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= 023857
(276 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4GFQ|A Chain A, 2.65 Angstrom Resolution Crystal Structure Of Ribosome
Recycling Factor (Frr) From Bacillus Anthracis
Length = 209
Score = 180 bits (456), Expect = 8e-46, Method: Compositional matrix adjust.
Identities = 83/174 (47%), Positives = 126/174 (72%)
Query: 103 RMERTIDMVRTNFNSVRTGRSNPAMLDKIEVEYYGSPVSLKSIAQINTPDSSSLLIQPYD 162
+ME+ + +VR GR++ ++LDK++V+YYG+P + +A I P++ L+IQPYD
Sbjct: 36 KMEKAVAAYSRELATVRAGRASASVLDKVQVDYYGAPTPVVQLANITVPEARLLVIQPYD 95
Query: 163 KSSLKSIEKAIVSSDLGMTPNNDGEVIRLTLPQLTSERRKELSKVVAKQAEEGKVAVRNI 222
K+S+ IEKAI+ +DLG+ P+NDG VIR+ P LT ERR++L KVV K AEE KVAVRN+
Sbjct: 96 KTSIGDIEKAILKADLGLNPSNDGTVIRIAFPALTEERRRDLVKVVKKYAEEAKVAVRNV 155
Query: 223 RRDALKAYEKLQKEKKLSEDNVKDLSSDLQKLTDEYMKKIDSIYKQKEKELLKV 276
RRD +KL+K +++ED+++ + D+QK TD+Y+ K+D I K KEKE+++V
Sbjct: 156 RRDGNDDLKKLEKAGEITEDDLRGYTEDIQKETDKYIAKVDEIAKNKEKEIMEV 209
>pdb|1EH1|A Chain A, Ribosome Recycling Factor From Thermus Thermophilus
pdb|2V46|Y Chain Y, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 1 Of 4). This File Contains The 30s
Subunit, Mrna, P-Site Asl, E-Site Trna And Rrf For
Molecule 1.
pdb|2V48|Y Chain Y, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 3 Of 4). This File Contains The 30s
Subunit, Mrna, P-Site Asl, E-Site Trna And Rrf For
Molecule 2.
pdb|2QBE|6 Chain 6, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
First 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QBG|6 Chain 6, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
Second 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QBI|6 Chain 6, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 50s
Subunit Of The First 70s Ribosome, With Gentamicin And
Rrf Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2QBK|6 Chain 6, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 50s
Subunit Of The Second 70s Ribosome, With Gentamicin And
Rrf Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2Z4L|6 Chain 6, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The First 70s Ribosome, With Paromomycin
And Rrf Bound. The Entire Crystal Structure Contains Two
70s Ribosomes And Is Described In Remark 400.
pdb|2Z4N|6 Chain 6, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The Second 70s Ribosome, With Paromomycin
And Rrf Bound. The Entire Crystal Structure Contains Two
70s Ribosomes And Is Described In Remark 400.
