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= 014852
(417 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IYD|F Chain F, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
Length = 613
Score = 112 bits (280), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 56/154 (36%), Positives = 96/154 (62%), Gaps = 9/154 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++R++ + +RT+R+P H+ E + L R ++ L+E G P+ + +AE + M + K+
Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKI 494
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHIHCG 417
R KV + +E S+ G+ H G
Sbjct: 495 R-------KVLKIAKEPI-SMETPIGDDEDSHLG 520
>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 = 112 bits (280), Expect = 4e-25, Method: Compositional matrix adjust.
Identities = 56/154 (36%), Positives = 96/154 (62%), Gaps = 9/154 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++R++ + +RT+R+P H+ E + L R ++ L+E G P+ + +AE + M + K+
Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKI 494
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHIHCG 417
R KV + +E S+ G+ H G
Sbjct: 495 R-------KVLKIAKEPI-SMETPIGDDEDSHLG 520
>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 = 108 bits (270), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 67/201 (33%), Positives = 112/201 (55%), Gaps = 16/201 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLS----------LDDHKLR--LKERLGCEPS 240
++ Y+ + LLT E + L++K++ G+ LD +R ++ ++
Sbjct: 5 VRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTAR 64
Query: 241 MEQLAASLRISRPELQSILM---ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQG 297
+E++ L+ EL+ L E AR+ L+ +N+RLV+SIA++Y G DL+Q
Sbjct: 65 VEEVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQE 124
Query: 298 GLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNA 356
G GL+R +EKF+ + FK STY WWIRQ ++RA+ + +RT+R+P H+ E + L R A
Sbjct: 125 GNQGLIRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTA 184
Query: 357 KLRLEEKGVTPSVDRIAEYLN 377
+ +E G PS + IAE +
Sbjct: 185 RQLQQELGREPSYEEIAEAMG 205
>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 = 107 bits (266), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 72/226 (31%), Positives = 118/226 (52%), Gaps = 35/226 (15%)
Query: 185 SPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLS----------LDDHKLR---- 230
P + + ++ Y+ + LLT E + L++K++ G+ LD +R
Sbjct: 1 GPHMTSDPVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVR 60
Query: 231 --------------LKERLGCEP-SMEQLAASLRISRPELQSILM---ECSLAREKLVMS 272
LKE+ +P ++E++ L+ EL+ L E AR+ L+ +
Sbjct: 61 AKILGTARIQKIPGLKEK--PDPKTVEEVDGKLKSLPKELKRYLHIAREGEAARQHLIEA 118
Query: 273 NVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRA 332
N+RLV+SIA++Y G DL+Q G GL+R +EKF+ + FK STY WWIRQ ++RA
Sbjct: 119 NLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATWWIRQAINRA 178
Query: 333 LVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLN 377
+ + +RT+R+P H+ E + L R A+ +E G PS + IAE +
Sbjct: 179 IADQARTIRIPVHMVETINKLSRTARQLQQELGREPSYEEIAEAMG 224
>pdb|1L9Z|H Chain H, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
Length = 438
Score = 107 bits (266), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 52/121 (42%), Positives = 77/121 (63%), Gaps = 1/121 (0%)
Query: 258 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 317
I E AR+ L+ +N+RLV+SIA++Y G DL+Q G GL+R +EKF+ + FK
Sbjct: 191 IAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKF 250
