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= 012710
(458 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1L9U|H Chain H, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|Q Chain Q, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
Length = 332
Score = 120 bits (300), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 66/170 (38%), Positives = 100/170 (58%), Gaps = 15/170 (8%)
Query: 291 SDPLRYLRATTSSSRLLTANEEMQLS----AGIQDLLKL--------EGLREVLSERCGG 338
SDP+R LLT EE+ L+ G++ + KL E +REV+ + G
Sbjct: 2 SDPVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILG 61
Query: 339 SPTFAQWAAAAGVDQRELRRRLNY---GILCKDKMITSNIRLVISIAKNYQGAGMNLQDL 395
+ + +EL+R L+ G + +I +N+RLV+SIAK Y G G++ DL
Sbjct: 62 TARVEEVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDL 121
Query: 396 VQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPV 445
+QEG +GL+R EKF+ + FKFSTYA WWI+QA+ ++++DQ+RTIR+PV
Sbjct: 122 IQEGNQGLIRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPV 171
>pdb|1L9Z|H Chain H, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
Length = 438
Score = 117 bits (293), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 69/188 (36%), Positives = 105/188 (55%), Gaps = 30/188 (15%)
Query: 288 VDYSDPLRYLRATTSSSRLLTANEEMQLS----AGIQDLLKL--------EGLREVLSER 335
V SDP+R LLT EE+ L+ G++ + KL E +REV+ +
Sbjct: 90 VSTSDPVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAK 149
Query: 336 CGGS------PTFAQWAAAAGVDQ---------RELRRRLNY---GILCKDKMITSNIRL 377
G+ P + V++ +EL+R L+ G + +I +N+RL
Sbjct: 150 ILGTARIQKIPGLKEKPDPKTVEEVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRL 209
Query: 378 VISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQ 437
V+SIAK Y G G++ DL+QEG +GL+R EKF+ + FKFSTYA WWI+QA+ ++++DQ
Sbjct: 210 VVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQ 269
Query: 438 SRTIRLPV 445
+RTIR+PV
Sbjct: 270 ARTIRIPV 277
>pdb|3UGO|A Chain A, Crystal Structure Of Rna-Polymerase Sigma Subunit Domain 2
Complexed With -10 Promoter Element Ssdna Oligo (Tacaat)
pdb|3UGP|A Chain A, Crystal Structure Of Rna-Polymerase Sigma Subunit Domain 2
Complexed With -10 Promoter Element Ssdna Oligo (Tataat)
pdb|4GOR|A Chain A, Crystallographic Analysis Of An Rna-Polymerase
Sigma-Subunit Fragment Complexed With -10 Promoter
Element Ssdna: G-Quadruplex Formation And Crystal
Packing
pdb|4GOR|B Chain B, Crystallographic Analysis Of An Rna-Polymerase
Sigma-Subunit Fragment Complexed With -10 Promoter
Element Ssdna: G-Quadruplex Formation And Crystal
Packing
Length = 245
Score = 115 bits (288), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 68/185 (36%), Positives = 104/185 (56%), Gaps = 30/185 (16%)
Query: 291 SDPLRYLRATTSSSRLLTANEEMQLS----AGIQDLLKL--------EGLREVLSERCGG 338
SDP+R LLT EE+ L+ G++ + KL E +REV+ + G
Sbjct: 6 SDPVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILG 65
Query: 339 S------PTFAQWAAAAGVDQ---------RELRRRLNY---GILCKDKMITSNIRLVIS 380
+ P + V++ +EL+R L+ G + +I +N+RLV+S
Sbjct: 66 TARIQKIPGLKEKPDPKTVEEVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVS 125
Query: 381 IAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440
IAK Y G G++ DL+QEG +GL+R EKF+ + FKFSTYA WWI+QA+ ++++DQ+RT
Sbjct: 126 IAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQART 185
Query: 441 IRLPV 445
IR+PV
Sbjct: 186 IRIPV 190
>pdb|1KU2|A Chain A, Crystal Structure Of Thermus Aquaticus Rna Polymerase
Sigma Subunit Fragment Containing Regions 1.2 To 3.1
pdb|1KU2|B Chain B, Crystal Structure Of Thermus Aquaticus Rna Polymerase
Sigma Subunit Fragment Containing Regions 1.2 To 3.1
Length = 241
Score = 115 bits (288), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 68/185 (36%), Positives = 104/185 (56%), Gaps = 30/185 (16%)
Query: 291 SDPLRYLRATTSSSRLLTANEEMQLS----AGIQDLLKL--------EGLREVLSERCGG 338
SDP+R LLT EE+ L+ G++ + KL E +REV+ + G
Sbjct: 2 SDPVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILG 61
