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= 031588
(157 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 = 191 bits (485), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 84/131 (64%), Positives = 104/131 (79%)
Query: 18 SREGDQLTIIPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAYSGMAALPYFDEIDPSAID 77
+ E DQL I PLGAG EVGRSC+ + +KG+ I+ DCGIHP GM ALPY D IDP+ ID
Sbjct: 6 AEESDQLLIRPLGAGQEVGRSCIILEFKGRKIMLDCGIHPGLEGMDALPYIDLIDPAEID 65
Query: 78 VLLITHFHLDHAASLPYFLEKTTFSGRVFMTHATKAIYKLLLTDYVKVSKVSVEDMLFDE 137
+LLI+HFHLDH +LP+FL+KT+F GR FMTHATKAIY+ LL+DYVKVS +S +DML+ E
Sbjct: 66 LLLISHFHLDHCGALPWFLQKTSFKGRTFMTHATKAIYRWLLSDYVKVSNISADDMLYTE 125
Query: 138 QDINRSMDRIE 148
D+ SMD+IE
Sbjct: 126 TDLEESMDKIE 136
>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 = 68.6 bits (166), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 39/128 (30%), Positives = 68/128 (53%), Gaps = 4/128 (3%)
Query: 20 EGDQLTIIPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAYS-GMAALPYFD--EIDPSAI 76
+ D + +G EVGRSC+Y+ +L DCG++ A + PY + E ++
Sbjct: 176 DNDWARLTAMGGFREVGRSCLYLQTPNSRVLLDCGVNVAGGDDKNSYPYLNVPEFTLDSL 235
Query: 77 DVLLITHFHLDHAASLPYFLEKTTFSGRVFMTHATKAIYKLLLTDYVKVSKVSVEDMLFD 136
D ++ITH HLDH+ LPY L + G V+ T T+ + LL D++ ++ E + F+
Sbjct: 236 DAVIITHAHLDHSGFLPY-LYHYGYDGPVYCTAPTRDLMTLLQLDHIDIAHREDEPLPFN 294
Query: 137 EQDINRSM 144
+ + +S+
Sbjct: 295 VKHVKKSV 302
>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 = 67.4 bits (163), Expect = 3e-12, Method: Composition-based stats.
Identities = 38/125 (30%), Positives = 62/125 (49%), Gaps = 8/125 (6%)
Query: 24 LTIIPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAY--SGMAALPYFDE------IDPSA 75
+ I LG EVGRS + + +L D G++ A A P+FD +
Sbjct: 189 IRITGLGGFREVGRSALLVQTDESFVLVDFGVNVAMLNDPYKAFPHFDAPEFQYVLREGL 248
Query: 76 IDVLLITHFHLDHAASLPYFLEKTTFSGRVFMTHATKAIYKLLLTDYVKVSKVSVEDMLF 135
+D ++ITH HLDH LPY F G ++ T T+ + LL D++++ + + +D L+
Sbjct: 249 LDAIIITHAHLDHCGMLPYLFRYNLFDGPIYTTPPTRDLMVLLQKDFIEIQQSNGQDPLY 308
Query: 136 DEQDI 140
+DI
Sbjct: 309 RPRDI 313
>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 = 63.9 bits (154), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 61/124 (49%), Gaps = 6/124 (4%)
Query: 24 LTIIPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAYSGMAALPYFDEIDPSAIDVLLITH 83
+ I+P GA EV S + G+ +L DCG+ F DP +D +L+TH
Sbjct: 1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFG-FDPKEVDAVLLTH 59
Query: 84 FHLDHAASLPYFLEKTTFSGRVFMTHATKAIYKLLLTDYVKVSKVSVEDMLFDEQDINRS 143
HLDH LP + + G V+ T AT + +++L D +KV +++ F +D+ +
Sbjct: 60 AHLDHVGRLPKLF-REGYRGPVYATRATVLLMEIVLEDALKV----MDEPFFGPEDVEEA 114
Query: 144 MDRI 147
+ +
Sbjct: 115 LGHL 118
>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 = 63.9 bits (154), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 61/124 (49%), Gaps = 6/124 (4%)
Query: 24 LTIIPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAYSGMAALPYFDEIDPSAIDVLLITH 83
+ I+P GA EV S + G+ +L DCG+ F DP +D +L+TH
Sbjct: 1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFG-FDPKEVDAVLLTH 59
Query: 84 FHLDHAASLPYFLEKTTFSGRVFMTHATKAIYKLLLTDYVKVSKVSVEDMLFDEQDINRS 143
HLDH LP + + G V+ T AT + +++L D +KV +++ F +D+ +
Sbjct: 60 AHLDHVGRLPKLF-REGYRGPVYATRATVLLMEIVLEDALKV----MDEPFFGPEDVEEA 114
Query: 144 MDRI 147
+ +
Sbjct: 115 LGHL 118
>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 = 63.9 bits (154), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 61/124 (49%), Gaps = 6/124 (4%)
Query: 24 LTIIPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAYSGMAALPYFDEIDPSAIDVLLITH 83
+ I+P GA EV S + G+ +L DCG+ F DP +D +L+TH
Sbjct: 1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFG-FDPKEVDAVLLTH 59
Query: 84 FHLDHAASLPYFLEKTTFSGRVFMTHATKAIYKLLLTDYVKVSKVSVEDMLFDEQDINRS 143
HLDH LP + + G V+ T AT + +++L D +KV +++ F +D+ +
Sbjct: 60 AHLDHVGRLPKLF-REGYRGPVYATRATVLLMEIVLEDALKV----MDEPFFGPEDVEEA 114
Query: 144 MDRI 147
+ +
Sbjct: 115 LGHL 118
>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 = 63.9 bits (154), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 61/124 (49%), Gaps = 6/124 (4%)
Query: 24 LTIIPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAYSGMAALPYFDEIDPSAIDVLLITH 83
+ I+P GA EV S + G+ +L DCG+ F DP +D +L+TH
Sbjct: 1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFG-FDPKEVDAVLLTH 59
Query: 84 FHLDHAASLPYFLEKTTFSGRVFMTHATKAIYKLLLTDYVKVSKVSVEDMLFDEQDINRS 143
HLDH LP + + G V+ T AT + +++L D +KV +++ F +D+ +
Sbjct: 60 AHLDHVGRLPKLF-REGYRGPVYATRATVLLMEIVLEDALKV----MDEPFFGPEDVEEA 114
Query: 144 MDRI 147
+ +
Sbjct: 115 LGHL 118
>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 = 63.9 bits (154), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 61/124 (49%), Gaps = 6/124 (4%)
Query: 24 LTIIPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAYSGMAALPYFDEIDPSAIDVLLITH 83
+ I+P GA EV S + G+ +L DCG+ F DP +D +L+TH
Sbjct: 1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFG-FDPKEVDAVLLTH 59
Query: 84 FHLDHAASLPYFLEKTTFSGRVFMTHATKAIYKLLLTDYVKVSKVSVEDMLFDEQDINRS 143
HLDH LP + + G V+ T AT + +++L D +KV +++ F +D+ +
Sbjct: 60 AHLDHVGRLPKLF-REGYRGPVYATRATVLLMEIVLEDALKV----MDEPFFGPEDVEEA 114