pdb|3J0D|J Chain J, Models For The T. Thermophilus Ribosome Recycling Factor
Bound To The E. Coli Post-Termination Complex
pdb|3J0E|G Chain G, Models For The T. Thermophilus Ribosome Recycling Factor
And The E. Coli Elongation Factor G Bound To The E. Coli
Post-Termination Complex
Length = 185
Score = 175 bits (444), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 80/176 (45%), Positives = 129/176 (73%)
Query: 99 DVKARMERTIDMVRTNFNSVRTGRSNPAMLDKIEVEYYGSPVSLKSIAQINTPDSSSLLI 158
+ ++ M+++++++ N +RTGR+NPA+L ++VEYYG+ V L IA + PD +L++
Sbjct: 9 ETRSHMQKSLEVLEHNLAGLRTGRANPALLLHLKVEYYGAHVPLNQIATVTAPDPRTLVV 68
Query: 159 QPYDKSSLKSIEKAIVSSDLGMTPNNDGEVIRLTLPQLTSERRKELSKVVAKQAEEGKVA 218
Q +D+++LK+IEKAI SDLG+ P+N G+ + + +P LT ERRK+L + V + AEEG+VA
Sbjct: 69 QSWDQNALKAIEKAIRDSDLGLNPSNKGDALYINIPPLTEERRKDLVRAVRQYAEEGRVA 128
Query: 219 VRNIRRDALKAYEKLQKEKKLSEDNVKDLSSDLQKLTDEYMKKIDSIYKQKEKELL 274
+RNIRR+AL +KL KE LSED K +++QK+TDE++ K D + ++KE+E+L
Sbjct: 129 IRNIRREALDKLKKLAKELHLSEDETKRAEAEIQKITDEFIAKADQLAEKKEQEIL 184
>pdb|1WQF|A Chain A, Crystal Structure Of Ribosome Recycling Factor From
Mycobacterium Tuberculosis
pdb|1WQG|A Chain A, Crystal Structure Of Ribosome Recycling Factor From
Mycobacterium Tuberculosis
pdb|1WQH|A Chain A, Crystal Structure Of Ribosome Recycling Factor From
Mycobacterium Tuberculosis
Length = 185
Score = 170 bits (430), Expect = 8e-43, Method: Compositional matrix adjust.
Identities = 77/178 (43%), Positives = 121/178 (67%)
Query: 99 DVKARMERTIDMVRTNFNSVRTGRSNPAMLDKIEVEYYGSPVSLKSIAQINTPDSSSLLI 158
D + +ME+ + + R + +++RTGR+NP M +I ++YYG+ + +A IN P++ ++I
Sbjct: 8 DAEEKMEKAVAVARDDLSTIRTGRANPGMFSRITIDYYGAATPITQLASINVPEARLVVI 67
Query: 159 QPYDKSSLKSIEKAIVSSDLGMTPNNDGEVIRLTLPQLTSERRKELSKVVAKQAEEGKVA 218
+PY+ + L++IE AI +SDLG+ P NDG +IR+ +PQLT ERR+EL K + EE KV+
Sbjct: 68 KPYEANQLRAIETAIRNSDLGVNPTNDGALIRVAVPQLTEERRRELVKQAKHKGEEAKVS 127
Query: 219 VRNIRRDALKAYEKLQKEKKLSEDNVKDLSSDLQKLTDEYMKKIDSIYKQKEKELLKV 276
VRNIRR A++ +++KE + ED V DL K T +Y+ +ID + K KE ELL+V
Sbjct: 128 VRNIRRKAMEELHRIRKEGEAGEDEVGRAEKDLDKTTHQYVTQIDELVKHKEGELLEV 185
>pdb|1EK8|A Chain A, Crystal Structure Of The Ribosome Recycling Factor (Rrf)
From Escherichia Coli
pdb|1ZN0|A Chain A, Coordinates Of Rrf And Ef-G Fitted Into Cryo-Em Map Of The
50s Subunit Bound With Both Ef-G (Gdpnp) And Rrf
