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= 023576
(280 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PI2|A Chain A, Full-Length Replication Protein A Subunits Rpa14 And Rpa32
pdb|2PI2|B Chain B, Full-Length Replication Protein A Subunits Rpa14 And Rpa32
pdb|2PI2|C Chain C, Full-Length Replication Protein A Subunits Rpa14 And Rpa32
pdb|2PI2|D Chain D, Full-Length Replication Protein A Subunits Rpa14 And Rpa32
pdb|2Z6K|A Chain A, Crystal Structure Of Full-Length Human Rpa1432 HETERODIMER
pdb|2Z6K|B Chain B, Crystal Structure Of Full-Length Human Rpa1432 HETERODIMER
Length = 270
Score = 103 bits (256), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 77/269 (28%), Positives = 131/269 (48%), Gaps = 32/269 (11%)
Query: 14 SGGGFMPSQPPQSADYPSSTARSRDSQGLVPVTVKMISEASHSGDDKSNFMINGLEITNV 73
S GGF P Q+ +R+R +Q +VP T+ + A+ + F I +EI+ V
Sbjct: 23 SPGGFGSPAPSQA----EKKSRAR-AQHIVPCTISQLLSATLVDEV---FRIGNVEISQV 74
Query: 74 TLVGLVYNKEERASDVNFTLDDGTGRVV-CKRWASEVFDTREMEAIQDGMYVRLIGNLKS 132
T+VG++ + E+ +++ + +DD T + ++W + E + YV++ G+L+S
Sbjct: 75 TIVGIIRHAEKAPTNIVYKIDDMTAAPMDVRQWVDTDDTSSENTVVPPETYVKVAGHLRS 134
Query: 133 FQGKKQIVAFSVRPVTNFDEVTCHYIECIYFHLQNSKSQVQG----FPSSQPQMVDSSLN 188
FQ KK +VAF + P+ + +E T H +E I H+ SK+ Q P S P M ++
Sbjct: 135 FQNKKSLVAFKIMPLEDMNEFTTHILEVINAHMVLSKANSQPSAGRAPISNPGMSEAG-- 192
Query: 189 TSARTGLSGYQTAPTNLSSQFGVDGLKDCDQMILDYLQQPSSSERERGVHVNELSEQLK- 247
G P N GL +L+ ++ + R G++ +L QLK
Sbjct: 193 -----NFGGNSFMPAN--------GLTVAQNQVLNLIK---ACPRPEGLNFQDLKNQLKH 236
Query: 248 IPQKKIMDSIASLENEGLIYSTIDEFHYK 276
+ I ++ L NEG IYST+D+ H+K
Sbjct: 237 MSVSSIKQAVDFLSNEGHIYSTVDDDHFK 265
>pdb|4GOP|B Chain B, Structure And Conformational Change Of A Replication
Protein A Heterotrimer Bound To Ssdna
pdb|4GOP|Y Chain Y, Structure And Conformational Change Of A Replication
Protein A Heterotrimer Bound To Ssdna
pdb|4GNX|B Chain B, Structure Of
pdb|4GNX|Y Chain Y, Structure Of
Length = 136
Score = 88.2 bits (217), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 44/129 (34%), Positives = 82/129 (63%), Gaps = 2/129 (1%)
Query: 42 LVPVTVKMISEASHSGDDKSNFMINGLEITNVTLVGLVYNKEERASDVNFTLDDGTGRVV 101
L PVT++ I A D + F+++G E+ +T V +V N A++V ++++DGTG++
Sbjct: 9 LRPVTIRQILNAEQPHPD-AEFILDGAELGQLTFVAVVRNISRNATNVAYSVEDGTGQIE 67
Query: 102 CKRW-ASEVFDTREMEAIQDGMYVRLIGNLKSFQGKKQIVAFSVRPVTNFDEVTCHYIEC 160
++W S D+ + I++ +YVR++G LKSFQ ++ I + +RPV +++EV H +E
Sbjct: 68 VRQWLDSSSDDSSKASEIRNNVYVRVLGTLKSFQNRRSISSGHMRPVIDYNEVMFHRLEA 127
Query: 161 IYFHLQNSK 169
++ HLQ ++
Sbjct: 128 VHAHLQVTR 136
>pdb|2PQA|A Chain A, Crystal Structure Of Full-Length Human Rpa 1432
HETERODIMER
pdb|2PQA|C Chain C, Crystal Structure Of Full-Length Human Rpa 1432
