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= 043917
(423 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I7T|A Chain A, Structure Of Human Cpsf-73
pdb|2I7V|A Chain A, Structure Of Human Cpsf-73
Length = 459
Score = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 80/231 (34%), Positives = 131/231 (56%), Gaps = 13/231 (5%)
Query: 1 VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMN--LRVPIYFSAGLTIQANMYYKML 58
VH V GG+ LIP FALGRAQEL ++LD+YW+ +PIY+++ L + Y+
Sbjct: 226 VHDIVNRGGRGLIPVFALGRAQELLLILDEYWQNHPELHDIPIYYASSLAKKCMAVYQTY 285
Query: 59 ISWTSQKVKETYN---AFDFKNVHNFDR-SLIDAPGPCVLFATPGMLTGGFSLEVFKHWA 114
++ + K+++ N F FK++ N D GP V+ A+PGM+ G S E+F+ W
Sbjct: 286 VNAMNDKIRKQININNPFVFKHISNLKSMDHFDDIGPSVVMASPGMMQSGLSRELFESWC 345
Query: 115 PSEMNLITLPGYCLAGTIGNKLMSGNPTI-ELEGTKIDVRCQIHQLAFSPHTDGKGIMDL 173
+ N + + GYC+ GT+ +MS I + G K+ ++ + ++FS HTD + +
Sbjct: 346 TDKRNGVIIAGYCVEGTLAKHIMSEPEEITTMSGQKLPLKMSVDYISFSAHTDYQQTSEF 405
Query: 174 VKFLSPQHVILVHGEKPKMATLKERI------QSELGIKCYDPANNESMCI 218
++ L P HVILVHGE+ +MA LK + E+ I+ ++P N E++ +
Sbjct: 406 IRALKPPHVILVHGEQNEMARLKAALIREYEDNDEVHIEVHNPRNTEAVTL 456
>pdb|3AF5|A Chain A, The Crystal Structure Of An Archaeal Cpsf Subunit, Ph1404
From Pyrococcus Horikoshii
pdb|3AF6|A Chain A, The Crystal Structure Of An Archaeal Cpsf Subunit, Ph1404
From Pyrococcus Horikoshii Complexed With Rna-Analog
Length = 651
Score = 120 bits (302), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 78/234 (33%), Positives = 119/234 (50%), Gaps = 19/234 (8%)
Query: 1 VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLIS 60
+H + GGKVLIPA A+GRAQE+ ++L++Y + VPIY G+ +A +
Sbjct: 416 IHNTIKRGGKVLIPAMAVGRAQEVMMVLEEYARIGGIEVPIYLD-GMIWEATAIHTAYPE 474
Query: 61 WTSQKV-----KETYNAFDFKNVHNFDRS-----LIDAPGPCVLFATPGMLTGGFSLEVF 110
+ S+++ KE YN F + H S +ID+ P ++ A+ GML GG S+E F
Sbjct: 475 YLSRRLREQIFKEGYNPFLSEIFHPVANSRERQDIIDSNEPAIIIASSGMLVGGPSVEYF 534
Query: 111 KHWAPSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTK-----IDVRCQIHQL-AFSPH 164
K AP N I Y GT+G ++ SG I + G + I V ++H + FS H
Sbjct: 535 KQLAPDPKNSIIFVSYQAEGTLGRQVQSGIREIPMVGEEGRTEVIKVNMEVHTIDGFSGH 594
Query: 165 TDGKGIMDLVKFL--SPQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESM 216
D + +M+ V + P+ +I VHGE K L I + GI P N +++
Sbjct: 595 ADRRELMNYVAKVRPRPERIITVHGEPQKCLDLATSIHRKFGISTRAPNNLDTI 648
>pdb|2YCB|A Chain A, Structure Of The Archaeal Beta-Casp Protein With
N-Terminal Kh Domains From Methanothermobacter
Thermautotrophicus
pdb|2YCB|B Chain B, Structure Of The Archaeal Beta-Casp Protein With
N-Terminal Kh Domains From Methanothermobacter
Thermautotrophicus
Length = 636
Score = 102 bits (253), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 77/236 (32%), Positives = 120/236 (50%), Gaps = 19/236 (8%)
Query: 1 VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNL-RVPIYFSAGLTIQANMYYKMLI 59
++ + GGK+LIP FA+GRAQEL I+L++Y + VP+Y G+ +AN +