Query: 144 MDRI 147
+ +
Sbjct: 115 LGHL 118
>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 = 62.4 bits (150), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 38/105 (36%), Positives = 55/105 (52%), Gaps = 3/105 (2%)
Query: 24 LTIIPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAY-SGMAALPYFDEIDP-SAIDVLLI 81
+ + LG EVGRSC +S IL DCG++ M Y E+ P + ID +++
Sbjct: 184 VRVTALGGCKEVGRSCFLLSTPESRILIDCGVNVGSDENMTPYLYVPEVFPLNQIDAVIV 243
Query: 82 THFHLDHAASLPYFLEKTTFSGRVFMTHATKAIYKLLLTDYVKVS 126
TH HLDH +P L K + G V+ T T+ + LL DY+ V+
Sbjct: 244 THAHLDHQGLVP-LLFKYGYEGPVYCTPPTRDLMVLLQLDYIDVA 287
>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 = 62.4 bits (150), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 36/122 (29%), Positives = 58/122 (47%), Gaps = 6/122 (4%)
Query: 26 IIPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAYSGMAALPYFDEIDPSAIDVLLITHFH 85
I+P GA EV S + G+ +L DCG F DP +D +L+TH H
Sbjct: 3 IVPFGAAREVTGSAHLLLAGGRRVLLDCGXFQGKEEARNHAPFG-FDPKEVDAVLLTHAH 61
Query: 86 LDHAASLPYFLEKTTFSGRVFMTHATKAIYKLLLTDYVKVSKVSVEDMLFDEQDINRSMD 145
LDH LP + + G V+ T AT + +++L D +KV ++ F +D+ ++
Sbjct: 62 LDHVGRLPKLF-REGYRGPVYATRATVLLXEIVLEDALKVX----DEPFFGPEDVEEALG 116
Query: 146 RI 147
+
Sbjct: 117 HL 118
>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 = 60.1 bits (144), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 60/124 (48%), Gaps = 6/124 (4%)
Query: 24 LTIIPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAYSGMAALPYFDEIDPSAIDVLLITH 83
+ I+P GA EV S + G+ +L DCG+ F DP +D +L+TH
Sbjct: 1 MRIVPFGAAREVTGSAHLLLAGGRRVLLDCGMFQGKEEARNHAPFG-FDPKEVDAVLLTH 59
Query: 84 FHLDHAASLPYFLEKTTFSGRVFMTHATKAIYKLLLTDYVKVSKVSVEDMLFDEQDINRS 143
LDH LP + + G V+ T AT + +++L D +KV +++ F +D+ +
Sbjct: 60 AALDHVGRLPKLF-REGYRGPVYATRATVLLMEIVLEDALKV----MDEPFFGPEDVEEA 114
Query: 144 MDRI 147
+ +
Sbjct: 115 LGHL 118
>pdb|1E5D|A Chain A, Rubredoxin Oxygen:oxidoreductase (Roo) From Anaerobe
Desulfovibrio Gigas
pdb|1E5D|B Chain B, Rubredoxin Oxygen:oxidoreductase (Roo) From Anaerobe
Desulfovibrio Gigas
Length = 402
Score = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 36/80 (45%), Gaps = 6/80 (7%)
Query: 18 SREGDQLTIIPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAYSGMAALPYFDEIDPSAID 77
SR+ T+ P+G Y+ KT LFD + Y G IDP ID
Sbjct: 20 SRDFHGYTLSPMGTTYNA-----YLVEDEKTTLFDT-VKAEYKGELLCGIASVIDPKKID 73
Query: 78 VLLITHFHLDHAASLPYFLE 97
L+I H LDHA +LP +E
Sbjct: 74 YLVIQHLELDHAGALPALIE 93
>pdb|3ZQ4|A Chain A, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
pdb|3ZQ4|C Chain C, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
pdb|3ZQ4|D Chain D, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
pdb|3ZQ4|E Chain E, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
Length = 555
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 38/88 (43%), Gaps = 6/88 (6%)
Query: 20 EGDQLTIIPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAYSGMAALPY------FDEIDP 73
+ DQ + LG E+G++ + ++ + +L D GI + + Y + +
Sbjct: 5 KNDQTAVFALGGLGEIGKNTYAVQFQDEIVLIDAGIKFPEDELLGIDYVIPDYTYLVKNE 64
Query: 74 SAIDVLLITHFHLDHAASLPYFLEKTTF 101
I L ITH H DH +PY L +
Sbjct: 65 DKIKGLFITHGHEDHIGGIPYLLRQVNI 92
>pdb|3BK1|A Chain A, Crystal Structure Analysis Of Rnase J
pdb|3BK2|A Chain A, Crystal Structure Analysis Of The Rnase JUMP COMPLEX
Length = 562
Score = 38.9 bits (89), Expect = 0.001, Method: Composition-based stats.
Identities = 22/81 (27%), Positives = 36/81 (44%), Gaps = 6/81 (7%)
Query: 22 DQLTIIPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAYSGMAA----LPYFDEI--DPSA 75
D + IIPLG E+G++ ++ + + D G+ G +P D +
Sbjct: 15 DHVEIIPLGGXGEIGKNITVFRFRDEIFVLDGGLAFPEEGXPGVDLLIPRVDYLIEHRHK 74
Query: 76 IDVLLITHFHLDHAASLPYFL 96
I ++TH H DH LP+ L
Sbjct: 75 IKAWVLTHGHEDHIGGLPFLL 95
>pdb|1Y44|A Chain A, Crystal Structure Of Rnase Z
pdb|1Y44|B Chain B, Crystal Structure Of Rnase Z
Length = 320
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 31/77 (40%), Gaps = 5/77 (6%)
Query: 27 IPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAYSGMAALPYFDEIDPSAIDVLLITHFHL 86
IP A N + + + LFDCG + + I P I+ + ITH H
Sbjct: 12 IPAKARNVTSVALKLLEERRSVWLFDCGEATQHQXLHTT-----IKPRKIEKIFITHXHG 66
Query: 87 DHAASLPYFLEKTTFSG 103
DH LP L +F G
Sbjct: 67 DHVYGLPGLLGSRSFQG 83
>pdb|4GCW|A Chain A, Crystal Structure Of Rnase Z In Complex With Precursor
Trna(Thr)
Length = 320
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 31/77 (40%), Gaps = 5/77 (6%)
Query: 27 IPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAYSGMAALPYFDEIDPSAIDVLLITHFHL 86
IP A N + + + LFDCG + + I P I+ + ITH H
Sbjct: 12 IPAKARNVTSVALKLLEERRSVWLFDCGEATQHQMLHTT-----IKPRKIEKIFITHMHG 66
Query: 87 DHAASLPYFLEKTTFSG 103
DH LP L +F G
Sbjct: 67 DHVYGLPGLLGSRSFQG 83
>pdb|3T3N|A Chain A, Molecular Basis For The Recognition And Cleavage Of Rna
(Uuccgu) By The Bifunctional 5'-3' ExoENDORIBONUCLEASE
RNASE J
pdb|3T3O|A Chain A, Molecular Basis For The Recognition And Cleavage Of Rna
(Cugg) By The Bifunctional 5'-3' ExoENDORIBONUCLEASE
RNASE J
Length = 562
Score = 37.0 bits (84), Expect = 0.005, Method: Composition-based stats.