Query: 318 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 376
STY WWIRQ ++RA+ + +RT+R+P H+ E + L R A+ +E G PS + IAE +
Sbjct: 251 STYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPSYEEIAEAM 310
Query: 377 N 377
Sbjct: 311 G 311
>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 = 106 bits (264), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 51/121 (42%), Positives = 77/121 (63%), Gaps = 1/121 (0%)
Query: 258 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 317
I E AR+ L+ +N+RLV+SIA++Y G DL+Q G GL+R +EKF+ + FK
Sbjct: 176 IAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKF 235
Query: 318 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 376
STY WWIRQ ++RA+ + +RT+R+P H+ E + L R A+ +E G P+ + IAE +
Sbjct: 236 STYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPTYEEIAEAM 295
Query: 377 N 377
Sbjct: 296 G 296
>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 = 106 bits (264), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 51/121 (42%), Positives = 77/121 (63%), Gaps = 1/121 (0%)
Query: 258 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 317
I E AR+ L+ +N+RLV+SIA++Y G DL+Q G GL+R +EKF+ + FK
Sbjct: 176 IAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKF 235
Query: 318 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 376
STY WWIRQ ++RA+ + +RT+R+P H+ E + L R A+ +E G P+ + IAE +
Sbjct: 236 STYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPTYEEIAEAM 295
Query: 377 N 377
Sbjct: 296 G 296
>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 = 106 bits (264), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 52/121 (42%), Positives = 77/121 (63%), Gaps = 1/121 (0%)
Query: 258 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 317
I E AR+ L+ +N+RLV+SIA++Y G DL+Q G GL+R +EKF+ + FK
Sbjct: 100 IAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKF 159
Query: 318 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 376
STY WWIRQ ++RA+ + +RT+R+P H+ E + L R A+ +E G PS + IAE +
Sbjct: 160 STYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPSYEEIAEAM 219
Query: 377 N 377
Sbjct: 220 G 220
>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 = 106 bits (264), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 51/121 (42%), Positives = 77/121 (63%), Gaps = 1/121 (0%)
Query: 258 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 317
I E AR+ L+ +N+RLV+SIA++Y G DL+Q G GL+R +EKF+ + FK
Sbjct: 196 IAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKF 255
Query: 318 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 376
STY WWIRQ ++RA+ + +RT+R+P H+ E + L R A+ +E G P+ + IAE +
Sbjct: 256 STYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPTYEEIAEAM 315
Query: 377 N 377
Sbjct: 316 G 316
>pdb|1SIG|A Chain A, Crystal Structure Of A Sigma70 Subunit Fragment From
Escherichia Coli Rna Polymerase
Length = 339
Score = 86.3 bits (212), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 33/74 (44%), Positives = 56/74 (75%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 266 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 325
Query: 325 IRQGVSRALVENSR 338
IRQ ++R++ + +R
Sbjct: 326 IRQAITRSIADQAR 339
>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 = 85.5 bits (210), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 37/81 (45%), Positives = 54/81 (66%)
Query: 258 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 317
I E AR+ L+ +N+RLV+SIA++Y G DL+Q G GL+R +EKF+ +GF