Query: 339 S------PTFAQWAAAAGVDQ---------RELRRRLNY---GILCKDKMITSNIRLVIS 380
+ P + V++ +EL+R L+ G + +I +N+RLV+S
Sbjct: 62 TARIQKIPGLKEKPDPKTVEEVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVS 121
Query: 381 IAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRT 440
IAK Y G G++ DL+QEG +GL+R EKF+ + FKFSTYA WWI+QA+ ++++DQ+RT
Sbjct: 122 IAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQART 181
Query: 441 IRLPV 445
IR+PV
Sbjct: 182 IRIPV 186
>pdb|3DXJ|F Chain F, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Myxopyronin
pdb|3DXJ|P Chain P, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Myxopyronin
Length = 423
Score = 109 bits (272), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 44/83 (53%), Positives = 64/83 (77%)
Query: 363 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYA 422
G + +I +N+RLV+SIAK Y G G++ DL+QEG +GL+R EKF+ + FKFSTYA
Sbjct: 180 GEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYA 239
Query: 423 HWWIKQAVRKSLSDQSRTIRLPV 445
WWI+QA+ ++++DQ+RTIR+PV
Sbjct: 240 TWWIRQAINRAIADQARTIRIPV 262
>pdb|1IW7|F Chain F, Crystal Structure Of The Rna Polymerase Holoenzyme From
Thermus Thermophilus At 2.6a Resolution
pdb|1IW7|P Chain P, Crystal Structure Of The Rna Polymerase Holoenzyme From
Thermus Thermophilus At 2.6a Resolution
pdb|1SMY|F Chain F, Structural Basis For Transcription Regulation By Alarmone
Ppgpp
pdb|1SMY|P Chain P, Structural Basis For Transcription Regulation By Alarmone
Ppgpp
pdb|1ZYR|F Chain F, Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Streptolydigin
pdb|1ZYR|P Chain P, Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Streptolydigin
pdb|2A68|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifabutin
pdb|2A68|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifabutin
pdb|2A69|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifapentin
pdb|2A69|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifapentin
pdb|2A6E|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme
pdb|2A6E|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme
pdb|2A6H|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Sterptolydigin
pdb|2A6H|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Sterptolydigin
pdb|2CW0|F Chain F, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme At 3.3 Angstroms Resolution
pdb|2CW0|P Chain P, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme At 3.3 Angstroms Resolution
pdb|2BE5|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Inhibitor Tagetitoxin
pdb|2BE5|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Inhibitor Tagetitoxin
pdb|3EQL|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Myxopyronin
pdb|3EQL|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Myxopyronin
Length = 423
Score = 109 bits (272), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 44/83 (53%), Positives = 64/83 (77%)
Query: 363 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYA 422
G + +I +N+RLV+SIAK Y G G++ DL+QEG +GL+R EKF+ + FKFSTYA
Sbjct: 180 GEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYA 239
Query: 423 HWWIKQAVRKSLSDQSRTIRLPV 445
WWI+QA+ ++++DQ+RTIR+PV
Sbjct: 240 TWWIRQAINRAIADQARTIRIPV 262
>pdb|4G7H|F Chain F, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex
pdb|4G7H|P Chain P, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex
pdb|4G7O|F Chain F, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 2 Nt Of Rna
pdb|4G7O|P Chain P, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 2 Nt Of Rna
pdb|4G7Z|F Chain F, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 5-Bru At Template-Strand
Position +1
pdb|4G7Z|P Chain P, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 5-Bru At Template-Strand
Position +1
Length = 443
Score = 109 bits (272), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 44/83 (53%), Positives = 64/83 (77%)
Query: 363 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYA 422