Identities = 22/81 (27%), Positives = 36/81 (44%), Gaps = 6/81 (7%)
Query: 22 DQLTIIPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAYSGMAA----LPYFDEI--DPSA 75
D + IIPLG E+G++ ++ + + D G+ GM +P D +
Sbjct: 16 DHVEIIPLGGMGEIGKNITVFRFRDEIFVLDGGLAFPEEGMPGVDLLIPRVDYLIEHRHK 75
Query: 76 IDVLLITHFHLDHAASLPYFL 96
I ++TH DH LP+ L
Sbjct: 76 IKAWVLTHGAEDHIGGLPFLL 96
>pdb|1ZTC|A Chain A, Crystal Structure Of A Putative Metallo-Beta-Lactamase
(Tm0894) From Thermotoga Maritima At 2.10 A Resolution
pdb|1ZTC|B Chain B, Crystal Structure Of A Putative Metallo-Beta-Lactamase
(Tm0894) From Thermotoga Maritima At 2.10 A Resolution
pdb|1ZTC|C Chain C, Crystal Structure Of A Putative Metallo-Beta-Lactamase
(Tm0894) From Thermotoga Maritima At 2.10 A Resolution
pdb|1ZTC|D Chain D, Crystal Structure Of A Putative Metallo-Beta-Lactamase
(Tm0894) From Thermotoga Maritima At 2.10 A Resolution
Length = 221
Score = 36.2 bits (82), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 30/110 (27%), Positives = 48/110 (43%), Gaps = 11/110 (10%)
Query: 38 SCVYMSYKGKTILFDCGIHPAYSGMAALPYFDE--IDPSAIDVLLITHFHLDHAASLPYF 95
+ VY+ +K + I+ D G + + F E I P I +L TH HLDH + F
Sbjct: 36 TVVYLEHKDRRIIIDPGNLSSXDELEE--KFSELGISPDDITDVLFTHVHLDHIFNSVLF 93
Query: 96 LEKTTFSGRVFMTHA-------TKAIYKLLLTDYVKVSKVSVEDMLFDEQ 138
T + V+ T IY +++ + V + E+ LFDE+
Sbjct: 94 ENATFYVHEVYKTKNYLSFGTIVGRIYSKVISSWKNVVLLKGEESLFDEK 143
>pdb|2FK6|A Chain A, Crystal Structure Of Rnase ZTRNA(THR) COMPLEX
Length = 320
Score = 34.3 bits (77), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 30/77 (38%), Gaps = 5/77 (6%)
Query: 27 IPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAYSGMAALPYFDEIDPSAIDVLLITHFHL 86
IP A N + + + LFDCG + + I P I+ + ITH
Sbjct: 12 IPAKARNVTSVALKLLEERRSVWLFDCGEATQHQMLHTT-----IKPRKIEKIFITHMAG 66
Query: 87 DHAASLPYFLEKTTFSG 103
DH LP L +F G
Sbjct: 67 DHVYGLPGLLGSRSFQG 83
>pdb|3ZWF|A Chain A, Crystal Structure Of Human Trnase Z, Short Form (Elac1).
pdb|3ZWF|B Chain B, Crystal Structure Of Human Trnase Z, Short Form (Elac1)
Length = 368
Score = 33.5 bits (75), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 26/61 (42%), Gaps = 5/61 (8%)
Query: 36 GRSCVYMSYKGKTILFDCGIHPAYSGMAALPYFDEIDPSAIDVLLITHFHLDHAASLPYF 95
G S V + +G+ LFDCG G ++ I + ITH H DH LP
Sbjct: 18 GASAVVLRCEGECWLFDCG-----EGTQTQLMKSQLKAGRITKIFITHLHGDHFFGLPGL 72
Query: 96 L 96
L
Sbjct: 73 L 73
>pdb|2Q0J|A Chain A, Structure Of Pseudomonas Quinolone Signal Response Protein
Pqse
pdb|2Q0J|B Chain B, Structure Of Pseudomonas Quinolone Signal Response Protein
Pqse
Length = 321
Score = 32.0 bits (71), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 14/24 (58%)
Query: 72 DPSAIDVLLITHFHLDHAASLPYF 95
DPS + LITH H DH LPY
Sbjct: 78 DPSQVHYWLITHKHYDHCGLLPYL 101
>pdb|2VW8|A Chain A, Crystal Structure Of Quinolone Signal Response Protein
Pqse From Pseudomonas Aeruginosa
Length = 303
Score = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 14/24 (58%)
Query: 72 DPSAIDVLLITHFHLDHAASLPYF 95
DPS + LITH H DH LPY
Sbjct: 60 DPSQVHYWLITHKHYDHCGLLPYL 83
>pdb|2CBN|A Chain A, Crystal Structure Of Zipd From Escherichia Coli
Length = 306
Score = 31.6 bits (70), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 23/54 (42%), Gaps = 5/54 (9%)
Query: 50 LFDCGIHPAYSGMAALPYFDEIDPSAIDVLLITHFHLDHAASLPYFLEKTTFSG 103
LFDCG G +P +D + I+H H DH LP L + SG
Sbjct: 37 LFDCG-----EGTQHQLLHTAFNPGKLDKIFISHLHGDHLFGLPGLLCSRSMSG 85
>pdb|2Q0I|A Chain A, Structure Of Pseudomonas Quinolone Signal Response
Protein Pqse
Length = 303
Score = 31.6 bits (70), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 14/24 (58%)
Query: 72 DPSAIDVLLITHFHLDHAASLPYF 95
DPS + LITH H DH LPY
Sbjct: 60 DPSQVHYWLITHKHYDHCGLLPYL 83
>pdb|3DH8|A Chain A, Structure Of Pseudomonas Quinolone Signal Response
Protein Pqse
Length = 303
Score = 31.6 bits (70), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 14/24 (58%)
Query: 72 DPSAIDVLLITHFHLDHAASLPYF 95
DPS + LITH H DH LPY
Sbjct: 60 DPSQVHYWLITHKHYDHCGLLPYL 83
>pdb|1ZKP|A Chain A, 1.5a Resolution Crystal Structure Of A Metallo Beta
Lactamase Family Protein, The Elac Homolgue Of Bacillus
Anthracis, A Putative Ribonuclease
pdb|1ZKP|B Chain B, 1.5a Resolution Crystal Structure Of A Metallo Beta
Lactamase Family Protein, The Elac Homolgue Of Bacillus
Anthracis, A Putative Ribonuclease
pdb|1ZKP|C Chain C, 1.5a Resolution Crystal Structure Of A Metallo Beta
Lactamase Family Protein, The Elac Homolgue Of Bacillus
Anthracis, A Putative Ribonuclease
pdb|1ZKP|D Chain D, 1.5a Resolution Crystal Structure Of A Metallo Beta
Lactamase Family Protein, The Elac Homolgue Of Bacillus
Anthracis, A Putative Ribonuclease
Length = 268
Score = 30.4 bits (67), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 29/52 (55%), Gaps = 8/52 (15%)
Query: 42 MSYKGKTILFDCGIHPAYSG-MAALPYFDEIDPSAIDVLLITHFHLDHAASL 92
+ G +L DCG SG +A L + I PS ID ++++H+H DH A +
Sbjct: 48 FEHDGFRLLVDCG-----SGVLAQLQKY--ITPSDIDAVVLSHYHHDHVADI 92
>pdb|3AJ3|A Chain A, Crystal Structure Of Selenomethionine Substituted
4-Pyridoxolactonase From Mesorhizobium Loti
Length = 274