Sbjct: 99 IAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRGFAF 158
Query: 318 STYVYWWIRQGVSRALVENSR 338
STY WWIRQ ++RA+ + +R
Sbjct: 159 STYATWWIRQAINRAIADQAR 179
>pdb|1L0O|C Chain C, Crystal Structure Of The Bacillus Stearothermophilus Anti-
Sigma Factor Spoiiab With The Sporulation Sigma Factor
Sigmaf
Length = 243
Score = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 49/127 (38%), Positives = 74/127 (58%), Gaps = 2/127 (1%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR++++ N+RLV S+ QR+ N G + DL Q G IGLL+ ++KFD S K STY
Sbjct: 29 ARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLLKSVDKFDLSYDVKFSTYAVPM 88
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRIAEYLNMSQKKV 383
I + R L ++ T+++ L E IR AK L + +G P+V IA++L +S + V
Sbjct: 89 IIGEIQRFLRDDG-TVKVSRSLKEMGNKIRKAKDELSKTRGRAPTVTEIADHLGISPEDV 147
Query: 384 RNATEAI 390
A EA+
Sbjct: 148 VLAQEAV 154
>pdb|1RP3|A Chain A, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma
Complex, Sigma-28FLGM
pdb|1RP3|C Chain C, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma
Complex, Sigma-28FLGM
pdb|1RP3|E Chain E, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma
Complex, Sigma-28FLGM
pdb|1RP3|G Chain G, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma
Complex, Sigma-28FLGM
pdb|1SC5|A Chain A, Sigma-28(Flia)FLGM COMPLEX
Length = 239
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 32/135 (23%), Positives = 68/135 (50%), Gaps = 13/135 (9%)
Query: 264 LAREKLVMSNVRLVMSIA---QRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
+ RE+L++ + LV +IA +++ D+ DL+ G+IGL++ ++ + + Y
Sbjct: 12 IEREELILKYLPLVKAIATNIKKHLPEDVDIRDLISYGVIGLIKAVDNLSTENPKRAEAY 71
Query: 321 VYWWIRQGVS---RALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYL 376
+ I+ + R+L SR +R E+ I+ +L+EK G P+ + +A+ L
Sbjct: 72 IKLRIKGAIYDYLRSLDFGSRQVR------EKERRIKEVVEKLKEKLGREPTDEEVAKEL 125
Query: 377 NMSQKKVRNATEAIG 391
+S +++ + I
Sbjct: 126 GISTEELFKTLDKIN 140
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 34/66 (51%), Gaps = 10/66 (15%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA 289
+LKE+LG EP+ E++A L IS EL L + N ++S+ + + +
Sbjct: 107 KLKEKLGREPTDEEVAKELGISTEELFKTLDKI----------NFSYILSLEEVFRDFAR 156
Query: 290 DMADLV 295
D ++L+
Sbjct: 157 DYSELI 162
>pdb|3MZY|A Chain A, The Crystal Structure Of The Rna Polymerase Sigma-H Factor
F Fusobacterium Nucleatum To 2.5a
Length = 164
Score = 36.6 bits (83), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 27/40 (67%), Gaps = 1/40 (2%)
Query: 288 GADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
GA+ DLVQ G++GLL+ I+ +D +K S++ + IR+
Sbjct: 1 GAEKEDLVQEGILGLLKAIKFYDETKS-SFSSFAFLCIRR 39
>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 = 35.8 bits (81), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 38/180 (21%), Positives = 77/180 (42%), Gaps = 18/180 (10%)
Query: 172 LQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRL 231
L NG ++ +PE I+ LK ++L + G++ D+ +R+
Sbjct: 56 LGDNGKGMALNVTNPESIEAVLKAITDEFGGVDILVN----------NAGITRDNLLMRM 105
Query: 232 KERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADM 291
KE + L + R+S+ L+ ++ + R+ +++ V S+ N G
Sbjct: 106 KEEEWSDIMETNLTSIFRLSKAVLRGMMKK----RQGRIIN----VGSVVGTMGNAGQAN 157
Query: 292 ADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG 351
+ G+IG + + + +S+G ++T +I +++AL + RT L RLG
Sbjct: 158 FAAAKAGVIGFTKSMAREVASRGVTVNTVAPGFIETDMTKALNDEQRTATLAQVPAGRLG 217