G + +I +N+RLV+SIAK Y G G++ DL+QEG +GL+R EKF+ + FKFSTYA
Sbjct: 200 GEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYA 259
Query: 423 HWWIKQAVRKSLSDQSRTIRLPV 445
WWI+QA+ ++++DQ+RTIR+PV
Sbjct: 260 TWWIRQAINRAIADQARTIRIPV 282
>pdb|3IYD|F Chain F, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
Length = 613
Score = 107 bits (267), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 46/96 (47%), Positives = 70/96 (72%), Gaps = 4/96 (4%)
Query: 354 RELRRRLNYGIL----CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEK 409
+++ RR++ G K +M+ +N+RLVISIAK Y G+ DL+QEG GL++ +K
Sbjct: 359 KDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK 418
Query: 410 FDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPV 445
F+ +G+KFSTYA WWI+QA+ +S++DQ+RTIR+PV
Sbjct: 419 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 454
>pdb|4IGC|X Chain X, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|Y Chain Y, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
Length = 613
Score = 107 bits (267), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 46/96 (47%), Positives = 70/96 (72%), Gaps = 4/96 (4%)
Query: 354 RELRRRLNYGIL----CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEK 409
+++ RR++ G K +M+ +N+RLVISIAK Y G+ DL+QEG GL++ +K
Sbjct: 359 KDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK 418
Query: 410 FDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPV 445
F+ +G+KFSTYA WWI+QA+ +S++DQ+RTIR+PV
Sbjct: 419 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 454
>pdb|3LES|A Chain A, 2f5 Epitope Scaffold Es2
pdb|3LES|B Chain B, 2f5 Epitope Scaffold Es2
pdb|3LEV|A Chain A, Hiv-1 Antibody 2f5 In Complex With Epitope Scaffold Es2
Length = 179
Score = 99.8 bits (247), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 43/89 (48%), Positives = 65/89 (73%), Gaps = 3/89 (3%)
Query: 354 RELRRRLNY---GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKF 410
+EL+R L+ G + +I +N+RLV+SIAK Y G G++ DL+QEG +GL+R EKF
Sbjct: 91 KELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKF 150
Query: 411 DASKGFKFSTYAHWWIKQAVRKSLSDQSR 439
+ +GF FSTYA WWI+QA+ ++++DQ+R
Sbjct: 151 EYKRGFAFSTYATWWIRQAINRAIADQAR 179
>pdb|1SIG|A Chain A, Crystal Structure Of A Sigma70 Subunit Fragment From
Escherichia Coli Rna Polymerase
Length = 339
Score = 94.7 bits (234), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 41/90 (45%), Positives = 64/90 (71%), Gaps = 4/90 (4%)
Query: 354 RELRRRLNYGIL----CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEK 409
+++ RR++ G K +M+ +N+RLVISIAK Y G+ DL+QEG GL++ +K
Sbjct: 250 KDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK 309
Query: 410 FDASKGFKFSTYAHWWIKQAVRKSLSDQSR 439
F+ +G+KFSTYA WWI+QA+ +S++DQ+R
Sbjct: 310 FEYRRGYKFSTYATWWIRQAITRSIADQAR 339
>pdb|1L0O|C Chain C, Crystal Structure Of The Bacillus Stearothermophilus Anti-
Sigma Factor Spoiiab With The Sporulation Sigma Factor
Sigmaf
Length = 243
Score = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 33/84 (39%), Positives = 47/84 (55%), Gaps = 1/84 (1%)
Query: 354 RELRRRLNYGIL-CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDA 412
+EL RR G +D++I N+RLV S+ + + G DL Q GC GL++ +KFD
Sbjct: 16 KELIRRSQEGDQEARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLLKSVDKFDL 75
Query: 413 SKGFKFSTYAHWWIKQAVRKSLSD 436
S KFSTYA I +++ L D
Sbjct: 76 SYDVKFSTYAVPMIIGEIQRFLRD 99
>pdb|3I2C|H Chain H, Crystal Structure Of Anti-Il-23 Antibody Cnto4088
Length = 222
Score = 33.1 bits (74), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 21/43 (48%), Positives = 27/43 (62%), Gaps = 4/43 (9%)
Query: 395 LVQEGCRGLV--RGAEKFD-ASKGFKFSTYAHWWIKQAVRKSL 434
LVQ G GLV +G+ K A+ GF F+TYA W++QA K L
Sbjct: 4 LVQSG-GGLVQPKGSLKLSCAASGFNFNTYAMHWVRQAPGKGL 45
>pdb|3KR3|H Chain H, Crystal Structure Of Igf-Ii Antibody Complex
Length = 251
Score = 33.1 bits (74), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 412 ASKGFKFSTYAHWWIKQAVRKSL 434