Score = 30.0 bits (66), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 71 IDPSAIDVLLITHFHLDHAASLPYF 95
++P IDV++ +HFH DH YF
Sbjct: 84 LEPRDIDVVVNSHFHFDHCGGNKYF 108
>pdb|3AJ0|A Chain A, Crystal Structure Of 4-Pyridoxolactonase From
Mesorhizobium Loti
Length = 268
Score = 30.0 bits (66), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 71 IDPSAIDVLLITHFHLDHAASLPYF 95
++P IDV++ +HFH DH YF
Sbjct: 84 LEPRDIDVVVNSHFHFDHCGGNKYF 108
>pdb|3ADR|A Chain A, The First Crystal Structure Of An Archaeal
Metallo-Beta-Lactamase Superfamily Protein; St1585 From
Sulfolobus Tokodaii
pdb|3ADR|B Chain B, The First Crystal Structure Of An Archaeal
Metallo-Beta-Lactamase Superfamily Protein; St1585 From
Sulfolobus Tokodaii
Length = 261
Score = 30.0 bits (66), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 44/91 (48%), Gaps = 16/91 (17%)
Query: 48 TILFDCGIHPAYSGMAALPYFDEIDPSAIDVLLITHFHLDHAASLPYFLEKTTFSGRVFM 107
T+ D G+ + +A + D++D +++TH H+DH LP L+ + +V +
Sbjct: 31 TVXIDAGVS---NSIADFSFLDKLD-----YIVLTHLHIDHIGLLPELLQ--VYKAKVLV 80
Query: 108 THATKAIYKLLLT--DYVKVSKVSVEDMLFD 136
K+ +K LT D +K S E +L D
Sbjct: 81 ----KSGFKKYLTSEDGLKKLNESAEKVLGD 107
>pdb|3ESH|A Chain A, Crystal Structure Of A Probable Metal-Dependent Hydrolase
From Staphylococcus Aureus. Northeast Structural
Genomics Target Zr314
pdb|3ESH|B Chain B, Crystal Structure Of A Probable Metal-Dependent Hydrolase
From Staphylococcus Aureus. Northeast Structural
Genomics Target Zr314
pdb|3ESH|C Chain C, Crystal Structure Of A Probable Metal-Dependent Hydrolase
From Staphylococcus Aureus. Northeast Structural
Genomics Target Zr314
Length = 280
Score = 29.3 bits (64), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 13/20 (65%)
Query: 73 PSAIDVLLITHFHLDHAASL 92
P ID +L TH H DHAA L
Sbjct: 98 PKDIDYVLXTHXHFDHAAGL 117
>pdb|2R2D|A Chain A, Structure Of A Quorum-Quenching Lactonase (Aiib) From
Agrobacterium Tumefaciens
pdb|2R2D|B Chain B, Structure Of A Quorum-Quenching Lactonase (Aiib) From
Agrobacterium Tumefaciens
pdb|2R2D|C Chain C, Structure Of A Quorum-Quenching Lactonase (Aiib) From
Agrobacterium Tumefaciens
pdb|2R2D|D Chain D, Structure Of A Quorum-Quenching Lactonase (Aiib) From
Agrobacterium Tumefaciens
pdb|2R2D|E Chain E, Structure Of A Quorum-Quenching Lactonase (Aiib) From
Agrobacterium Tumefaciens
pdb|2R2D|F Chain F, Structure Of A Quorum-Quenching Lactonase (Aiib) From
Agrobacterium Tumefaciens
Length = 276
Score = 28.9 bits (63), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 26/70 (37%), Gaps = 22/70 (31%)
Query: 48 TILFDCGIHPAYSGMAA---------LPYFDE-------------IDPSAIDVLLITHFH 85
T+L+D G HP G PY + P I ++++H H
Sbjct: 54 TVLYDTGCHPECMGTNGRWPAQSQLNAPYIGASECNLPERLRQLGLSPDDISTVVLSHLH 113
Query: 86 LDHAASLPYF 95
DHA + YF
Sbjct: 114 NDHAGCVEYF 123
>pdb|3U1B|A Chain A, Crystal Structure Of The S238r Mutant Of Mycrocine
Immunity Protein (Mccf) With Amp
pdb|3U1B|B Chain B, Crystal Structure Of The S238r Mutant Of Mycrocine
Immunity Protein (Mccf) With Amp
Length = 336
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 31/72 (43%), Gaps = 1/72 (1%)
Query: 57 PAYSGMAALPYFDEIDPSAIDVLLITHFHLDHAASLPYFLEKTTFSGRVFMTHATKAIYK 116
P + G A +P F E +P D L H +LPY +++ F F+ K K
Sbjct: 131 PTFYGPALVPSFGEFEPFVDDTYKYFLETLLHDQALPYNIKQPLFWSDEFINWEEKTKEK 190
Query: 117 LLL-TDYVKVSK 127
L +++ V+
Sbjct: 191 ELRPNNWISVTN 202
>pdb|3GJZ|A Chain A, Crystal Structure Of Microcin Immunity Protein Mccf From
Bacillus Anthracis Str. Ames
pdb|3GJZ|B Chain B, Crystal Structure Of Microcin Immunity Protein Mccf From
Bacillus Anthracis Str. Ames
Length = 336
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 31/72 (43%), Gaps = 1/72 (1%)
Query: 57 PAYSGMAALPYFDEIDPSAIDVLLITHFHLDHAASLPYFLEKTTFSGRVFMTHATKAIYK 116
P + G A +P F E +P D L H +LPY +++ F F+ K K
Sbjct: 131 PTFYGPALVPSFGEFEPFVDDTYKYFLETLLHDQALPYNIKQPLFWSDEFINWEEKTKEK 190
Query: 117 LLL-TDYVKVSK 127
L +++ V+
Sbjct: 191 ELRPNNWISVTN 202
>pdb|3T5M|A Chain A, Crystal Structure Of The S112a Mutant Of Mycrocine
Immunity Protein (Mccf) With Amp
pdb|3T5M|B Chain B, Crystal Structure Of The S112a Mutant Of Mycrocine
Immunity Protein (Mccf) With Amp
Length = 336
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 31/72 (43%), Gaps = 1/72 (1%)
Query: 57 PAYSGMAALPYFDEIDPSAIDVLLITHFHLDHAASLPYFLEKTTFSGRVFMTHATKAIYK 116
P + G A +P F E +P D L H +LPY +++ F F+ K K
Sbjct: 131 PTFYGPALVPSFGEFEPFVDDTYKYFLETLLHDQALPYNIKQPLFWSDEFINWEEKTKEK 190
Query: 117 LLL-TDYVKVSK 127
L +++ V+
Sbjct: 191 ELRPNNWISVTN 202
>pdb|3KD1|E Chain E, Closed Binary Complex Of An Rb69 Gp43 Fingers Domain
Mutant Complexed With An Acyclic Gmp Terminated Primer
Template Pair.
pdb|3KD5|E Chain E, Closed Ternary Complex Of An Rb69 Gp43 Fingers Domain
Mutant Complexed With An Acyclic Gmp Terminated Primer
Template Pair And Phosphonoformic Acid
Length = 913
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|3L8B|A Chain A, Crystal Structure Of A Replicative Dna Polymerase Bound To
The Oxidized Guanine Lesion Guanidinohydantoin
pdb|3L8B|B Chain B, Crystal Structure Of A Replicative Dna Polymerase Bound To
The Oxidized Guanine Lesion Guanidinohydantoin