>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 = 35.8 bits (81), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 38/180 (21%), Positives = 77/180 (42%), Gaps = 18/180 (10%)
Query: 172 LQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRL 231
L NG ++ +PE I+ LK ++L + G++ D+ +R+
Sbjct: 56 LGDNGKGMALNVTNPESIEAVLKAITDEFGGVDILVN----------NAGITRDNLLMRM 105
Query: 232 KERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADM 291
KE + L + R+S+ L+ ++ + R+ +++ V S+ N G
Sbjct: 106 KEEEWSDIMETNLTSIFRLSKAVLRGMMKK----RQGRIIN----VGSVVGTMGNAGQAN 157
Query: 292 ADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG 351
+ G+IG + + + +S+G ++T +I +++AL + RT L RLG
Sbjct: 158 YAAAKAGVIGFTKSMAREVASRGVTVNTVAPGFIETDMTKALNDEQRTATLAQVPAGRLG 217
>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 = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 41/183 (22%), Positives = 80/183 (43%), Gaps = 24/183 (13%)
Query: 172 LQQNGSKQLRSMISPELIQNRLKGYVK---GVVSEELLTHAEVVRLSKKIKTGLSLDDHK 228
L NG ++ +PE I+ LK GV + L+ +A++ R D+
Sbjct: 56 LGDNGKGMALNVTNPESIEAVLKAITDEFGGV--DILVNNADITR-----------DNLL 102
Query: 229 LRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMG 288
+R+KE + L + R+S+ L+ ++ + R+ +++ V S+ N G
Sbjct: 103 MRMKEEEWSDIMETNLTSIFRLSKAVLRGMMKK----RQGRIIN----VGSVVGTMGNAG 154
Query: 289 ADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHE 348
+ G+IG + + + +S+G ++T +I +++AL + RT L
Sbjct: 155 QANYAAAKAGVIGFTKSMAREVASRGVTVNTVAPGFIETDMTKALNDEQRTATLAQVPAG 214
Query: 349 RLG 351
RLG
Sbjct: 215 RLG 217
>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 = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 38/180 (21%), Positives = 76/180 (42%), Gaps = 18/180 (10%)
Query: 172 LQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRL 231
L NG ++ +PE I+ LK ++L + G++ D+ +R+
Sbjct: 56 LGDNGKGMALNVTNPESIEAVLKAITDEFGGVDILVN----------NAGITRDNLLMRM 105
Query: 232 KERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADM 291
KE + L + R+S+ L+ ++ + R+ +++ V S+ N G
Sbjct: 106 KEEEWSDIMETNLTSIFRLSKAVLRGMMKK----RQGRIIN----VGSVVGTMGNAGQAN 157
Query: 292 ADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG 351
+ G+IG + + + +S+G ++T I +++AL + RT L RLG
Sbjct: 158 YAAAKAGVIGFTKSMAREVASRGVTVNTVAPGAIETDMTKALNDEQRTATLAQVPAGRLG 217
>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 = 33.5 bits (75), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 41/183 (22%), Positives = 79/183 (43%), Gaps = 24/183 (13%)
Query: 172 LQQNGSKQLRSMISPELIQNRLKGYVK---GVVSEELLTHAEVVRLSKKIKTGLSLDDHK 228
L NG ++ +PE I+ LK GV + L+ +A + R D+
Sbjct: 56 LGDNGKGMALNVTNPESIEAVLKAITDEFGGV--DILVNNAAITR-----------DNLL 102
Query: 229 LRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMG 288
+R+KE + L + R+S+ L+ ++ + R+ +++ V S+ N G
Sbjct: 103 MRMKEEEWSDIMETNLTSIFRLSKAVLRGMMKK----RQGRIIN----VGSVVGTMGNAG 154
Query: 289 ADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHE 348
+ G+IG + + + +S+G ++T +I +++AL + RT L
Sbjct: 155 QANYAAAKAGVIGFTKSMAREVASRGVTVNTVAPGFIETDMTKALNDEQRTATLAQVPAG 214
Query: 349 RLG 351
RLG
Sbjct: 215 RLG 217
>pdb|4G1M|B Chain B, Re-Refinement Of Alpha V Beta 3 Structure
Length = 692
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 40/168 (23%), Positives = 67/168 (39%), Gaps = 29/168 (17%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
S +AS + P L L EKL N+ L+ ++ + N+ + ++L+ G
Sbjct: 277 SDNHYSASTTMDYPSL-------GLMTEKLSQKNINLIFAVTENVVNLYQNYSELIPGTT 329
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR 359