pdb|1ZN1|A Chain A, Coordinates Of Rrf Fitted Into Cryo-Em Map Of The 70s
Post- Termination Complex
pdb|2RDO|8 Chain 8, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound
pdb|4GAS|Y Chain Y, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
Length = 185
Score = 166 bits (419), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 80/177 (45%), Positives = 125/177 (70%)
Query: 99 DVKARMERTIDMVRTNFNSVRTGRSNPAMLDKIEVEYYGSPVSLKSIAQINTPDSSSLLI 158
D + RM++ ++ +T + +RTGR++P++LD I VEYYG+P L+ +A + DS +L I
Sbjct: 8 DAEVRMDKCVEAFKTQISKIRTGRASPSLLDGIVVEYYGTPTPLRQLASVTVEDSRTLKI 67
Query: 159 QPYDKSSLKSIEKAIVSSDLGMTPNNDGEVIRLTLPQLTSERRKELSKVVAKQAEEGKVA 218
+D+S ++EKAI++SDLG+ PN+ G IR+ LP LT ERRK+L+K+V +AE+ +VA
Sbjct: 68 NVFDRSMSPAVEKAIMASDLGLNPNSAGSDIRVPLPPLTEERRKDLTKIVRGEAEQARVA 127
Query: 219 VRNIRRDALKAYEKLQKEKKLSEDNVKDLSSDLQKLTDEYMKKIDSIYKQKEKELLK 275
VRN+RRDA + L K+K++SED+ + D+QKLTD +KKI++ KE EL++
Sbjct: 128 VRNVRRDANDKVKALLKDKEISEDDDRRSQDDVQKLTDAAIKKIEAALADKEAELMQ 184
>pdb|4GD1|Y Chain Y, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
Length = 183
Score = 165 bits (418), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 80/176 (45%), Positives = 124/176 (70%)
Query: 99 DVKARMERTIDMVRTNFNSVRTGRSNPAMLDKIEVEYYGSPVSLKSIAQINTPDSSSLLI 158
D + RM++ ++ +T + +RTGR++P++LD I VEYYG+P L+ +A + DS +L I
Sbjct: 8 DAEVRMDKCVEAFKTQISKIRTGRASPSLLDGIVVEYYGTPTPLRQLASVTVEDSRTLKI 67
Query: 159 QPYDKSSLKSIEKAIVSSDLGMTPNNDGEVIRLTLPQLTSERRKELSKVVAKQAEEGKVA 218
+D+S ++EKAI++SDLG+ PN+ G IR+ LP LT ERRK+L+K+V +AE+ +VA
Sbjct: 68 NVFDRSMSPAVEKAIMASDLGLNPNSAGSDIRVPLPPLTEERRKDLTKIVRGEAEQARVA 127
Query: 219 VRNIRRDALKAYEKLQKEKKLSEDNVKDLSSDLQKLTDEYMKKIDSIYKQKEKELL 274
VRN+RRDA + L K+K++SED+ + D+QKLTD +KKI++ KE EL+
Sbjct: 128 VRNVRRDANDKVKALLKDKEISEDDDRRSQDDVQKLTDAAIKKIEAALADKEAELM 183
>pdb|1IS1|A Chain A, Crystal Structure Of Ribosome Recycling Factor From Vibrio
Parahaemolyticus
Length = 185
Score = 163 bits (412), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 81/178 (45%), Positives = 122/178 (68%)
Query: 99 DVKARMERTIDMVRTNFNSVRTGRSNPAMLDKIEVEYYGSPVSLKSIAQINTPDSSSLLI 158
D + RM+++++ ++ N + VRTGR++P++L I VEYYG+ L +A + D+ +L I
Sbjct: 8 DAQERMDKSVEALKNNLSKVRTGRAHPSLLSGISVEYYGAATPLNQVANVVAEDARTLAI 67
Query: 159 QPYDKSSLKSIEKAIVSSDLGMTPNNDGEVIRLTLPQLTSERRKELSKVVAKQAEEGKVA 218
+DK + +EKAI+ SDLG+ P + G +IR+ LP LT ERRK+L K+V +AE G+VA