HETERODIMER
Length = 131
Score = 74.7 bits (182), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 40/133 (30%), Positives = 75/133 (56%), Gaps = 4/133 (3%)
Query: 39 SQGLVPVTVKMISEASHSGDDKSNFMINGLEITNVTLVGLVYNKEERASDVNFTLDDGTG 98
+Q +VP T+ + A+ + F I +EI+ VT+VG++ + E+ +++ + +DD T
Sbjct: 2 AQHIVPCTISQLLSATLVDE---VFRIGNVEISQVTIVGIIRHAEKAPTNIVYKIDDMTA 58
Query: 99 RVV-CKRWASEVFDTREMEAIQDGMYVRLIGNLKSFQGKKQIVAFSVRPVTNFDEVTCHY 157
+ ++W + E + YV++ G+L+SFQ KK +VAF + P+ + +E T H
Sbjct: 59 APMDVRQWVDTDDTSSENTVVPPETYVKVAGHLRSFQNKKSLVAFKIMPLEDMNEFTTHI 118
Query: 158 IECIYFHLQNSKS 170
+E I H+ SK+
Sbjct: 119 LEVINAHMVLSKA 131
>pdb|1QUQ|A Chain A, Complex Of Replication Protein A Subunits Rpa14 And Rpa32
pdb|1QUQ|C Chain C, Complex Of Replication Protein A Subunits Rpa14 And Rpa32
Length = 129
Score = 73.9 bits (180), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 40/132 (30%), Positives = 74/132 (56%), Gaps = 4/132 (3%)
Query: 39 SQGLVPVTVKMISEASHSGDDKSNFMINGLEITNVTLVGLVYNKEERASDVNFTLDDGTG 98
+Q +VP T+ + A+ + F I +EI+ VT+VG++ + E+ +++ + +DD T
Sbjct: 1 AQHIVPCTISQLLSATLVDE---VFRIGNVEISQVTIVGIIRHAEKAPTNIVYKIDDMTA 57
Query: 99 RVV-CKRWASEVFDTREMEAIQDGMYVRLIGNLKSFQGKKQIVAFSVRPVTNFDEVTCHY 157
+ ++W + E + YV++ G+L+SFQ KK +VAF + P+ + +E T H
Sbjct: 58 APMDVRQWVDTDDTSSENTVVPPETYVKVAGHLRSFQNKKSLVAFKIMPLEDMNEFTTHI 117
Query: 158 IECIYFHLQNSK 169
+E I H+ SK
Sbjct: 118 LEVINAHMVLSK 129
>pdb|1L1O|B Chain B, Structure Of The Human Replication Protein A (Rpa)
Trimerization Core
pdb|1L1O|E Chain E, Structure Of The Human Replication Protein A (Rpa)
Trimerization Core
Length = 128
Score = 73.2 bits (178), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 40/131 (30%), Positives = 73/131 (55%), Gaps = 4/131 (3%)
Query: 40 QGLVPVTVKMISEASHSGDDKSNFMINGLEITNVTLVGLVYNKEERASDVNFTLDDGTGR 99
Q +VP T+ + A+ + F I +EI+ VT+VG++ + E+ +++ + +DD T
Sbjct: 1 QHIVPCTISQLLSATLVDE---VFRIGNVEISQVTIVGIIRHAEKAPTNIVYKIDDMTAA 57
Query: 100 VV-CKRWASEVFDTREMEAIQDGMYVRLIGNLKSFQGKKQIVAFSVRPVTNFDEVTCHYI 158
+ ++W + E + YV++ G+L+SFQ KK +VAF + P+ + +E T H +
Sbjct: 58 PMDVRQWVDTDDTSSENTVVPPETYVKVAGHLRSFQNKKSLVAFKIMPLEDMNEFTTHIL 117
Query: 159 ECIYFHLQNSK 169
E I H+ SK
Sbjct: 118 EVINAHMVLSK 128
>pdb|3KDF|D Chain D, X-Ray Crystal Structure Of The Human Replication Protein A
C From Wheat Germ Cell Free Expression
pdb|3KDF|B Chain B, X-Ray Crystal Structure Of The Human Replication Protein A
C From Wheat Germ Cell Free Expression
Length = 132
Score = 72.4 bits (176), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 40/133 (30%), Positives = 73/133 (54%), Gaps = 4/133 (3%)
Query: 39 SQGLVPVTVKMISEASHSGDDKSNFMINGLEITNVTLVGLVYNKEERASDVNFTLDDGTG 98