Sbjct: 401 IYSTLRRGGKILIPVFAVGRAQELMIVLEEYIRTGIIDEVPVYID-GMIWEANAIHTARP 459
Query: 60 SWTSQKVKET-----YNAFD---FKNVHNFD-RSLIDAPGPCVLFATPGMLTGGFSLEVF 110
+ S+ +++ +N F F V+ D R I P ++ +T GMLTGG SLE F
Sbjct: 460 EYLSKDLRDQIFHMGHNPFISDIFHKVNGMDERREIVEGEPSIILSTSGMLTGGNSLEYF 519
Query: 111 KHWAPSEMNLITLPGYCLAGTIGNKLMSGNPTIEL--EGTKI---DVRCQIHQL-AFSPH 164
K N + GY G++G ++ G I L E K+ +VR I + FS H
Sbjct: 520 KWLCEDPDNSLVFVGYQAEGSLGRRIQKGWKEIPLKDEDDKMRVYNVRMNIKTIEGFSGH 579
Query: 165 TDGKGIMDLVKFLS--PQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESMCI 218
+D + +M+ VK +S P+ ++L HG+ K L I I+ P N E++ I
Sbjct: 580 SDRRQLMEYVKRISPKPEKILLCHGDNYKTLDLASSIYRTYRIETKTPLNLETVRI 635
>pdb|3A4Y|A Chain A, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3A4Y|B Chain B, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3A4Y|C Chain C, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3A4Y|D Chain D, Crystal Structure Of H61a Mutant Ttha0252 From Thermus
Thermophilus Hb8
Length = 431
Score = 94.4 bits (233), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 61/199 (30%), Positives = 101/199 (50%), Gaps = 13/199 (6%)
Query: 1 VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLIS 60
+ K ++ GGKVLIP FA+ RAQE+ +L + R+ R PIY + + + Y L+
Sbjct: 208 LEKTLSQGGKVLIPTFAVERAQEILYVLYTHGHRLP-RAPIYLDSPMAGRVLSLYPRLVR 266
Query: 61 WTSQKVKETY----NAFDFKNVHNFD-----RSLIDAPGPCVLFATPGMLTGGFSLEVFK 111
+ S++V+ + N F + + ++L APGP V+ A GML GG L K
Sbjct: 267 YFSEEVQAHFLQGKNPFRPAGLEVVEHTEASKALNRAPGPMVVLAGSGMLAGGRILHHLK 326
Query: 112 HWAPSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTKIDVRCQIHQL-AFSPHTDGKGI 170
H N + GY G +G ++++ P + + G ++ +R +H L FS H +
Sbjct: 327 HGLSDPRNALVFVGYQPQGGLGAEIIARPPAVRILGEEVPLRASVHTLGGFSGHAGQDEL 386
Query: 171 MDLVKFLSPQHVILVHGEK 189
+D ++ V+LVHGE+
Sbjct: 387 LDWLQ--GEPRVVLVHGEE 403
>pdb|3IEK|A Chain A, Crystal Structure Of Native Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IEK|B Chain B, Crystal Structure Of Native Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IEK|C Chain C, Crystal Structure Of Native Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IEK|D Chain D, Crystal Structure Of Native Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IEL|A Chain A, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Ump
pdb|3IEL|B Chain B, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Ump
pdb|3IEL|C Chain C, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Ump
pdb|3IEL|D Chain D, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Ump
pdb|3IEM|A Chain A, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Rna Analog
pdb|3IEM|B Chain B, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Rna Analog
pdb|3IEM|C Chain C, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Rna Analog
pdb|3IEM|D Chain D, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8 Complexed With Rna Analog
Length = 431
