAYMQLNSL-TSEDSAVYLCKRGYYG--RSNVDYWGQG 112
Query: 257 AVTTVHDKKGEHFMALPLSPGDGAE 281
TV K PL+PG A+
Sbjct: 113 TTLTVSSAKTTPPSVYPLAPGSAAQ 137
>pdb|1ORS|B Chain B, X-Ray Structure Of The Kvap Potassium Channel Voltage
Sensor In Complex With An Fab
Length = 221
Score = 27.7 bits (60), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 32/76 (42%), Gaps = 3/76 (3%)
Query: 206 LEEALNASNMTAKESKSILKHLETVMDDNCHFVYRGYMKDERNTDNAWVEGAVTTVHDKK 265
L+ ++ + T+K + + T D +F RGY + + W +G TV K
Sbjct: 64 LKSRISITRDTSKNQFFLQLNSVTTEDTATYFCVRGY---DYFAMDYWGQGTSVTVSSAK 120
Query: 266 GEHFMALPLSPGDGAE 281
PL+PG A+
Sbjct: 121 TTPPSVYPLAPGSAAQ 136
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
0.320 0.137 0.442
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,442,548
Number of Sequences: 62578
Number of extensions: 576362
Number of successful extensions: 1464
Number of sequences better than 100.0: 54
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 41
Number of HSP's that attempted gapping in prelim test: 1447
Number of HSP's gapped (non-prelim): 54
length of query: 362
length of database: 14,973,337
effective HSP length: 100
effective length of query: 262
effective length of database: 8,715,537
effective search space: 2283470694
effective search space used: 2283470694
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: 52 (24.6 bits)