+G+L DSS ++ Y IR V + + L E L L NA
Sbjct: 330 VGVL----SMDSSNVLQLIVDAYGKIRSKVELEVRD----------LPEELSLSFNATCL 375
Query: 360 LEEKGVTPSVD-----RIAEYLNMS-QKKVRNATEAIGKVFSLDREAF 401
E V P + +I + ++ S + KVR + K F++ F
Sbjct: 376 NNE--VIPGLKSCMGLKIGDTVSFSIEAKVRGCPQEKEKSFTIKPVGF 421
>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 = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 38/180 (21%), Positives = 71/180 (39%), Gaps = 18/180 (10%)
Query: 172 LQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRL 231
L NG ++ +PE I+ LK ++L + G++ D+ R
Sbjct: 53 LGDNGKGXALNVTNPESIEAVLKAITDEFGGVDILVN----------NAGITRDNLLXRX 102
Query: 232 KERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADM 291
KE + L + R+S+ ++L R+ +++ V S+ N G
Sbjct: 103 KEEEWSDIXETNLTSIFRLSK----AVLRGXXKKRQGRIIN----VGSVVGTXGNAGQAN 154
Query: 292 ADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG 351
+ G+IG + + +S+G ++T +I ++AL + RT L RLG
Sbjct: 155 YAAAKAGVIGFTKSXAREVASRGVTVNTVAPGFIETDXTKALNDEQRTATLAQVPAGRLG 214
>pdb|1JV2|B Chain B, Crystal Structure Of The Extracellular Segment Of Integrin
Alphavbeta3
pdb|1L5G|B Chain B, Crystal Structure Of The Extracellular Segment Of Integrin
Avb3 In Complex With An Arg-Gly-Asp Ligand
pdb|1M1X|B Chain B, Crystal Structure Of The Extracellular Segment Of Integrin
Alpha Vbeta3 Bound To Mn2+
pdb|1U8C|B Chain B, A Novel Adaptation Of The Integrin Psi Domain Revealed
From Its Crystal Structure
Length = 692
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 40/168 (23%), Positives = 67/168 (39%), Gaps = 29/168 (17%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
S +AS + P L L EKL N+ L+ ++ + N+ + ++L+ G
Sbjct: 277 SDNHYSASTTMDYPSL-------GLMTEKLSQKNINLIFAVTENVVNLYQNYSELIPGTT 329
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR 359
+G+L DSS ++ Y IR V + + L E L L NA
Sbjct: 330 VGVL----SMDSSNVLQLIVDAYGKIRSKVELEVRD----------LPEELSLSFNATCL 375
Query: 360 LEEKGVTPSVD-----RIAEYLNMS-QKKVRNATEAIGKVFSLDREAF 401
E V P + +I + ++ S + KVR + K F++ F
Sbjct: 376 NNE--VIPGLKSCMGLKIGDTVSFSIEAKVRGCPQEKEKSFTIKPVGF 421
>pdb|3IJE|B Chain B, Crystal Structure Of The Complete Integrin Alhavbeta3
Ectodomain Plus An Alpha/beta Transmembrane Fragment
Length = 695
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 40/168 (23%), Positives = 67/168 (39%), Gaps = 29/168 (17%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
S +AS + P L L EKL N+ L+ ++ + N+ + ++L+ G
Sbjct: 277 SDNHYSASTTMDYPSL-------GLMTEKLSQKNINLIFAVTENVVNLYQNYSELIPGTT 329
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR 359
+G+L DSS ++ Y IR V + + L E L L NA
Sbjct: 330 VGVL----SMDSSNVLQLIVDAYGKIRSKVELEVRD----------LPEELSLSFNATCL 375
Query: 360 LEEKGVTPSVD-----RIAEYLNMS-QKKVRNATEAIGKVFSLDREAF 401
E V P + +I + ++ S + KVR + K F++ F
Sbjct: 376 NNE--VIPGLKSCMGLKIGDTVSFSIEAKVRGCPQEKEKSFTIKPVGF 421
>pdb|2VC2|B Chain B, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist L-739758
pdb|2VDK|B Chain B, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece
pdb|2VDL|B Chain B, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece
pdb|2VDM|B Chain B, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist Tirofiban
pdb|2VDN|B Chain B, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist Eptifibatide
pdb|2VDO|B Chain B, Integrin Alphaiibbeta3 Headpiece Bound To Fibrinogen Gamma
Chain Peptide, Hhlggakqagdv
pdb|2VDP|B Chain B, Integrin Alphaiibbeta3 Headpiece Bound To Fibrinogen Gamma