+Q +VP T+ + A+ + F I +EI+ VT+VG++ + E+ +++ + +DD T
Sbjct: 3 AQHIVPCTISQLLSATLVDE---VFRIGNVEISQVTIVGIIRHAEKAPTNIVYKIDDXTA 59
Query: 99 RVV-CKRWASEVFDTREMEAIQDGMYVRLIGNLKSFQGKKQIVAFSVRPVTNFDEVTCHY 157
++W + E + YV++ G+L+SFQ KK +VAF + P+ + +E T H
Sbjct: 60 APXDVRQWVDTDDTSSENTVVPPETYVKVAGHLRSFQNKKSLVAFKIXPLEDXNEFTTHI 119
Query: 158 IECIYFHLQNSKS 170
+E I H SK+
Sbjct: 120 LEVINAHXVLSKA 132
>pdb|1Z1D|A Chain A, Structural Model For The Interaction Between Rpa32 C-
Terminal Domain And Sv40 T Antigen Origin Binding Domain
Length = 103
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 31/114 (27%), Positives = 49/114 (42%), Gaps = 19/114 (16%)
Query: 164 HLQNSKSQVQGFPSSQPQMVDSSLNTSARTGLSGYQTAPTNLSSQFGVDGLKDCDQMILD 223
H+ NS+ P S P M ++ G P N GL +L+
Sbjct: 3 HMANSQPSAGRAPISNPGMSEAG-------NFGGNSFMPAN--------GLTVAQNQVLN 47
Query: 224 YLQQPSSSERERGVHVNELSEQLK-IPQKKIMDSIASLENEGLIYSTIDEFHYK 276
++ + R G++ +L QLK + I ++ L NEG IYST+D+ H+K
Sbjct: 48 LIK---ACPRPEGLNFQDLKNQLKHMSVSSIKQAVDFLSNEGHIYSTVDDDHFK 98
>pdb|2V8I|A Chain A, Structure Of A Family 2 Pectate Lyase In A Native Form
pdb|2V8K|A Chain A, Structure Of A Family 2 Pectate Lyase In Complex With
Trigalacturonic Acid
Length = 543
Score = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 31/116 (26%), Positives = 55/116 (47%), Gaps = 9/116 (7%)
Query: 88 DVNFTLD-DGTGRVVCKRWASEVFDTREMEAIQDGMYVRLIGNLKSFQGKKQIVAFSVRP 146
D+ F++D D T R + W + V+D R +E + G Y + +G L + ++Q F+ +
Sbjct: 136 DLMFSVDSDATARFIRGFWNAHVYDWRILETSRHGEYGKPMGALWESKFEQQPPFFATKG 195
Query: 147 VT--NFDEVTCHYIECIYFHLQNSKSQVQGFPSSQPQMVDSS-LNTSARTGLSGYQ 199
++ N + +Y H Q+ QG + ++ D L A+TGL YQ
Sbjct: 196 LSFLNAGNDLIYSASLLYKHQQD-----QGALTWAKRLADQYVLPRDAKTGLGVYQ 246
>pdb|2V8J|A Chain A, Structure Of A Family 2 Pectate Lyase In Complex With A
Transition Metal
Length = 535
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 31/116 (26%), Positives = 55/116 (47%), Gaps = 9/116 (7%)
Query: 88 DVNFTLD-DGTGRVVCKRWASEVFDTREMEAIQDGMYVRLIGNLKSFQGKKQIVAFSVRP 146
D+ F++D D T R + W + V+D R +E + G Y + +G L + ++Q F+ +
Sbjct: 135 DLMFSVDSDATARFIRGFWNAHVYDWRILETSRHGEYGKPMGALWESKFEQQPPFFATKG 194
Query: 147 VT--NFDEVTCHYIECIYFHLQNSKSQVQGFPSSQPQMVDSS-LNTSARTGLSGYQ 199
++ N + +Y H Q+ QG + ++ D L A+TGL YQ
Sbjct: 195 LSFLNAGNDLIYSASLLYKHQQD-----QGALTWAKRLADQYVLPRDAKTGLGVYQ 245
>pdb|1DPU|A Chain A, Solution Structure Of The C-Terminal Domain Of Human Rpa32
Complexed With Ung2(73-88)
Length = 99
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 36/67 (53%), Gaps = 4/67 (5%)
Query: 211 VDGLKDCDQMILDYLQQPSSSERERGVHVNELSEQLK-IPQKKIMDSIASLENEGLIYST 269
+GL +L+ ++ + R G++ +L QLK + I ++ L NEG IYST
Sbjct: 31 ANGLTVAQNQVLNLIK---ACPRPEGLNFQDLKNQLKHMSVSSIKQAVDFLSNEGHIYST 87