pdb|3RMA|A Chain A, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMA|B Chain B, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMA|C Chain C, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMA|D Chain D, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMB|A Chain A, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMB|B Chain B, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMB|C Chain C, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMB|D Chain D, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMC|A Chain A, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMC|B Chain B, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMC|C Chain C, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMC|D Chain D, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMD|A Chain A, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMD|B Chain B, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMD|C Chain C, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMD|D Chain D, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3TAB|A Chain A, 5-Hydroxycytosine Paired With Dgmp In Rb69 Gp43
pdb|3TAB|B Chain B, 5-Hydroxycytosine Paired With Dgmp In Rb69 Gp43
pdb|3TAB|C Chain C, 5-Hydroxycytosine Paired With Dgmp In Rb69 Gp43
pdb|3TAB|D Chain D, 5-Hydroxycytosine Paired With Dgmp In Rb69 Gp43
pdb|3TAE|A Chain A, 5-Hydroxycytosine Paired With Damp In Rb69 Gp43
pdb|3TAE|B Chain B, 5-Hydroxycytosine Paired With Damp In Rb69 Gp43
pdb|3TAE|C Chain C, 5-Hydroxycytosine Paired With Damp In Rb69 Gp43
pdb|3TAE|D Chain D, 5-Hydroxycytosine Paired With Damp In Rb69 Gp43
pdb|3TAF|A Chain A, 5-Fluorocytosine Paired With Ddgmp In Rb69 Gp43
pdb|3TAF|B Chain B, 5-Fluorocytosine Paired With Ddgmp In Rb69 Gp43
pdb|3TAF|C Chain C, 5-Fluorocytosine Paired With Ddgmp In Rb69 Gp43
pdb|3TAF|D Chain D, 5-Fluorocytosine Paired With Ddgmp In Rb69 Gp43
pdb|3TAG|A Chain A, 5-Fluorocytosine Paired With Damp In Rb69 Gp43
pdb|3TAG|B Chain B, 5-Fluorocytosine Paired With Damp In Rb69 Gp43
pdb|3TAG|C Chain C, 5-Fluorocytosine Paired With Damp In Rb69 Gp43
pdb|3TAG|D Chain D, 5-Fluorocytosine Paired With Damp In Rb69 Gp43
Length = 906
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|1Q9Y|A Chain A, Crystal Structure Of Enterobacteria Phage Rb69 Gp43 Dna
Polymerase Complexed With 8-Oxoguanosine Containing Dna
Length = 906
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 823 DAPQVVEGEKVYVLPLREGNPFGDKCI 849
>pdb|1WAF|A Chain A, Dna Polymerase From Bacteriophage Rb69
pdb|1WAF|B Chain B, Dna Polymerase From Bacteriophage Rb69
pdb|1CLQ|A Chain A, Crystal Structure Of A Replication Fork Dna Polymerase
Editing Complex At 2.7 A Resolution
pdb|1IH7|A Chain A, High-Resolution Structure Of Apo Rb69 Dna Polymerase
pdb|1WAJ|A Chain A, Dna Polymerase From Bacteriophage Rb69
pdb|3UIQ|A Chain A, Rb69 Dna Polymerase Ternary Complex Containing Dupnpp
Length = 903
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|3CQ8|A Chain A, Ternary Complex Of The L415f Mutant Rb69 Exo(-)polymerase
Length = 903
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|1IG9|A Chain A, Structure Of The Replicating Complex Of A Pol Alpha Family
Dna Polymerase
pdb|1Q9X|A Chain A, Crystal Structure Of Enterobacteria Phage Rb69 Gp43 Dna
Polymerase Complexed With Tetrahydrofuran Containing Dna
pdb|1Q9X|B Chain B, Crystal Structure Of Enterobacteria Phage Rb69 Gp43 Dna
Polymerase Complexed With Tetrahydrofuran Containing Dna
pdb|1Q9X|C Chain C, Crystal Structure Of Enterobacteria Phage Rb69 Gp43 Dna
Polymerase Complexed With Tetrahydrofuran Containing Dna
pdb|1Q9X|D Chain D, Crystal Structure Of Enterobacteria Phage Rb69 Gp43 Dna
Polymerase Complexed With Tetrahydrofuran Containing Dna
pdb|2ATQ|A Chain A, Rb69 Single-Stranded Dna Binding Protein-Dna Polymerase
Fusion
pdb|2OYQ|A Chain A, Crystal Structure Of Rb69 Gp43 In Complex With Dna With 5-
Nimp Opposite An Abasic Site Analog
pdb|2OYQ|B Chain B, Crystal Structure Of Rb69 Gp43 In Complex With Dna With 5-
Nimp Opposite An Abasic Site Analog
pdb|2OYQ|C Chain C, Crystal Structure Of Rb69 Gp43 In Complex With Dna With 5-
Nimp Opposite An Abasic Site Analog
pdb|2OYQ|D Chain D, Crystal Structure Of Rb69 Gp43 In Complex With Dna With 5-
Nimp Opposite An Abasic Site Analog
pdb|2OZM|A Chain A, Crystal Structure Of Rb69 Gp43 In Complex With Dna With 5-
Nitp Opposite An Abasic Site Analog
pdb|2OZS|A Chain A, Crystal Structure Of Rb69 Gp43 In Complex With Dna With
Datp Opposite Dtmp
pdb|3NCI|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dctp Opposite Dg
At 1.8 Angstrom Resolution
pdb|4DU1|A Chain A, Rb69 Dna Polymerase Ternary Complex With Datp Opposite Dt
pdb|4DU3|A Chain A, Rb69 Dna Polymerase Ternary Complex With Ddtp Opposite Dt
With 3- Deaza-Adenine At The N-1 Position Of Template
Strand
pdb|4DU4|A Chain A, Rb69 Dna Polymerase Ternary Complex With Datp Opposite Dt
With 3- Deaza-Adenine At The N-3 Position Of Primer
Strand
Length = 903
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|3LDS|A Chain A, Crystal Structure Of Rb69 Gp43 With Dna And Datp Opposite
8-
Length = 903