A+ GF FS Y WW++QA K L
Sbjct: 23 AASGFTFSNYIMWWVRQAPGKGL 45
>pdb|3MZY|A Chain A, The Crystal Structure Of The Rna Polymerase Sigma-H Factor
F Fusobacterium Nucleatum To 2.5a
Length = 164
Score = 32.3 bits (72), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 30/49 (61%), Gaps = 5/49 (10%)
Query: 389 GMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQ----AVRKS 433
G +DLVQEG GL++ + +D +K FS++A I++ A+RK+
Sbjct: 1 GAEKEDLVQEGILGLLKAIKFYDETKS-SFSSFAFLCIRREXISAIRKA 48
>pdb|3HI5|H Chain H, Crystal Structure Of Fab Fragment Of Al-57
pdb|3HI6|H Chain H, Crystal Structure Of Intermediate Affinity I Domain Of
Integrin Lfa-1 With The Fab Fragment Of Its Antibody
Al-57
pdb|3HI6|X Chain X, Crystal Structure Of Intermediate Affinity I Domain Of
Integrin Lfa-1 With The Fab Fragment Of Its Antibody
Al-57
Length = 220
Score = 32.0 bits (71), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 412 ASKGFKFSTYAHWWIKQAVRKSL 434
A+ GF FS Y WW++QA K L
Sbjct: 23 AASGFTFSRYVMWWVRQAPGKGL 45
>pdb|3BN9|D Chain D, Crystal Structure Of Mt-Sp1 In Complex With Fab Inhibitor
E2
pdb|3BN9|F Chain F, Crystal Structure Of Mt-Sp1 In Complex With Fab Inhibitor
E2
Length = 257
Score = 32.0 bits (71), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 27/43 (62%), Gaps = 4/43 (9%)
Query: 395 LVQEGCRGLVR--GAEKFD-ASKGFKFSTYAHWWIKQAVRKSL 434
LVQ G GLV+ G+ + A+ GF FS+YA W++QA K L
Sbjct: 4 LVQSG-GGLVKPGGSLRLSCAASGFTFSSYAMSWVRQAPGKGL 45
>pdb|3SO3|C Chain C, Structures Of Fab-Protease Complexes Reveal A Highly
Specific Non- Canonical Mechanism Of Inhibition
Length = 228
Score = 31.6 bits (70), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 27/43 (62%), Gaps = 4/43 (9%)
Query: 395 LVQEGCRGLVR--GAEKFD-ASKGFKFSTYAHWWIKQAVRKSL 434
LVQ G GLV+ G+ + A+ GF FS+YA W++QA K L
Sbjct: 4 LVQSG-GGLVKPGGSLRLSCAASGFTFSSYAMSWVRQAPGKGL 45
>pdb|3TNN|H Chain H, Crystal Structure Of N5-I5 Fab, An Adcc Mediating And
Non-Neutralizing Cd4i Anti-Hiv- 1 Antibody.
pdb|3TNN|A Chain A, Crystal Structure Of N5-I5 Fab, An Adcc Mediating And
Non-Neutralizing Cd4i Anti-Hiv- 1 Antibody.
pdb|3TNN|C Chain C, Crystal Structure Of N5-I5 Fab, An Adcc Mediating And
Non-Neutralizing Cd4i Anti-Hiv- 1 Antibody.
pdb|3TNN|E Chain E, Crystal Structure Of N5-I5 Fab, An Adcc Mediating And
Non-Neutralizing Cd4i Anti-Hiv- 1 Antibody
Length = 226
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/23 (56%), Positives = 16/23 (69%)
Query: 412 ASKGFKFSTYAHWWIKQAVRKSL 434
A+ GF FSTYA W++QA K L
Sbjct: 23 AASGFTFSTYAMSWVRQAPGKGL 45
>pdb|1NL0|H Chain H, Crystal Structure Of Human Factor Ix Gla Domain In Complex
Of An Inhibitory Antibody, 10c12
pdb|3D69|H Chain H, Crystal Structure Of The Fab Fragment Of An Anti-Factor Ix
Antibody 10c12
pdb|3D69|B Chain B, Crystal Structure Of The Fab Fragment Of An Anti-Factor Ix
Antibody 10c12
Length = 224
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/23 (56%), Positives = 16/23 (69%)
Query: 412 ASKGFKFSTYAHWWIKQAVRKSL 434
A+ GF FSTYA W++QA K L
Sbjct: 23 AASGFTFSTYAMHWVRQAPGKGL 45
>pdb|3U09|A Chain A, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
Reductase (Fabg)(G92d) From Vibrio Cholerae
pdb|3U09|B Chain B, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
Reductase (Fabg)(G92d) From Vibrio Cholerae
Length = 251
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 28/54 (51%)
Query: 397 QEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISHGR 450
+ G G + + AS+G +T A +I+ + K+L+D+ RT L + GR
Sbjct: 162 KAGVIGFTKSMAREVASRGVTVNTVAPGFIETDMTKALNDEQRTATLAQVPAGR 215
>pdb|3TZK|A Chain A, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
Reductase (Fabg)(G92a) From Vibrio Cholerae
pdb|3TZK|B Chain B, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
Reductase (Fabg)(G92a) From Vibrio Cholerae
Length = 251
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 28/54 (51%)
Query: 397 QEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISHGR 450