Query: 270 IDEFHYK 276
+D+ H+K
Sbjct: 88 VDDDHFK 94
>pdb|1JWB|B Chain B, Structure Of The Covalent Acyl-Adenylate Form Of The
Moeb-Moad Protein Complex
pdb|1JWA|B Chain B, Structure Of The Atp-Bound Moeb-Moad Protein Complex
pdb|1JW9|B Chain B, Structure Of The Native Moeb-Moad Protein Complex
Length = 249
Score = 30.4 bits (67), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 9/75 (12%)
Query: 91 FTLDDGTGRVVCKRWASEVFDTREMEAIQDGMYVRLIGNLKSFQGKKQI--VAFSVRP-- 146
FT DG C R S +F + ++ G+ LIG + S Q + I +A +P
Sbjct: 164 FTYQDGEP---CYRCLSRLFGENALTCVEAGVMAPLIGVIGSLQAMEAIKMLAGYGKPAS 220
Query: 147 --VTNFDEVTCHYIE 159
+ +D +TC + E
Sbjct: 221 GKIVMYDAMTCQFRE 235
>pdb|2R0T|A Chain A, Crystal Sructure Of
Gdp-4-Keto-6-Deoxymannose-3-Dehydratase With A Trapped
Plp-Glutamate Geminal Diamine
pdb|2R0T|B Chain B, Crystal Sructure Of
Gdp-4-Keto-6-Deoxymannose-3-Dehydratase With A Trapped
Plp-Glutamate Geminal Diamine
Length = 390
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 37/100 (37%), Gaps = 11/100 (11%)
Query: 126 LIGNLKSFQGKKQIVAFSVRPVTNFDEVTCHYIECIYFHLQN----SKSQVQGFPSSQPQ 181
L+G SF K I + DE H + CI H K++V G S
Sbjct: 180 LMGTFSSFYSK-HIATMEGGCIVTDDEEIYHILLCIRAHGWTRNLPKKNKVTGVKS---- 234
Query: 182 MVDSSLNTSARTGLSGYQTAPTNLSSQFGVDGLKDCDQMI 221
D S + L GY P +S G++ LK + I
Sbjct: 235 --DDQFEESFKFVLPGYNVRPLEMSGAIGIEQLKKLPRFI 272
>pdb|1IAX|A Chain A, Crystal Structure Of Acc Synthase Complexed With Plp
pdb|1IAX|B Chain B, Crystal Structure Of Acc Synthase Complexed With Plp
pdb|1IAY|A Chain A, Crystal Structure Of Acc Synthase Complexed With Cofactor
Plp And Inhibitor Avg
Length = 428
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 45 VTVKMISEASHSGDDKSNFMINGLEITNVT-LVGLVYNKEERASDVNFTLDDGTGRVVCK 103
+T K + EA + KSN + GL +TN + +G +K+ S ++FT V +
Sbjct: 170 ITSKAVKEA-YENAQKSNIKVKGLILTNPSNPLGTTLDKDTLKSVLSFTNQHNIHLVCDE 228
Query: 104 RWASEVFDTREMEAIQD 120
+A+ VFDT + +I +
Sbjct: 229 IYAATVFDTPQFVSIAE 245
>pdb|2IA0|A Chain A, Transcriptional Regulatory Protein Pf0864 From Pyrococcus
Furiosus A Member Of The Asnc Family (Pf0864)
pdb|2IA0|B Chain B, Transcriptional Regulatory Protein Pf0864 From Pyrococcus
Furiosus A Member Of The Asnc Family (Pf0864)
Length = 171
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 32/59 (54%), Gaps = 8/59 (13%)
Query: 214 LKDCDQMILDYLQQPSSSERERGVHVNELSEQLKIPQKKIMDSIASLENEGLI--YSTI 270
L D D+ IL L++ + + ++ELSEQLK P+ I I L+ G+I Y+ I
Sbjct: 15 LDDLDRNILRLLKKDAR------LTISELSEQLKKPESTIHFRIKKLQERGVIERYTII 67
>pdb|4EQM|A Chain A, Structural Analysis Of Staphylococcus Aureus
SerineTHREONINE KINASE Pknb
pdb|4EQM|B Chain B, Structural Analysis Of Staphylococcus Aureus
SerineTHREONINE KINASE Pknb