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|2DTU|A Chain A, Crystal Structure Of The Beta Hairpin Loop Deletion
Variant Of Rb69 Gp43 In Complex With Dna Containing An
Abasic Site Analog
pdb|2DTU|B Chain B, Crystal Structure Of The Beta Hairpin Loop Deletion
Variant Of Rb69 Gp43 In Complex With Dna Containing An
Abasic Site Analog
pdb|2DTU|C Chain C, Crystal Structure Of The Beta Hairpin Loop Deletion
Variant Of Rb69 Gp43 In Complex With Dna Containing An
Abasic Site Analog
pdb|2DTU|D Chain D, Crystal Structure Of The Beta Hairpin Loop Deletion
Variant Of Rb69 Gp43 In Complex With Dna Containing An
Abasic Site Analog
Length = 896
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 813 DAPQVVEGEKVYVLPLREGNPFGDKCI 839
>pdb|3LZI|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Datp
Opposite 7,8- Dihydro-8-Oxoguanine
pdb|3LZJ|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Dctp
Opposite 7,8- Dihydro-8-Oxoguanine
pdb|3NAE|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Datp
Opposite Guanidinohydantoin
pdb|3NDK|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Dctp
Opposite Dg
pdb|3NGI|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Dttp
Opposite Dg
pdb|3SUP|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Dctp
Opposite 2ap (Gc Rich Sequence)
Length = 903
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|3SQ2|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dttp Opposite 2ap
(At Rich Sequence)
pdb|3SQ4|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dttp Opposite 2ap
(Gc Rich Sequence)
Length = 902
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|3SQ1|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dupcpp Opposite
Da
Length = 901
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|3SCX|A Chain A, Rb69 Dna Polymerase Triple Mutant(L561aS565GY567A) TERNARY
COMPLEX With Dupnpp And A Deoxy-Terminated Primer In The
Presence Of Ca2+
pdb|3SI6|A Chain A, Rb69 Dna Polymerase Triple Mutant (L561aS565GY567A)
TERNARY COMPLEX With Dupnpp And A Deoxy-Terminated
Primer In The Presence Of Mg2+
pdb|3SJJ|A Chain A, Rb69 Dna Polymerase Triple Mutant (L561aS565GY567A)
TERNARY COMPLEX With Dupnpp And A Deoxy-Terminated
Primer In The Presence Of Mn2+
pdb|3SNN|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DCTP Opposite Dg In The Presence Of Mg2+
Length = 903
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|3QEP|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DTTP Opposite Difluorotoluene Nucleoside
pdb|3S9H|A Chain A, Rb69 Dna Polymerase Triple Mutant(L561aS565GY567A) TERNARY
COMPLEX With Dupnpp And A Dideoxy-Terminated Primer In
The Presence Of Ca2+
pdb|3SQ0|A Chain A, Dna Polymerase(L561aS565GY567A) TERNARY COMPLEX WITH
DUPNPP OPPOSITE Da (Mn2+)
pdb|3QEI|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DCTP Opposite Difluorotoluene Nucleoside
pdb|3QER|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DATP Opposite Difluorotoluene Nucleoside
pdb|3QES|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DGTP Opposite Difluorotoluene Nucleoside
pdb|3QET|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DTTP Opposite Dt
pdb|3QEV|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DCTP Opposite Dt
pdb|3QEW|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DDTP Opposite Dt
pdb|3QEX|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DGTP Opposite Dt
pdb|4E3S|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dqtp Opposite Dt
pdb|4DTN|A Chain A, Rb69 Dna Polymerase Ternary Complex With Datp Opposite An
Abasic Site And DdaDT AS THE PENULTIMATE BASE-Pair
pdb|4DTO|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dctp Opposite An
Abasic Site And DdaDT AS THE PENULTIMATE BASE-Pair
pdb|4DTP|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dgtp Opposite An
Abasic Site And DdaDT AS THE PENULTIMATE BASE-Pair
pdb|4DTR|A Chain A, Rb69 Dna Polymerase Ternary Complex With Datp Opposite An
Abasic Site And DdcDG AS THE PENULTIMATE BASE-Pair
pdb|4DTS|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dctp Opposite An
Abasic Site And DdcDG AS THE PENULTIMATE BASE-Pair
pdb|4DTU|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dgtp Opposite An
Abasic Site And DdcDG AS THE PENULTIMATE BASE-Pair
pdb|4DTX|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dttp Opposite An
Abasic Site And DdcDG AS THE PENULTIMATE BASE-Pair
pdb|4FJM|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dctp/da
Length = 903
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|3RWU|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Datp
Opposite Difluorotoluene Nucleoside
pdb|3QNN|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Dgt
Opposite 3tco
pdb|3QNO|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Datp
Opposite 3tco
Length = 901
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|4DTJ|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dttp Opposite An
Abasic Site And DdtDA AS THE PENULTIMATE BASE-Pair
pdb|4DTM|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dctp Opposite An
Abasic Site And DdgDC AS THE PENULTIMATE BASE-Pair
Length = 901