+ G G + + AS+G +T A +I+ + K+L+D+ RT L + GR
Sbjct: 162 KAGVIGFTKSMAREVASRGVTVNTVAPGFIETDMTKALNDEQRTATLAQVPAGR 215
>pdb|3TZC|A Chain A, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
Reductase (Fabg)(Y155f) From Vibrio Cholerae
pdb|3TZC|B Chain B, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
Reductase (Fabg)(Y155f) From Vibrio Cholerae
pdb|3TZC|C Chain C, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
Reductase (Fabg)(Y155f) From Vibrio Cholerae
pdb|3TZC|D Chain D, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
Reductase (Fabg)(Y155f) From Vibrio Cholerae
Length = 251
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 28/54 (51%)
Query: 397 QEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISHGR 450
+ G G + + AS+G +T A +I+ + K+L+D+ RT L + GR
Sbjct: 162 KAGVIGFTKSMAREVASRGVTVNTVAPGFIETDMTKALNDEQRTATLAQVPAGR 215
>pdb|3RSH|A Chain A, Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)reductase
(Fabg) From Vibrio Cholerae O1 Complexed With Nadp+
(Space Group P62)
pdb|3RSH|B Chain B, Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)reductase
(Fabg) From Vibrio Cholerae O1 Complexed With Nadp+
(Space Group P62)
pdb|3RRO|A Chain A, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
Reductase (Fabg) From Vibrio Cholerae
pdb|3RRO|B Chain B, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
Reductase (Fabg) From Vibrio Cholerae
pdb|4I08|A Chain A, Crystal Structure Of Beta-Ketoacyl-Acyl Carrier Protein
Reductase (Fabg) From Vibrio Cholerae In Complex With
Nadph
pdb|4I08|B Chain B, Crystal Structure Of Beta-Ketoacyl-Acyl Carrier Protein
Reductase (Fabg) From Vibrio Cholerae In Complex With
Nadph
Length = 251
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 28/54 (51%)
Query: 397 QEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISHGR 450
+ G G + + AS+G +T A +I+ + K+L+D+ RT L + GR
Sbjct: 162 KAGVIGFTKSMAREVASRGVTVNTVAPGFIETDMTKALNDEQRTATLAQVPAGR 215
>pdb|3ZTJ|G Chain G, Structure Of Influenza A Neutralizing Antibody Selected
From Cultures Of Single Human Plasma Cells In Complex
With Human H3 Influenza Haemagglutinin.
pdb|3ZTJ|I Chain I, Structure Of Influenza A Neutralizing Antibody Selected
From Cultures Of Single Human Plasma Cells In Complex
With Human H3 Influenza Haemagglutinin.
pdb|3ZTJ|K Chain K, Structure Of Influenza A Neutralizing Antibody Selected
From Cultures Of Single Human Plasma Cells In Complex
With Human H3 Influenza Haemagglutinin.
pdb|3ZTN|H Chain H, Structure Of Influenza A Neutralizing Antibody Selected
From Cultures Of Single Human Plasma Cells In Complex
With Human H1 Influenza Haemagglutinin
Length = 226
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/23 (56%), Positives = 16/23 (69%)
Query: 412 ASKGFKFSTYAHWWIKQAVRKSL 434
A+ GF FSTYA W++QA K L
Sbjct: 23 AASGFTFSTYAMHWVRQAPGKGL 45
>pdb|1I9I|H Chain H, Native Crystal Structure Of The Recombinant Monoclonal
Wild Type Anti-Testosterone Fab Fragment
pdb|1I9J|H Chain H, Testosterone Complex Structure Of The Recombinant
Monoclonal Wild Type Anti-Testosterone Fab Fragment
Length = 220
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 26/43 (60%), Gaps = 4/43 (9%)
Query: 395 LVQEGCRGLVR--GAEKFD-ASKGFKFSTYAHWWIKQAVRKSL 434
LV+ G GLV+ G+ K A+ GF FSTYA W++Q K L
Sbjct: 4 LVESG-GGLVKPGGSLKLSCAASGFTFSTYALSWVRQTADKRL 45
>pdb|2GHW|B Chain B, Crystal Structure Of Sars Spike Protein Receptor Binding
Domain In Complex With A Neutralizing Antibody, 80r
pdb|2GHW|D Chain D, Crystal Structure Of Sars Spike Protein Receptor Binding
Domain In Complex With A Neutralizing Antibody, 80r
Length = 247
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 25/43 (58%), Gaps = 4/43 (9%)
Query: 395 LVQEGCRGLVRGAEKFD---ASKGFKFSTYAHWWIKQAVRKSL 434
LVQ G G+V+ + A+ GF FS+YA W++QA K L
Sbjct: 6 LVQSGG-GVVQPGKSLRLSCAASGFAFSSYAMHWVRQAPGKGL 47
>pdb|1H3P|H Chain H, Structural Characterisation Of A Monoclonal Antibody