Chain Peptide,Lggakqagdv
pdb|2VDQ|B Chain B, Integrin Alphaiibbeta3 Headpiece Bound To A Chimeric
Fibrinogen Gamma Chain Peptide, Hhlggakqrgdv
pdb|2VDR|B Chain B, Integrin Alphaiibbeta3 Headpiece Bound To A Chimeric
Fibrinogen Gamma Chain Peptide, Lggakqrgdv
pdb|3FCU|B Chain B, Structure Of Headpiece Of Integrin Aiibb3 In Open
Conformation
pdb|3FCU|D Chain D, Structure Of Headpiece Of Integrin Aiibb3 In Open
Conformation
pdb|3FCU|F Chain F, Structure Of Headpiece Of Integrin Aiibb3 In Open
Conformation
Length = 461
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 40/168 (23%), Positives = 67/168 (39%), Gaps = 29/168 (17%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
S +AS + P L L EKL N+ L+ ++ + N+ + ++L+ G
Sbjct: 277 SDNHYSASTTMDYPSL-------GLMTEKLSQKNINLIFAVTENVVNLYQNYSELIPGTT 329
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR 359
+G+L DSS ++ Y IR V + + L E L L NA
Sbjct: 330 VGVL----SMDSSNVLQLIVDAYGKIRSKVELEVRD----------LPEELSLSFNATCL 375
Query: 360 LEEKGVTPSVD-----RIAEYLNMS-QKKVRNATEAIGKVFSLDREAF 401
E V P + +I + ++ S + KVR + K F++ F
Sbjct: 376 NNE--VIPGLKSCMGLKIGDTVSFSIEAKVRGCPQEKEKSFTIKPVGF 421
>pdb|3FCS|B Chain B, Structure Of Complete Ectodomain Of Integrin Aiibb3
pdb|3FCS|D Chain D, Structure Of Complete Ectodomain Of Integrin Aiibb3
Length = 690
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 40/168 (23%), Positives = 67/168 (39%), Gaps = 29/168 (17%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
S +AS + P L L EKL N+ L+ ++ + N+ + ++L+ G
Sbjct: 277 SDNHYSASTTMDYPSL-------GLMTEKLSQKNINLIFAVTENVVNLYQNYSELIPGTT 329
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR 359
+G+L DSS ++ Y IR V + + L E L L NA
Sbjct: 330 VGVL----SMDSSNVLQLIVDAYGKIRSKVELEVRD----------LPEELSLSFNATCL 375
Query: 360 LEEKGVTPSVD-----RIAEYLNMS-QKKVRNATEAIGKVFSLDREAF 401
E V P + +I + ++ S + KVR + K F++ F
Sbjct: 376 NNE--VIPGLKSCMGLKIGDTVSFSIEAKVRGCPQEKEKSFTIKPVGF 421
>pdb|4G1E|B Chain B, Crystal Structure Of Integrin Alpha V Beta 3 With
Coil-Coiled Tag
Length = 738
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 40/168 (23%), Positives = 67/168 (39%), Gaps = 29/168 (17%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
S +AS + P L L EKL N+ L+ ++ + N+ + ++L+ G
Sbjct: 277 SDNHYSASTTMDYPSL-------GLMTEKLSQKNINLIFAVTENVVNLYQNYSELIPGTT 329
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR 359
+G+L DSS ++ Y IR V + + L E L L NA
Sbjct: 330 VGVL----SMDSSNVLQLIVDAYGKIRSKVELEVRD----------LPEELSLSFNATCL 375
Query: 360 LEEKGVTPSVD-----RIAEYLNMS-QKKVRNATEAIGKVFSLDREAF 401
E V P + +I + ++ S + KVR + K F++ F
Sbjct: 376 NNE--VIPGLKSCMGLKIGDTVSFSIEAKVRGCPQEKEKSFTIKPVGF 421
>pdb|3NID|B Chain B, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist That
Does Not Induce Opening
pdb|3NID|D Chain D, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist That
Does Not Induce Opening
pdb|3NIF|B Chain B, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIF|D Chain D, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIG|B Chain B, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIG|D Chain D, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
Length = 471
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 40/168 (23%), Positives = 67/168 (39%), Gaps = 29/168 (17%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
S +AS + P L L EKL N+ L+ ++ + N+ + ++L+ G
Sbjct: 277 SDNHYSASTTMDYPSL-------GLMTEKLSQKNINLIFAVTENVVNLYQNYSELIPGTT 329