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|3SUQ|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Dctp
Opposite 2ap (At Rich Sequence)
Length = 897
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|3SUO|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Dttp
Opposite 2ap (Gc Rich Sequence)
Length = 900
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|3SPZ|A Chain A, Dna Polymerase(L415aL561AS565GY567A) TERNARY COMPLEX WITH
DUPCPP Opposite Da (Ca2+)
pdb|4FJ5|A Chain A, Rb69 Dna Polymerase Ternary Complex With Datp/dt
pdb|4FJ7|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dgtp/dt
pdb|4FJ8|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dctp/dt
pdb|4FJ9|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dttp/dt
pdb|4FJG|A Chain A, Rb69 Dna Polymerase Ternary Complex With Datp/dc
pdb|4FJH|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dgtp/dc
pdb|4FJI|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dctp/dc
pdb|4FJJ|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dttp/dc
pdb|4FJK|A Chain A, Rb69 Dna Polymerase Ternary Complex With Datp/da
pdb|4FJL|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dgtp/da
pdb|4FJN|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dttp/da
pdb|4FJX|A Chain A, Rb69 Dna Polymerase Ternary Complex With Datp/dg
pdb|4FK0|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dctp/dg
pdb|4FK2|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dttp/dg
pdb|4FK4|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dgtp/dg
Length = 903
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|3CFO|A Chain A, Triple Mutant Apo Structure
pdb|3CFP|A Chain A, Structure Of The Replicating Complex Of A Pol Alpha Family
Dna Polymerase, Ternary Complex 1
pdb|3CFR|A Chain A, Structure Of The Replicating Complex Of A Pol Alpha Family
Dna Polymerase, Ternary Complex 2
Length = 909
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|3SPY|A Chain A, Rb69 Dna Polymerase(L415aL561AS565GY567A) TERNARY COMPLEX
WITH Dupcpp Opposite Da
Length = 901
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|3NE6|A Chain A, Rb69 Dna Polymerase (S565gY567A) TERNARY COMPLEX WITH DCTP
OPPOSITE Dg
pdb|3NHG|A Chain A, Rb69 Dna Polymerase (S565gY567A) TERNARY COMPLEX WITH DTTP
OPPOSITE Dg
Length = 903
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|1YCF|A Chain A, Oxidized (Di-Ferric) Fpra From Moorella Thermoacetica
pdb|1YCF|B Chain B, Oxidized (Di-Ferric) Fpra From Moorella Thermoacetica
pdb|1YCF|C Chain C, Oxidized (Di-Ferric) Fpra From Moorella Thermoacetica
pdb|1YCF|D Chain D, Oxidized (Di-Ferric) Fpra From Moorella Thermoacetica
pdb|1YCG|A Chain A, X-Ray Structures Of Moorella Thermoacetica Fpra. Novel
Diiron Site Structure And Mechanistic Insights Into A
Scavenging Nitric Oxide Reductase
pdb|1YCG|B Chain B, X-Ray Structures Of Moorella Thermoacetica Fpra. Novel
Diiron Site Structure And Mechanistic Insights Into A
Scavenging Nitric Oxide Reductase
pdb|1YCG|C Chain C, X-Ray Structures Of Moorella Thermoacetica Fpra. Novel
Diiron Site Structure And Mechanistic Insights Into A
Scavenging Nitric Oxide Reductase
pdb|1YCG|D Chain D, X-Ray Structures Of Moorella Thermoacetica Fpra. Novel
Diiron Site Structure And Mechanistic Insights Into A
Scavenging Nitric Oxide Reductase
pdb|1YCH|A Chain A, X-Ray Crystal Structures Of Moorella Thermoacetica Fpra.
Novel Diiron Site Structure And Mechanistic Insights
Into A Scavenging Nitric Oxide Reductase
pdb|1YCH|B Chain B, X-Ray Crystal Structures Of Moorella Thermoacetica Fpra.
Novel Diiron Site Structure And Mechanistic Insights
Into A Scavenging Nitric Oxide Reductase
pdb|1YCH|C Chain C, X-Ray Crystal Structures Of Moorella Thermoacetica Fpra.
Novel Diiron Site Structure And Mechanistic Insights
Into A Scavenging Nitric Oxide Reductase
pdb|1YCH|D Chain D, X-Ray Crystal Structures Of Moorella Thermoacetica Fpra.
Novel Diiron Site Structure And Mechanistic Insights
Into A Scavenging Nitric Oxide Reductase
Length = 398
Score = 28.1 bits (61), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 28/65 (43%), Gaps = 6/65 (9%)
Query: 37 RSCVYMSY---KGKTILFDCGIHPAYSGMAALPYFDEI-DPSAIDVLLITHFHLDHAASL 92
R Y +Y KT L D P + A +I DP +D L++ H DHA +
Sbjct: 32 RGTTYNAYLIVDDKTALVDTVYEPFKEELIA--KLKQIKDPVKLDYLVVNHTESDHAGAF 89
Query: 93 PYFLE 97
P +E
Sbjct: 90 PAIME 94
>pdb|1VME|A Chain A, Crystal Structure Of Flavoprotein (Tm0755) From Thermotoga
Maritima At 1.80 A Resolution
pdb|1VME|B Chain B, Crystal Structure Of Flavoprotein (Tm0755) From Thermotoga
Maritima At 1.80 A Resolution
Length = 410
Score = 27.7 bits (60), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 30/72 (41%), Gaps = 13/72 (18%)
Query: 34 EVGRSCVYMSY----KGKTILFDCGIHPAYSGMAALPYFDE----IDPSAIDVLLITHFH 85
E+ Y +Y G +L D + G A + D +DP I +++ H
Sbjct: 45 EIPEGISYNAYLVKLNGANVLID-----GWKGNYAKEFIDALSKIVDPKEITHIIVNHTE 99
Query: 86 LDHAASLPYFLE 97
DH+ SLP L+
Sbjct: 100 PDHSGSLPATLK 111
>pdb|3SR3|A Chain A, Crystal Structure Of The W180a Mutant Of Microcin Immunity
Protein Mccf From Bacillus Anthracis Shows The Active
Site Loop In The Open Conformation.