Score = 94.4 bits (233), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 61/197 (30%), Positives = 100/197 (50%), Gaps = 13/197 (6%)
Query: 3 KCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLISWT 62
K ++ GGKVLIP FA+ RAQE+ +L + R+ R PIY + + + Y L+ +
Sbjct: 210 KTLSQGGKVLIPTFAVERAQEILYVLYTHGHRLP-RAPIYLDSPMAGRVLSLYPRLVRYF 268
Query: 63 SQKVKETY----NAFDFKNVHNFD-----RSLIDAPGPCVLFATPGMLTGGFSLEVFKHW 113
S++V+ + N F + + ++L APGP V+ A GML GG L KH
Sbjct: 269 SEEVQAHFLQGKNPFRPAGLEVVEHTEASKALNRAPGPMVVLAGSGMLAGGRILHHLKHG 328
Query: 114 APSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTKIDVRCQIHQL-AFSPHTDGKGIMD 172
N + GY G +G ++++ P + + G ++ +R +H L FS H ++D
Sbjct: 329 LSDPRNALVFVGYQPQGGLGAEIIARPPAVRILGEEVPLRASVHTLGGFSGHAGQDELLD 388
Query: 173 LVKFLSPQHVILVHGEK 189
++ V+LVHGE+
Sbjct: 389 WLQ--GEPRVVLVHGEE 403
>pdb|3IDZ|A Chain A, Crystal Structure Of S378q Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IDZ|B Chain B, Crystal Structure Of S378q Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IDZ|C Chain C, Crystal Structure Of S378q Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IDZ|D Chain D, Crystal Structure Of S378q Mutant Ttha0252 From Thermus
Thermophilus Hb8
Length = 431
Score = 92.8 bits (229), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 60/197 (30%), Positives = 99/197 (50%), Gaps = 13/197 (6%)
Query: 3 KCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLISWT 62
K ++ GGKVLIP FA+ RAQE+ +L + R+ R PIY + + + Y L+ +
Sbjct: 210 KTLSQGGKVLIPTFAVERAQEILYVLYTHGHRLP-RAPIYLDSPMAGRVLSLYPRLVRYF 268
Query: 63 SQKVKETY----NAFDFKNVHNFD-----RSLIDAPGPCVLFATPGMLTGGFSLEVFKHW 113
S++V+ + N F + + ++L APGP V+ A GML GG L KH
Sbjct: 269 SEEVQAHFLQGKNPFRPAGLEVVEHTEASKALNRAPGPMVVLAGSGMLAGGRILHHLKHG 328
Query: 114 APSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTKIDVRCQIHQL-AFSPHTDGKGIMD 172
N + GY G +G ++++ P + + G ++ +R +H L F H ++D
Sbjct: 329 LSDPRNALVFVGYQPQGGLGAEIIARPPAVRILGEEVPLRASVHTLGGFQGHAGQDELLD 388
Query: 173 LVKFLSPQHVILVHGEK 189
++ V+LVHGE+
Sbjct: 389 WLQ--GEPRVVLVHGEE 403
>pdb|2XR1|A Chain A, Dimeric Archaeal Cleavage And Polyadenylation Specificity
Factor With N-Terminal Kh Domains (Kh-Cpsf) From
Methanosarcina Mazei
pdb|2XR1|B Chain B, Dimeric Archaeal Cleavage And Polyadenylation Specificity
Factor With N-Terminal Kh Domains (Kh-Cpsf) From
Methanosarcina Mazei
Length = 640
Score = 92.4 bits (228), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 68/236 (28%), Positives = 114/236 (48%), Gaps = 22/236 (9%)
Query: 1 VHKCVAGGGKVLIPAFALGRAQELCILLDDYWER-MNLRVPIYFSAGLTIQANMYYKMLI 59
V + GG +IPAFA+GR+QE+ I+L++ + + VP+Y G+ +A +
Sbjct: 404 VKNTIERGGIAVIPAFAVGRSQEVMIVLEESIRKGLIPEVPVYLD-GMIWEATAIHATHP 462
Query: 60 SWTS--------QKVKETYNAFDFKNV--HNFDRSLIDAPGPCVLFATPGMLTGGFSLEV 109
+ + QK + + + FK V H + +I P PCV+ AT GM+ GG +E
Sbjct: 463 EYLNNDLRKLIFQKGQNPFLSECFKPVDSHEARQKIIQNPQPCVILATSGMMNGGPVMEY 522
Query: 110 FKHWAPSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGT-------KIDVRCQIHQLAFS 162