pdb|4EQM|C Chain C, Structural Analysis Of Staphylococcus Aureus
SerineTHREONINE KINASE Pknb
pdb|4EQM|D Chain D, Structural Analysis Of Staphylococcus Aureus
SerineTHREONINE KINASE Pknb
pdb|4EQM|E Chain E, Structural Analysis Of Staphylococcus Aureus
SerineTHREONINE KINASE Pknb
pdb|4EQM|F Chain F, Structural Analysis Of Staphylococcus Aureus
SerineTHREONINE KINASE Pknb
Length = 294
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 27/53 (50%)
Query: 180 PQMVDSSLNTSARTGLSGYQTAPTNLSSQFGVDGLKDCDQMILDYLQQPSSSE 232
P+ + +L R + Q + N+ S VD DC ++++Y++ P+ SE
Sbjct: 48 PREKEETLKRFEREVHNSSQLSHQNIVSMIDVDEEDDCYYLVMEYIEGPTLSE 100
>pdb|2WZP|P Chain P, Structures Of Lactococcal Phage P2 Baseplate Shed Light On
A Novel Mechanism Of Host Attachment And Activation In
Siphoviridae
pdb|2WZP|Q Chain Q, Structures Of Lactococcal Phage P2 Baseplate Shed Light On
A Novel Mechanism Of Host Attachment And Activation In
Siphoviridae
Length = 326
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 43/87 (49%), Gaps = 10/87 (11%)
Query: 74 TLVGLVYNKEERA-SDVNFTLDDGTGRVVCKRWASEVFDTREMEAIQDGMYVRLIGNLKS 132
+ +G++Y K + + V F LDD + + + VF T E +QD + + N ++
Sbjct: 226 SFMGILYPKLPKTPAGVRF-LDD-----IGNEYTAIVFKT---EQVQDYILINTDVNDET 276
Query: 133 FQGKKQIVAFSVRPVTNFDEVTCHYIE 159
+QG K A ++ PV +F+ IE
Sbjct: 277 YQGWKGTTALNLFPVMDFERYRTRIIE 303
>pdb|2X53|S Chain S, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Sr
pdb|2X53|T Chain T, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Sr
pdb|2X53|U Chain U, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Sr
pdb|2X53|V Chain V, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Sr
pdb|2X53|W Chain W, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Sr
pdb|2X53|X Chain X, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Sr
Length = 298
Score = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 43/87 (49%), Gaps = 10/87 (11%)
Query: 74 TLVGLVYNKEERA-SDVNFTLDDGTGRVVCKRWASEVFDTREMEAIQDGMYVRLIGNLKS 132
+ +G++Y K + + V F LDD + + + VF T E +QD + + N ++
Sbjct: 198 SFMGILYPKLPKTPAGVRF-LDD-----IGNEYTAIVFKT---EQVQDYILINTDVNDET 248
Query: 133 FQGKKQIVAFSVRPVTNFDEVTCHYIE 159
+QG K A ++ PV +F+ IE
Sbjct: 249 YQGWKGTTALNLFPVMDFERYRTRIIE 275
>pdb|2P4W|A Chain A, Crystal Structure Of Heat Shock Regulator From Pyrococcus
Furiosus
pdb|2P4W|B Chain B, Crystal Structure Of Heat Shock Regulator From Pyrococcus
Furiosus
Length = 202
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 235 RGVHVNELSEQLKIPQKKIMDSIASLENEGLIYSTIDEFHYKFARG 280
R V+ELS +L + QK +++ + LE GLI S ++ K RG
Sbjct: 27 RPYFVSELSRELGVGQKAVLEHLRILEEAGLIESRVE----KIPRG 68
>pdb|2X54|S Chain S, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Ca (Part 1 Of 2)