Sbjct: 68 TVFDKELTQKVEKAIMMSDLGLNPMSAGTIIRVPLPPLTEERRKDLVKIVRGEAEGGRVA 127
Query: 219 VRNIRRDALKAYEKLQKEKKLSEDNVKDLSSDLQKLTDEYMKKIDSIYKQKEKELLKV 276
VRNIRRDA + L K+K++SED + ++QKLTD +KKID + KEKEL++V
Sbjct: 128 VRNIRRDANNDLKALLKDKEISEDEDRKAQEEIQKLTDVAVKKIDEVLAAKEKELMEV 185
>pdb|1ISE|A Chain A, Crystal Structure Of A Mutant Of Ribosome Recycling Factor
From Escherichia Coli, Arg132gly
Length = 185
Score = 162 bits (411), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 79/177 (44%), Positives = 124/177 (70%)
Query: 99 DVKARMERTIDMVRTNFNSVRTGRSNPAMLDKIEVEYYGSPVSLKSIAQINTPDSSSLLI 158
D + RM++ ++ +T + +RTGR++P++LD I VEYYG+P L+ +A + DS +L I
Sbjct: 8 DAEVRMDKCVEAFKTQISKIRTGRASPSLLDGIVVEYYGTPTPLRQLASVTVEDSRTLKI 67
Query: 159 QPYDKSSLKSIEKAIVSSDLGMTPNNDGEVIRLTLPQLTSERRKELSKVVAKQAEEGKVA 218
+D+S ++EKAI++SDLG+ PN+ G IR+ LP LT ERRK+L+K+V +AE+ +VA
Sbjct: 68 NVFDRSMSPAVEKAIMASDLGLNPNSAGSDIRVPLPPLTEERRKDLTKIVRGEAEQARVA 127
Query: 219 VRNIRRDALKAYEKLQKEKKLSEDNVKDLSSDLQKLTDEYMKKIDSIYKQKEKELLK 275
VRN+ RDA + L K+K++SED+ + D+QKLTD +KKI++ KE EL++
Sbjct: 128 VRNVGRDANDKVKALLKDKEISEDDDRRSQDDVQKLTDAAIKKIEAALADKEAELMQ 184
>pdb|1DD5|A Chain A, Crystal Structure Of Thermotoga Maritima Ribosome
Recycling Factor, Rrf
pdb|1T1M|C Chain C, Binding Position Of Ribosome Recycling Factor (Rrf) On The
E. Coli 70s Ribosome
Length = 185
Score = 160 bits (405), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 76/177 (42%), Positives = 127/177 (71%)
Query: 99 DVKARMERTIDMVRTNFNSVRTGRSNPAMLDKIEVEYYGSPVSLKSIAQINTPDSSSLLI 158
+ K +M+RT++ + +RTG+ +PA+L++I+V+YYG P + +A I+ + +L+I
Sbjct: 8 EAKEKMKRTLEKIEDELRKMRTGKPSPAILEEIKVDYYGVPTPVNQLATISISEERTLVI 67
Query: 159 QPYDKSSLKSIEKAIVSSDLGMTPNNDGEVIRLTLPQLTSERRKELSKVVAKQAEEGKVA 218
+P+DKS L IEKAI +SDLG+ P NDG VIRL P T+E+R++ K + EEGK+A
Sbjct: 68 KPWDKSVLSLIEKAINASDLGLNPINDGNVIRLVFPSPTTEQREKWVKKAKEIVEEGKIA 127
Query: 219 VRNIRRDALKAYEKLQKEKKLSEDNVKDLSSDLQKLTDEYMKKIDSIYKQKEKELLK 275
+RNIRR+ LK ++ QKE + ED+ K L +++QKLTDE+++K+D +++ K++E+++
Sbjct: 128 IRNIRREILKKIKEDQKEGLIPEDDAKRLENEIQKLTDEFIEKLDEVFEIKKEEIME 184
>pdb|1GE9|A Chain A, Solution Structure Of The Ribosome Recycling Factor
Length = 184
Score = 115 bits (288), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 69/173 (39%), Positives = 117/173 (67%), Gaps = 4/173 (2%)
Query: 104 MERTIDMVRTNFNSVRTGRSNPAMLDKIEVEYYGSPVSLKSIAQINTPDSSSLLIQPYDK 163