FK +A N + GY GTIG ++ G I + G K+++ Q+ FS
Sbjct: 523 FKAFAEDPRNTLVFVGYQADGTIGRRIQKGWKEIPMTGKNGSTEMLKMNMEVQVVD-GFS 581
Query: 163 PHTDGKGIMDLVKFLS--PQHVILVHGEKPKMATLKERIQSELGIKCYDPANNESM 216
H+D + +M+ VK + P+ V HG++ L + +L I+ N E++
Sbjct: 582 GHSDRRQLMEYVKRMQPRPERVFTEHGDEKACVDLASSVYKKLKIETRALTNLETV 637
>pdb|3IE0|A Chain A, Crystal Structure Of S378y Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE0|B Chain B, Crystal Structure Of S378y Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE0|C Chain C, Crystal Structure Of S378y Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE0|D Chain D, Crystal Structure Of S378y Mutant Ttha0252 From Thermus
Thermophilus Hb8
Length = 431
Score = 92.0 bits (227), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 60/197 (30%), Positives = 99/197 (50%), Gaps = 13/197 (6%)
Query: 3 KCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLISWT 62
K ++ GGKVLIP FA+ RAQE+ +L + R+ R PIY + + + Y L+ +
Sbjct: 210 KTLSQGGKVLIPTFAVERAQEILYVLYTHGHRLP-RAPIYLDSPMAGRVLSLYPRLVRYF 268
Query: 63 SQKVKETY----NAFDFKNVHNFD-----RSLIDAPGPCVLFATPGMLTGGFSLEVFKHW 113
S++V+ + N F + + ++L APGP V+ A GML GG L KH
Sbjct: 269 SEEVQAHFLQGKNPFRPAGLEVVEHTEASKALNRAPGPMVVLAGSGMLAGGRILHHLKHG 328
Query: 114 APSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTKIDVRCQIHQL-AFSPHTDGKGIMD 172
N + GY G +G ++++ P + + G ++ +R +H L F H ++D
Sbjct: 329 LSDPRNALVFVGYQPQGGLGAEIIARPPAVRILGEEVPLRASVHTLGGFYGHAGQDELLD 388
Query: 173 LVKFLSPQHVILVHGEK 189
++ V+LVHGE+
Sbjct: 389 WLQ--GEPRVVLVHGEE 403
>pdb|2DKF|A Chain A, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8, A Rna Degradation Protein Of The
Metallo-Beta-Lactamase Superfamily
pdb|2DKF|B Chain B, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8, A Rna Degradation Protein Of The
Metallo-Beta-Lactamase Superfamily
pdb|2DKF|C Chain C, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8, A Rna Degradation Protein Of The
Metallo-Beta-Lactamase Superfamily
pdb|2DKF|D Chain D, Crystal Structure Of Ttha0252 From Thermus Thermophilus
Hb8, A Rna Degradation Protein Of The
Metallo-Beta-Lactamase Superfamily
Length = 431
Score = 90.9 bits (224), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 60/197 (30%), Positives = 98/197 (49%), Gaps = 13/197 (6%)
Query: 3 KCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLISWT 62
K ++ GGKVLIP FA+ RAQE+ +L + R+ R PIY + + Y L+ +
Sbjct: 210 KTLSQGGKVLIPTFAVERAQEILYVLYTHGHRLP-RAPIYLDSPXAGRVLSLYPRLVRYF 268
Query: 63 SQKVKETY----NAFDFKNVHNFD-----RSLIDAPGPCVLFATPGMLTGGFSLEVFKHW 113
S++V+ + N F + + ++L APGP V+ A G L GG L KH
Sbjct: 269 SEEVQAHFLQGKNPFRPAGLEVVEHTEASKALNRAPGPXVVLAGSGXLAGGRILHHLKHG 328
Query: 114 APSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTKIDVRCQIHQL-AFSPHTDGKGIMD 172
N + GY G +G ++++ P + + G ++ +R +H L FS H ++D
Sbjct: 329 LSDPRNALVFVGYQPQGGLGAEIIARPPAVRILGEEVPLRASVHTLGGFSGHAGQDELLD 388
Query: 173 LVKFLSPQHVILVHGEK 189