Specific For The Pres1 Region Of The Hepatitis B Virus
Length = 219
Score = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 27/43 (62%), Gaps = 4/43 (9%)
Query: 395 LVQEGCRGLVR--GAEKFD-ASKGFKFSTYAHWWIKQAVRKSL 434
LV+ G GLV+ G+ K A+ GF FS+YA W++Q+ K L
Sbjct: 4 LVESG-GGLVKPGGSLKLSCAASGFTFSSYAMSWVRQSPEKRL 45
>pdb|2GCY|B Chain B, Humanized Antibody C25 Fab Fragment
Length = 218
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 25/42 (59%), Gaps = 3/42 (7%)
Query: 396 VQEGCRGLVR--GAEKFD-ASKGFKFSTYAHWWIKQAVRKSL 434
+QE GLV+ G+ + A+ GF FS Y +W++QA K L
Sbjct: 4 LQESGGGLVQPGGSLRLSCAASGFTFSDYYMYWVRQAPGKGL 45
>pdb|1IGT|B Chain B, Structure Of Immunoglobulin
pdb|1IGT|D Chain D, Structure Of Immunoglobulin
Length = 444
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 3/42 (7%)
Query: 396 VQEGCRGLVR--GAEKFD-ASKGFKFSTYAHWWIKQAVRKSL 434
+QE GLV+ G+ K A+ GF FS Y +W++Q K L
Sbjct: 4 LQESGGGLVQPGGSLKLSCATSGFTFSDYYMYWVRQTPEKRL 45
>pdb|1DQL|H Chain H, Crystal Structure Of An Unliganded (Native) Fv From A
Human Igm Anti-Peptide Antibody
Length = 123
Score = 30.0 bits (66), Expect = 3.2, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 412 ASKGFKFSTYAHWWIKQAVRKSL 434
A+ GF FS+YA W++QA K L
Sbjct: 23 AASGFTFSSYAMHWVRQAPGKGL 45
>pdb|4GXU|M Chain M, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|O Chain O, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|Q Chain Q, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|S Chain S, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|U Chain U, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|W Chain W, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXV|H Chain H, Crystal Structure Of Anti-Influenza Virus Antibody 1f1
pdb|4GXV|I Chain I, Crystal Structure Of Anti-Influenza Virus Antibody 1f1
Length = 231
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 412 ASKGFKFSTYAHWWIKQAVRKSL 434
A+ GF FS+YA W++QA K L
Sbjct: 23 AASGFTFSSYAMHWVRQAPGKGL 45
>pdb|3UX9|B Chain B, Structural Insights Into A Human Anti-Ifn Antibody
Exerting Therapeutic Potential For Systemic Lupus
Erythematosus
pdb|3UX9|D Chain D, Structural Insights Into A Human Anti-Ifn Antibody
Exerting Therapeutic Potential For Systemic Lupus
Erythematosus
Length = 256
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 412 ASKGFKFSTYAHWWIKQAVRKSL 434
A+ GF FS+YA W++QA K L
Sbjct: 157 AASGFTFSSYAMSWVRQAPGKGL 179
>pdb|2VXS|H Chain H, Structure Of Il-17a In Complex With A Potent, Fully Human
Neutralising Antibody
pdb|2VXS|I Chain I, Structure Of Il-17a In Complex With A Potent, Fully Human
Neutralising Antibody
pdb|2VXS|J Chain J, Structure Of Il-17a In Complex With A Potent, Fully Human
Neutralising Antibody
pdb|2VXS|K Chain K, Structure Of Il-17a In Complex With A Potent, Fully Human
Neutralising Antibody
Length = 225
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 412 ASKGFKFSTYAHWWIKQAVRKSL 434
A+ GF FS+YA W++QA K L
Sbjct: 23 AASGFTFSSYAMSWVRQAPGKGL 45
>pdb|2QQN|H Chain H, Neuropilin-1 B1 Domain In Complex With A Vegf-Blocking Fab
Length = 230
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 412 ASKGFKFSTYAHWWIKQAVRKSL 434
A+ GF FS+YA W++QA K L
Sbjct: 23 AASGFTFSSYAMSWVRQAPGKGL 45
>pdb|3OP4|A Chain A, Crystal Structure Of Putative
3-Ketoacyl-(Acyl-Carrier-Protein) Reductase From Vibrio
Cholerae O1 Biovar Eltor Str. N16961 In Complex With
Nadp+
pdb|3OP4|B Chain B, Crystal Structure Of Putative
3-Ketoacyl-(Acyl-Carrier-Protein) Reductase From Vibrio
Cholerae O1 Biovar Eltor Str. N16961 In Complex With
Nadp+
Length = 248
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%)
Query: 397 QEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISHGR 450
+ G G + + AS+G +T A +I+ K+L+D+ RT L + GR
Sbjct: 159 KAGVIGFTKSXAREVASRGVTVNTVAPGFIETDXTKALNDEQRTATLAQVPAGR 212
>pdb|1CK0|H Chain H, Anti-Anti-Idiotypic Antibody Against Human Angiotensin Ii,
Unliganded Form
pdb|2CK0|H Chain H, Anti-Anti-Idiotypic Antibody Against Human Angiotensin Ii,