pdb|3SR3|B Chain B, Crystal Structure Of The W180a Mutant Of Microcin Immunity
Protein Mccf From Bacillus Anthracis Shows The Active
Site Loop In The Open Conformation
Length = 336
Score = 27.7 bits (60), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 31/72 (43%), Gaps = 1/72 (1%)
Query: 57 PAYSGMAALPYFDEIDPSAIDVLLITHFHLDHAASLPYFLEKTTFSGRVFMTHATKAIYK 116
P + G A +P F E +P D L H +LPY +++ F F+ K K
Sbjct: 131 PTFYGPALVPSFGEFEPFVDDTYKYFLETLLHDQALPYNIKQPLFWSDEFINAEEKTKEK 190
Query: 117 LLL-TDYVKVSK 127
L +++ V+
Sbjct: 191 ELRPNNWISVTN 202
>pdb|2DY4|A Chain A, Crystal Structure Of Rb69 Gp43 In Complex With Dna
Containing Thymine Glycol
pdb|2DY4|B Chain B, Crystal Structure Of Rb69 Gp43 In Complex With Dna
Containing Thymine Glycol
pdb|2DY4|C Chain C, Crystal Structure Of Rb69 Gp43 In Complex With Dna
Containing Thymine Glycol
pdb|2DY4|D Chain D, Crystal Structure Of Rb69 Gp43 In Complex With Dna
Containing Thymine Glycol
pdb|2P5O|A Chain A, Crystal Structure Of Rb69 Gp43 In Complex With Dna
Containing An Abasic Site Analog
pdb|2P5O|B Chain B, Crystal Structure Of Rb69 Gp43 In Complex With Dna
Containing An Abasic Site Analog
pdb|2P5O|C Chain C, Crystal Structure Of Rb69 Gp43 In Complex With Dna
Containing An Abasic Site Analog
pdb|2P5O|D Chain D, Crystal Structure Of Rb69 Gp43 In Complex With Dna
Containing An Abasic Site Analog
pdb|2P5G|A Chain A, Crystal Structure Of Rb69 Gp43 In Complex With Dna With
Damp Opposite An Abasic Site Analog In A 21mer Template
pdb|2P5G|B Chain B, Crystal Structure Of Rb69 Gp43 In Complex With Dna With
Damp Opposite An Abasic Site Analog In A 21mer Template
pdb|2P5G|C Chain C, Crystal Structure Of Rb69 Gp43 In Complex With Dna With
Damp Opposite An Abasic Site Analog In A 21mer Template
pdb|2P5G|D Chain D, Crystal Structure Of Rb69 Gp43 In Complex With Dna With
Damp Opposite An Abasic Site Analog In A 21mer Template
Length = 903
Score = 27.7 bits (60), Expect = 2.5, Method: Composition-based stats.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|3SUN|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Dttp
Opposite 2ap (At Rich Sequence)
Length = 895
Score = 27.7 bits (60), Expect = 2.6, Method: Composition-based stats.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 14 DVPVSREGDQLTIIPLGAGNEVGRSCV 40
D P EG+++ ++PL GN G C+
Sbjct: 820 DAPQVVEGEKVYVLPLREGNPFGDKCI 846
>pdb|3G1P|A Chain A, Crystals Structure Of Phnp From E.Coli K-12
pdb|3G1P|B Chain B, Crystals Structure Of Phnp From E.Coli K-12
pdb|3P2U|A Chain A, Crystal Structure Of Phnp In Complex With Orthovanadate
pdb|3P2U|B Chain B, Crystal Structure Of Phnp In Complex With Orthovanadate
Length = 258
Score = 26.9 bits (58), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 69 DEIDPSAIDVLLITHFHLDHAASL 92
D P + L+TH+H+DH L
Sbjct: 62 DRWSPGSFQQFLLTHYHMDHVQGL 85
>pdb|1P9E|A Chain A, Crystal Structure Analysis Of Methyl Parathion Hydrolase
From Pseudomonas Sp Wbc-3
pdb|1P9E|B Chain B, Crystal Structure Analysis Of Methyl Parathion Hydrolase
From Pseudomonas Sp Wbc-3
Length = 331
Score = 26.2 bits (56), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 31/83 (37%), Gaps = 5/83 (6%)
Query: 47 KTILFDCG----IHPAYSGMAALPYFDEIDPSAIDVLLITHFHLDHAASLPYFLEKTTFS 102
K +L D G P +AA P +D + ITH H DH L E+ F
Sbjct: 107 KLVLVDTGAAGLFGPTLGRLAANLKAAGYQPEQVDEIYITHMHPDHVGGL-MVGEQLAFP 165
Query: 103 GRVFMTHATKAIYKLLLTDYVKV 125
V +A + L T+ K
Sbjct: 166 NAVVRADQKEADFWLSQTNLDKA 188
>pdb|2E1M|A Chain A, Crystal Structure Of L-Glutamate Oxidase From Streptomyces
Sp. X-119-6
Length = 376
Score = 26.2 bits (56), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 26/110 (23%), Positives = 44/110 (40%), Gaps = 10/110 (9%)
Query: 17 VSREGDQLTIIPLGAGNEVGRSCVYMSYKGKTILFDCGIHPAYSGMAALPYFDEIDPSAI 76
++R G +TI+ A GR + + KG+ F A +G LP F + + I
Sbjct: 63 LTRAGHDVTILEANANRVGGRIKTFHAKKGEPSPFADPAQYAEAGAMRLPSFHPLTLALI 122
Query: 77 DVLLITH---FHLD-------HAASLPYFLEKTTFSGRVFMTHATKAIYK 116
D L + F++D A +P K+ G+ + A +K
Sbjct: 123 DKLGLKRRLFFNVDIDPQTGNQDAPVPPVFYKSFKDGKTWTNGAPSPEFK 172
>pdb|4EFZ|A Chain A, Crystal Structure Of A Hypothetical Metallo-Beta-Lactamase
From Burkholderia Pseudomallei
pdb|4EFZ|B Chain B, Crystal Structure Of A Hypothetical Metallo-Beta-Lactamase
From Burkholderia Pseudomallei
Length = 298
Score = 25.8 bits (55), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 3/35 (8%)
Query: 79 LLITHFHLDHAASLPYFLEKTTFSGRVFM-THATK 112
LL TH H DH ++ PY KT G + + H T+
Sbjct: 68 LLETHVHADHLSAAPYL--KTRVGGEIAIGRHVTR 100
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
0.325 0.140 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,601,862
Number of Sequences: 62578
Number of extensions: 182110
Number of successful extensions: 545
Number of sequences better than 100.0: 65
Number of HSP's better than 100.0 without gapping: 62
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 468
Number of HSP's gapped (non-prelim): 66
length of query: 157
length of database: 14,973,337
effective HSP length: 91
effective length of query: 66
effective length of database: 9,278,739
effective search space: 612396774
effective search space used: 612396774
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 47 (22.7 bits)