pdb|2X54|T Chain T, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Ca (Part 1 Of 2)
pdb|2X54|U Chain U, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Ca (Part 1 Of 2)
pdb|2X54|V Chain V, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Ca (Part 1 Of 2)
pdb|2X54|W Chain W, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Ca (Part 1 Of 2)
pdb|2X54|X Chain X, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Ca (Part 1 Of 2)
pdb|2X5A|S Chain S, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Ca (Part 2 Of 2)
pdb|2X5A|T Chain T, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Ca (Part 2 Of 2)
pdb|2X5A|U Chain U, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Ca (Part 2 Of 2)
pdb|2X5A|V Chain V, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Ca (Part 2 Of 2)
pdb|2X5A|W Chain W, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Ca (Part 2 Of 2)
pdb|2X5A|X Chain X, Structure Of The Phage P2 Baseplate In Its Activated
Conformation With Ca (Part 2 Of 2)
Length = 298
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 43/87 (49%), Gaps = 10/87 (11%)
Query: 74 TLVGLVYNKEERA-SDVNFTLDDGTGRVVCKRWASEVFDTREMEAIQDGMYVRLIGNLKS 132
+ +G++Y K + + V F LDD + + + VF T E +QD + + N ++
Sbjct: 198 SFMGILYPKLPKTPAGVRF-LDD-----IGNEYTAIVFKT---EQVQDYILINTDVNDET 248
Query: 133 FQGKKQIVAFSVRPVTNFDEVTCHYIE 159
+QG K A ++ PV +F+ IE
Sbjct: 249 YQGWKGTTALNLFPVMDFERYRTRIIE 275
>pdb|3OGK|B Chain B, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|D Chain D, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|F Chain F, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|H Chain H, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|J Chain J, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|L Chain L, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|N Chain N, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|P Chain P, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGL|B Chain B, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|D Chain D, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|F Chain F, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|H Chain H, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|J Chain J, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|L Chain L, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|N Chain N, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|P Chain P, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGM|B Chain B, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|D Chain D, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|F Chain F, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|H Chain H, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|J Chain J, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|L Chain L, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|N Chain N, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|P Chain P, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