++ V+LVHGE+
Sbjct: 389 WLQ--GEPRVVLVHGEE 403
>pdb|3IE1|A Chain A, Crystal Structure Of H380a Mutant Ttha0252 From Thermus
Thermophilus Hb8 Complexed With Rna
pdb|3IE1|B Chain B, Crystal Structure Of H380a Mutant Ttha0252 From Thermus
Thermophilus Hb8 Complexed With Rna
pdb|3IE1|C Chain C, Crystal Structure Of H380a Mutant Ttha0252 From Thermus
Thermophilus Hb8 Complexed With Rna
pdb|3IE1|D Chain D, Crystal Structure Of H380a Mutant Ttha0252 From Thermus
Thermophilus Hb8 Complexed With Rna
Length = 431
Score = 90.5 bits (223), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 60/199 (30%), Positives = 100/199 (50%), Gaps = 13/199 (6%)
Query: 1 VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLIS 60
+ K ++ GGKVLIP FA+ RAQE+ +L + R+ R PIY + + + Y L+
Sbjct: 208 LEKTLSQGGKVLIPTFAVERAQEILYVLYTHGHRLP-RAPIYLDSPMAGRVLSLYPRLVR 266
Query: 61 WTSQKVKETY----NAFDFKNVHNFD-----RSLIDAPGPCVLFATPGMLTGGFSLEVFK 111
+ S++V+ + N F + + ++L APGP V+ A GML GG L K
Sbjct: 267 YFSEEVQAHFLQGKNPFRPAGLEVVEHTEASKALNRAPGPMVVLAGSGMLAGGRILHHLK 326
Query: 112 HWAPSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTKIDVRCQIHQL-AFSPHTDGKGI 170
H N + GY G +G ++++ P + + G ++ +R +H L FS +
Sbjct: 327 HGLSDPRNALVFVGYQPQGGLGAEIIARPPAVRILGEEVPLRASVHTLGGFSGAAGQDEL 386
Query: 171 MDLVKFLSPQHVILVHGEK 189
+D ++ V+LVHGE+
Sbjct: 387 LDWLQ--GEPRVVLVHGEE 403
>pdb|3IE2|A Chain A, Crystal Structure Of H400v Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE2|B Chain B, Crystal Structure Of H400v Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE2|C Chain C, Crystal Structure Of H400v Mutant Ttha0252 From Thermus
Thermophilus Hb8
pdb|3IE2|D Chain D, Crystal Structure Of H400v Mutant Ttha0252 From Thermus
Thermophilus Hb8
Length = 431
Score = 90.1 bits (222), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 60/199 (30%), Positives = 100/199 (50%), Gaps = 13/199 (6%)
Query: 1 VHKCVAGGGKVLIPAFALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYYKMLIS 60
+ K ++ GGKVLIP FA+ RAQE+ +L + R+ R PIY + + + Y L+
Sbjct: 208 LEKTLSQGGKVLIPTFAVERAQEILYVLYTHGHRLP-RAPIYLDSPMAGRVLSLYPRLVR 266
Query: 61 WTSQKVKETY----NAFDFKNVHNFD-----RSLIDAPGPCVLFATPGMLTGGFSLEVFK 111
+ S++V+ + N F + + ++L APGP V+ A GML GG L K
Sbjct: 267 YFSEEVQAHFLQGKNPFRPAGLEVVEHTEASKALNRAPGPMVVLAGSGMLAGGRILHHLK 326
Query: 112 HWAPSEMNLITLPGYCLAGTIGNKLMSGNPTIELEGTKIDVRCQIHQL-AFSPHTDGKGI 170
H N + GY G +G ++++ P + + G ++ +R +H L FS H +
Sbjct: 327 HGLSDPRNALVFVGYQPQGGLGAEIIARPPAVRILGEEVPLRASVHTLGGFSGHAGQDEL 386
Query: 171 MDLVKFLSPQHVILVHGEK 189
+D ++ V+LV GE+
Sbjct: 387 LDWLQ--GEPRVVLVVGEE 403
>pdb|2D5W|A Chain A, The Crystal Structure Of Oligopeptide Binding Protein From
Thermus Thermophilus Hb8 Complexed With Pentapeptide
pdb|2D5W|B Chain B, The Crystal Structure Of Oligopeptide Binding Protein From
Thermus Thermophilus Hb8 Complexed With Pentapeptide
Length = 603
Score = 32.0 bits (71), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 24/40 (60%)