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR 359
+G+L DSS ++ Y IR V + + L E L L NA
Sbjct: 330 VGVL----SMDSSNVLQLIVDAYGKIRSKVELEVRD----------LPEELSLSFNATCL 375
Query: 360 LEEKGVTPSVD-----RIAEYLNMS-QKKVRNATEAIGKVFSLDREAF 401
E V P + +I + ++ S + KVR + K F++ F
Sbjct: 376 NNE--VIPGLKSCMGLKIGDTVSFSIEAKVRGCPQEKEKSFTIKPVGF 421
>pdb|3T3M|B Chain B, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3M|D Chain D, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|B Chain B, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|D Chain D, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
Length = 472
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 40/168 (23%), Positives = 67/168 (39%), Gaps = 29/168 (17%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
S +AS + P L L EKL N+ L+ ++ + N+ + ++L+ G
Sbjct: 277 SDNHYSASTTMDYPSL-------GLMTEKLSQKNINLIFAVTENVVNLYQNYSELIPGTT 329
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR 359
+G+L DSS ++ Y IR V + + L E L L NA
Sbjct: 330 VGVL----SMDSSNVLQLIVDAYGKIRSKVELEVRD----------LPEELSLSFNATCL 375
Query: 360 LEEKGVTPSVD-----RIAEYLNMS-QKKVRNATEAIGKVFSLDREAF 401
E V P + +I + ++ S + KVR + K F++ F
Sbjct: 376 NNE--VIPGLKSCMGLKIGDTVSFSIEAKVRGCPQEKEKSFTIKPVGF 421
>pdb|1TYE|B Chain B, Structural Basis For Allostery In Integrins And Binding Of
Ligand- Mimetic Therapeutics To The Platelet Receptor
For Fibrinogen
pdb|1TYE|D Chain D, Structural Basis For Allostery In Integrins And Binding Of
Ligand- Mimetic Therapeutics To The Platelet Receptor
For Fibrinogen
pdb|1TYE|F Chain F, Structural Basis For Allostery In Integrins And Binding Of
Ligand- Mimetic Therapeutics To The Platelet Receptor
For Fibrinogen
Length = 440
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 60/144 (41%), Gaps = 22/144 (15%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
L EKL N+ L+ ++ + N+ + ++L+ G +G+L DSS ++ Y
Sbjct: 294 LMTEKLSQKNINLIFAVTENVVNLYQNYSELIPGTTVGVL----SMDSSNVLQLIVDAYG 349
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEKGVTPSVD-----RIAEYLNM 378
IR V + + L E L L NA E V P + +I + ++
Sbjct: 350 KIRSKVELEVRD----------LPEELSLSFNATCLNNE--VIPGLKSCMGLKIGDTVSF 397
Query: 379 S-QKKVRNATEAIGKVFSLDREAF 401
S + KVR + K F++ F
Sbjct: 398 SIEAKVRGCPQEKEKSFTIKPVGF 421
>pdb|3KR3|H Chain H, Crystal Structure Of Igf-Ii Antibody Complex
Length = 251
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 311 SSKGFKISTYVYWWIRQGVSRAL 333
++ GF S Y+ WW+RQ + L
Sbjct: 23 AASGFTFSNYIMWWVRQAPGKGL 45
>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 = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 19/37 (51%)
Query: 297 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRAL 333
GGL+ + ++ GF S YV WW+RQ + L
Sbjct: 9 GGLVQPGGSLRLSCAASGFTFSRYVMWWVRQAPGKGL 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
0.316 0.130 0.362
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,572,144
Number of Sequences: 62578
Number of extensions: 375677
Number of successful extensions: 1302
Number of sequences better than 100.0: 43
Number of HSP's better than 100.0 without gapping: 35
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1258
Number of HSP's gapped (non-prelim): 49
length of query: 417
length of database: 14,973,337
effective HSP length: 101
effective length of query: 316
effective length of database: 8,652,959
effective search space: 2734335044
effective search space used: 2734335044
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)