Length = 592
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 38/165 (23%), Positives = 70/165 (42%), Gaps = 20/165 (12%)
Query: 94 DDGTGRVVCKRWASEVFDTRE-------MEAIQDGMYVRLIGNLKS--FQGKKQIVAFSV 144
D + +VC+RW +TRE A D + R NL+S +GK + F++
Sbjct: 33 DRDSASLVCRRWFKIDSETREHVTMALCYTATPDRLSRRF-PNLRSLKLKGKPRAAMFNL 91
Query: 145 RPVTNFDEVTCHYIECIYFHLQNSKSQVQGFPSSQPQMVDSSLNTSARTGLSGYQTAPTN 204
P E Y+ + N+ Q++ + + D L+ A+ +T +
Sbjct: 92 IP-----ENWGGYVTPWVTEISNNLRQLKSVHFRRMIVSDLDLDRLAKARADDLETLKLD 146
Query: 205 LSSQFGVDGL----KDCDQMILDYLQQPSSSERERGVHVNELSEQ 245
S F DGL C ++ +++ S SE++ G ++EL++
Sbjct: 147 KCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKD-GKWLHELAQH 190
>pdb|3GR9|A Chain A, Crystal Structure Of Cold H188k S187n
pdb|3GR9|B Chain B, Crystal Structure Of Cold H188k S187n
pdb|3GR9|C Chain C, Crystal Structure Of Cold H188k S187n
pdb|3GR9|D Chain D, Crystal Structure Of Cold H188k S187n
pdb|3GR9|E Chain E, Crystal Structure Of Cold H188k S187n
pdb|3GR9|F Chain F, Crystal Structure Of Cold H188k S187n
pdb|3GR9|G Chain G, Crystal Structure Of Cold H188k S187n
pdb|3GR9|H Chain H, Crystal Structure Of Cold H188k S187n
Length = 390
Score = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 36/100 (36%), Gaps = 11/100 (11%)
Query: 126 LIGNLKSFQGKKQIVAFSVRPVTNFDEVTCHYIECIYFHLQN----SKSQVQGFPSSQPQ 181
L+G SF I + DE H + CI H K++V G S
Sbjct: 180 LMGTFSSFYNX-HIATMEGGCIVTDDEEIYHILLCIRAHGWTRNLPKKNKVTGVKS---- 234
Query: 182 MVDSSLNTSARTGLSGYQTAPTNLSSQFGVDGLKDCDQMI 221
D S + L GY P +S G++ LK + I
Sbjct: 235 --DDQFEESFKFVLPGYNVRPLEMSGAIGIEQLKKLPRFI 272
>pdb|2GMS|A Chain A, E Coli Gdp-4-Keto-6-Deoxy-D-Mannose-3-Dehydratase With
Bound Hydrated Plp
pdb|2GMS|B Chain B, E Coli Gdp-4-Keto-6-Deoxy-D-Mannose-3-Dehydratase With
Bound Hydrated Plp
pdb|2GMU|A Chain A, Crystal Structure Of E Coli
Gdp-4-Keto-6-Deoxy-D-Mannose-3- Dehydratase Complexed
With Plp-Glutamate Ketimine Intermediate
pdb|2GMU|B Chain B, Crystal Structure Of E Coli
Gdp-4-Keto-6-Deoxy-D-Mannose-3- Dehydratase Complexed
With Plp-Glutamate Ketimine Intermediate
Length = 390
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 36/100 (36%), Gaps = 11/100 (11%)
Query: 126 LIGNLKSFQGKKQIVAFSVRPVTNFDEVTCHYIECIYFHLQN----SKSQVQGFPSSQPQ 181
L+G SF I + DE H + CI H K++V G S
Sbjct: 180 LMGTFSSFYSH-HIATMEGGCIVTDDEEIYHILLCIRAHGWTRNLPKKNKVTGVKS---- 234
Query: 182 MVDSSLNTSARTGLSGYQTAPTNLSSQFGVDGLKDCDQMI 221