Query: 16 FALGRAQELCILLDDYWERMNLRVPIYFSAGLTIQANMYY 55
F +G+A+ + +L D+WER+N+R+ + L + YY
Sbjct: 108 FEVGKAKGMPVLNPDFWERVNVRIKDARNFTLIFEPAYYY 147
>pdb|1QDB|A Chain A, Cytochrome C Nitrite Reductase
pdb|1QDB|B Chain B, Cytochrome C Nitrite Reductase
pdb|1QDB|C Chain C, Cytochrome C Nitrite Reductase
Length = 473
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 29/74 (39%), Gaps = 7/74 (9%)
Query: 172 DLVKFLSPQHVI----LVHGEKPKMATLKERIQSELGIKCYD---PANNESMCIPSTHYV 224
D + F H I ++ + P K I + G+ C D P E S H V
Sbjct: 220 DEINFSDWTHNISKTPMLKAQHPGFEFWKSGIHGQKGVSCADCHMPYTQEGSVKYSDHQV 279
Query: 225 KAGASDAFIRSCMN 238
K D+ +SCMN
Sbjct: 280 KENPLDSMDQSCMN 293
>pdb|1IRU|K Chain K, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
A Resolution
pdb|1IRU|Y Chain Y, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
A Resolution
Length = 201
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 33/72 (45%), Gaps = 2/72 (2%)
Query: 260 EGTLPLWIKDERVAEGILVLEKSEKAKVVHQDE--LLLMLGEKRHEVQFAYCCPVNVDEL 317
+G + + +RVA +V K + K+ E LLL +GE VQFA NV
Sbjct: 8 QGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLY 67
Query: 318 EKFTTTSLTPTA 329
+ L+PTA
Sbjct: 68 KMRNGYELSPTA 79
>pdb|3UNB|J Chain J, Mouse Constitutive 20s Proteasome In Complex With Pr-957
pdb|3UNB|X Chain X, Mouse Constitutive 20s Proteasome In Complex With Pr-957
pdb|3UNB|LL Chain l, Mouse Constitutive 20s Proteasome In Complex With Pr-957
pdb|3UNB|ZZ Chain z, Mouse Constitutive 20s Proteasome In Complex With Pr-957
pdb|3UNE|J Chain J, Mouse Constitutive 20s Proteasome
pdb|3UNE|X Chain X, Mouse Constitutive 20s Proteasome
pdb|3UNE|LL Chain l, Mouse Constitutive 20s Proteasome
pdb|3UNE|ZZ Chain z, Mouse Constitutive 20s Proteasome
pdb|3UNF|J Chain J, Mouse 20s Immunoproteasome In Complex With Pr-957
pdb|3UNF|X Chain X, Mouse 20s Immunoproteasome In Complex With Pr-957
pdb|3UNH|J Chain J, Mouse 20s Immunoproteasome
pdb|3UNH|X Chain X, Mouse 20s Immunoproteasome
Length = 201
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 33/72 (45%), Gaps = 2/72 (2%)
Query: 260 EGTLPLWIKDERVAEGILVLEKSEKAKVVHQDE--LLLMLGEKRHEVQFAYCCPVNVDEL 317
+G + + +RVA +V K + K+ E LLL +GE VQFA NV
Sbjct: 8 QGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLY 67
Query: 318 EKFTTTSLTPTA 329
+ L+PTA
Sbjct: 68 KMRNGYELSPTA 79
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
0.322 0.137 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,518,872
Number of Sequences: 62578
Number of extensions: 503647
Number of successful extensions: 1096
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1060
Number of HSP's gapped (non-prelim): 17
length of query: 423
length of database: 14,973,337
effective HSP length: 101
effective length of query: 322
effective length of database: 8,652,959
effective search space: 2786252798
effective search space used: 2786252798
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)