Complex With A Synthetic Cyclic Peptide
pdb|3CK0|H Chain H, Anti-Anti-Idiotypic Antibody Against Human Angiotensin Ii,
Complex With Human Angiotensin Ii
Length = 219
Score = 29.6 bits (65), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 25/42 (59%), Gaps = 3/42 (7%)
Query: 396 VQEGCRGLV--RGAEKFD-ASKGFKFSTYAHWWIKQAVRKSL 434
+QE GLV RG+ K A+ GF F+T A W++QA K L
Sbjct: 4 LQESGGGLVQPRGSLKLSCAASGFTFNTDAMNWVRQAPGKGL 45
>pdb|3QOS|H Chain H, Crystal Structure Of Human Germline Antibody 3-23B3
pdb|3QOS|B Chain B, Crystal Structure Of Human Germline Antibody 3-23B3
Length = 228
Score = 29.6 bits (65), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 412 ASKGFKFSTYAHWWIKQAVRKSL 434
A+ GF FS+YA W++QA K L
Sbjct: 23 AASGFTFSSYAMSWVRQAPGKGL 45
>pdb|2IG2|H Chain H, Dir Primaerstruktur Des Kristallisierbaren Monoklonalen
Immunoglobulins Igg1 Kol. Ii. Aminosaeuresequenz Der L-
Kette, Lambda-Typ, Subgruppe I (German)
Length = 455
Score = 29.6 bits (65), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 415 GFKFSTYAHWWIKQAVRKSL 434
GF FS+YA +W++QA K L
Sbjct: 26 GFIFSSYAMYWVRQAPGKGL 45
>pdb|3KDM|H Chain H, Crystal Structure Of Human Anti-Steroid Fab 5f2 In Complex
With Testosterone
pdb|3KDM|B Chain B, Crystal Structure Of Human Anti-Steroid Fab 5f2 In Complex
With Testosterone
Length = 225
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 412 ASKGFKFSTYAHWWIKQAVRKSL 434
A+ GF FS+YA W++QA K L
Sbjct: 23 AASGFTFSSYAMSWVRQAPGKGL 45
>pdb|2RCJ|A Chain A, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|B Chain B, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|E Chain E, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|F Chain F, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|I Chain I, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|J Chain J, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|M Chain M, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|N Chain N, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|Q Chain Q, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|R Chain R, Solution Structure Of Human Immunoglobulin M
Length = 218
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 415 GFKFSTYAHWWIKQAVRKSL 434
GF FS+YA +W++QA K L
Sbjct: 26 GFIFSSYAMYWVRQAPGKGL 45
>pdb|2FB4|H Chain H, Dir Primaerstruktur Des Kristallisierbaren Monoklonalen
Immunoglobulins Igg1 Kol. Ii. Aminosaeuresequenz Der L-
Kette, Lambda-Typ, Subgruppe I (German)
Length = 229
Score = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 415 GFKFSTYAHWWIKQAVRKSL 434
GF FS+YA +W++QA K L
Sbjct: 26 GFIFSSYAMYWVRQAPGKGL 45
>pdb|1IGC|H Chain H, Igg1 Fab Fragment (Mopc21) Complex With Domain Iii Of
Protein G From Streptococcus
Length = 222
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 26/43 (60%), Gaps = 4/43 (9%)
Query: 395 LVQEGCRGLVR--GAEKFD-ASKGFKFSTYAHWWIKQAVRKSL 434
LV+ G GLV+ G+ K A+ GF FS++ W++QA K L
Sbjct: 4 LVESG-GGLVQPGGSRKLSCAASGFTFSSFGMHWVRQAPEKGL 45
>pdb|3TZH|A Chain A, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
Reductase (Fabg)(F187a) From Vibrio Cholerae
pdb|3TZH|B Chain B, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
Reductase (Fabg)(F187a) From Vibrio Cholerae
pdb|3TZH|C Chain C, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
Reductase (Fabg)(F187a) From Vibrio Cholerae
pdb|3TZH|D Chain D, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
Reductase (Fabg)(F187a) From Vibrio Cholerae
pdb|3TZH|E Chain E, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
Reductase (Fabg)(F187a) From Vibrio Cholerae
pdb|3TZH|F Chain F, Crystal Structure Of 3-Ketoacyl-(Acyl-Carrier-Protein)
Reductase (Fabg)(F187a) From Vibrio Cholerae
Length = 251
Score = 29.3 bits (64), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%)
Query: 397 QEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPVISHGR 450
+ G G + + AS+G +T A I+ + K+L+D+ RT L + GR