D S + L GY P +S G++ LK + I
Sbjct: 235 --DDQFEESFKFVLPGYNVRPLEMSGAIGIEQLKKLPRFI 272
>pdb|3B8X|A Chain A, Crystal Structure Of
Gdp-4-Keto-6-Deoxymannose-3-Dehydratase (Cold) H188n
Mutant With Bound Gdp-Perosamine
pdb|3B8X|B Chain B, Crystal Structure Of
Gdp-4-Keto-6-Deoxymannose-3-Dehydratase (Cold) H188n
Mutant With Bound Gdp-Perosamine
Length = 390
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 36/100 (36%), Gaps = 11/100 (11%)
Query: 126 LIGNLKSFQGKKQIVAFSVRPVTNFDEVTCHYIECIYFHLQN----SKSQVQGFPSSQPQ 181
L+G SF I + DE H + CI H K++V G S
Sbjct: 180 LMGTFSSFYSN-HIATMEGGCIVTDDEEIYHILLCIRAHGWTRNLPKKNKVTGVKS---- 234
Query: 182 MVDSSLNTSARTGLSGYQTAPTNLSSQFGVDGLKDCDQMI 221
D S + L GY P +S G++ LK + I
Sbjct: 235 --DDQFEESFKFVLPGYNVRPLEMSGAIGIEQLKKLPRFI 272
>pdb|4AOY|A Chain A, Open Ctidh. The Complex Structures Of Isocitrate
Dehydrogenase From Clostridium Thermocellum And
Desulfotalea Psychrophila, Support A New Active Site
Locking Mechanism
pdb|4AOY|B Chain B, Open Ctidh. The Complex Structures Of Isocitrate
Dehydrogenase From Clostridium Thermocellum And
Desulfotalea Psychrophila, Support A New Active Site
Locking Mechanism
pdb|4AOY|C Chain C, Open Ctidh. The Complex Structures Of Isocitrate
Dehydrogenase From Clostridium Thermocellum And
Desulfotalea Psychrophila, Support A New Active Site
Locking Mechanism
pdb|4AOY|D Chain D, Open Ctidh. The Complex Structures Of Isocitrate
Dehydrogenase From Clostridium Thermocellum And
Desulfotalea Psychrophila, Support A New Active Site
Locking Mechanism
pdb|4AOU|A Chain A, Ctidh Bound To Nadp. The Complex Structures Of Isocitrate
Dehydrogenase From Clostridium Thermocellum And
Desulfotalea Psychrophila, Support A New Active Site
Locking Mechanism
Length = 402
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 40/75 (53%), Gaps = 17/75 (22%)
Query: 195 LSGYQTAPTNLSSQFG----------VDGLKDCDQMILDY---LQQPSSSERERGVHVNE 241
L G +T+ ++++ F +DG+K+ ++D+ L+Q S E GV +
Sbjct: 317 LKGEETSTNSMATIFAWTGALKKRGELDGIKE----LVDFATKLEQASVQTIENGVMTKD 372
Query: 242 LSEQLKIPQKKIMDS 256
L+ ++P+KKI+++
Sbjct: 373 LASLSEVPEKKIVNT 387
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 0.130 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,911,120
Number of Sequences: 62578
Number of extensions: 306562
Number of successful extensions: 843
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 822
Number of HSP's gapped (non-prelim): 27
length of query: 280
length of database: 14,973,337
effective HSP length: 98
effective length of query: 182
effective length of database: 8,840,693
effective search space: 1609006126
effective search space used: 1609006126
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: 51 (24.3 bits)