Sbjct: 162 KAGVIGFTKSMAREVASRGVTVNTVAPGAIETDMTKALNDEQRTATLAQVPAGR 215
>pdb|3GJE|H Chain H, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3GJE|B Chain B, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3GJF|H Chain H, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3GJF|M Chain M, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
Length = 220
Score = 29.3 bits (64), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 412 ASKGFKFSTYAHWWIKQAVRKSL 434
A+ GF FSTY W++QA K L
Sbjct: 23 AASGFTFSTYQMSWVRQAPGKGL 45
>pdb|2AAB|H Chain H, Structural Basis Of Antigen Mimicry In A Clinically
Relevant Melanoma Antigen System
Length = 243
Score = 28.9 bits (63), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 26/43 (60%), Gaps = 4/43 (9%)
Query: 395 LVQEGCRGLVR--GAEKFD-ASKGFKFSTYAHWWIKQAVRKSL 434
LV+ G GLV+ G+ K A+ GF FS++ W++QA K L
Sbjct: 4 LVESG-GGLVQPGGSRKLSCAASGFTFSSFGMHWVRQAPEKGL 45
>pdb|1KNO|B Chain B, Crystal Structure Of The Complex Of A Catalytic Antibody
Fab With A Transition State Analog: Structural
Similarities In Esterase-Like Abzymes
pdb|1KNO|D Chain D, Crystal Structure Of The Complex Of A Catalytic Antibody
Fab With A Transition State Analog: Structural
Similarities In Esterase-Like Abzymes
pdb|1KNO|F Chain F, Crystal Structure Of The Complex Of A Catalytic Antibody
Fab With A Transition State Analog: Structural
Similarities In Esterase-Like Abzymes
Length = 220
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 26/43 (60%), Gaps = 4/43 (9%)
Query: 395 LVQEGCRGLVR--GAEKFD-ASKGFKFSTYAHWWIKQAVRKSL 434
LV+ G GLV+ G+ K A+ GF FS++ W++QA K L
Sbjct: 4 LVESG-GGLVQPGGSRKLSCAASGFTFSSFGMHWVRQAPEKGL 45
>pdb|2GFB|B Chain B, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|D Chain D, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|F Chain F, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|H Chain H, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|J Chain J, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|L Chain L, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|N Chain N, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|P Chain P, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
Length = 219
Score = 28.9 bits (63), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 26/43 (60%), Gaps = 4/43 (9%)
Query: 395 LVQEGCRGLVR--GAEKFD-ASKGFKFSTYAHWWIKQAVRKSL 434
LV+ G GLV+ G+ K A+ GF FS++ W++QA K L
Sbjct: 4 LVESG-GGLVQPGGSRKLSCAASGFTFSSFGMHWVRQAPEKGL 45
>pdb|3CFI|C Chain C, Nanobody-Aided Structure Determination Of The Epsi:epsj
Pseudopilin Heterdimer From Vibrio Vulnificus
pdb|3CFI|F Chain F, Nanobody-Aided Structure Determination Of The Epsi:epsj
Pseudopilin Heterdimer From Vibrio Vulnificus
pdb|3CFI|I Chain I, Nanobody-Aided Structure Determination Of The Epsi:epsj
Pseudopilin Heterdimer From Vibrio Vulnificus
pdb|3CFI|L Chain L, Nanobody-Aided Structure Determination Of The Epsi:epsj
Pseudopilin Heterdimer From Vibrio Vulnificus
Length = 116
Score = 28.5 bits (62), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 25/42 (59%), Gaps = 3/42 (7%)
Query: 396 VQEGCRGLVR--GAEKFD-ASKGFKFSTYAHWWIKQAVRKSL 434
+QE GLV+ G+ + A+ GF FS YA W++QA K L
Sbjct: 4 LQESGGGLVQPGGSLRLSCAASGFAFSGYAMSWVRQAPGKGL 45
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
0.315 0.129 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,906,177
Number of Sequences: 62578
Number of extensions: 312440
Number of successful extensions: 1218
Number of sequences better than 100.0: 52
Number of HSP's better than 100.0 without gapping: 40
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1169
Number of HSP's gapped (non-prelim): 54
length of query: 458
length of database: 14,973,337
effective HSP length: 102
effective length of query: 356
effective length of database: 8,590,381
effective search space: 3058175636
effective search space used: 3058175636
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)