M++ ++ + +RT R++ A++++I+VEYYGS V +K + I+ P+ + ++IQ +D+
Sbjct: 16 MKKAVEYYKNEIAGLRTSRASTALVEEIKVEYYGSKVPIKQLGTISVPEHNQIVIQVWDQ 75
Query: 164 SSLKSIEKAIVSSDLGMTPNNDGEVIRLTLPQLTSERRKELSKVVAKQAEEGKVAVRNIR 223
+++ +IEKAI +L + P G VIR+TLP LT ERR+EL +++ K EE +V VRN+R
Sbjct: 76 NAVPAIEKAI-REELNLNPTVQGNVIRVTLPPLTEERRRELVRLLHKITEEARVRVRNVR 134
Query: 224 RDALKAYEKLQKEKKLSEDNVKDLSSDLQKLTDEYMKKIDSIYKQKEKELLKV 276
R+A + E+L+ +SED K LQKLTD+Y+ +I+ + + KEKE++ V
Sbjct: 135 REAKEMIEELE---GISEDEKKRALERLQKLTDKYIDEINKLMEAKEKEIMSV 184
>pdb|1Y69|8 Chain 8, Rrf Domain I In Complex With The 50s Ribosomal Subunit
From Deinococcus Radiodurans
Length = 113
Score = 71.6 bits (174), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 38/79 (48%), Positives = 57/79 (72%)
Query: 197 TSERRKELSKVVAKQAEEGKVAVRNIRRDALKAYEKLQKEKKLSEDNVKDLSSDLQKLTD 256
T ERRK+L+K+V +AE+ +VAVRN+RRDA + L K+K++SED+ + D+QKLTD
Sbjct: 34 TEERRKDLTKIVRGEAEQARVAVRNVRRDANDKVKALLKDKEISEDDDRRSQDDVQKLTD 93
Query: 257 EYMKKIDSIYKQKEKELLK 275
+KKI++ KE EL++
Sbjct: 94 AAIKKIEAALADKEAELMQ 112
>pdb|3LF9|A Chain A, Crystal Structure Of Hiv Epitope-Scaffold
4e10_d0_1is1a_001_c
Length = 121
Score = 67.4 bits (163), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 38/80 (47%), Positives = 54/80 (67%)
Query: 197 TSERRKELSKVVAKQAEEGKVAVRNIRRDALKAYEKLQKEKKLSEDNVKDLSSDLQKLTD 256
T ERRK+L K+V +AE G+VAVRNI RDA L K+K+++ ++ ++QKLTD
Sbjct: 34 TEERRKDLVKIVRGEAEGGRVAVRNIARDAANDLAALGKDKEVNWFDISQALWEIQKLTD 93
Query: 257 EYMKKIDSIYKQKEKELLKV 276
+KKID + KEKEL++V
Sbjct: 94 VAVKKIDEVLAAKEKELMEV 113
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 34/63 (53%), Gaps = 5/63 (7%)
Query: 99 DVKARMERTIDMVRTNFNSVRTGRSNPA-----MLDKIEVEYYGSPVSLKSIAQINTPDS 153
D + RM+++++ ++ N + VRTG ++ + E G V++++IA+ D
Sbjct: 8 DAQERMDKSVEALKNNLSKVRTGGGGTEERRKDLVKIVRGEAEGGRVAVRNIARDAANDL 67
Query: 154 SSL 156
++L
Sbjct: 68 AAL 70
>pdb|3LHP|S Chain S, Crystal Structure Of Hiv Epitope-Scaffold
4e10_d0_1isea_004_n 4e10 Fv Complex
pdb|3LHP|T Chain T, Crystal Structure Of Hiv Epitope-Scaffold
4e10_d0_1isea_004_n 4e10 Fv Complex
Length = 123
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 47/76 (61%), Gaps = 2/76 (2%)
Query: 189 IRLTLPQLTSERRKELSKVVAKQAEEGKVAVRNIRRDALKAYEKLQKEKKLSEDNVKDLS 248
+R P T ER K+ K+V +AE+ +VAVRN+ RDA L K+K+++ ++
Sbjct: 38 VRKVFP--TEERIKDWLKIVRGEAEQARVAVRNVGRDANDKAAALGKDKEINWFDISQSL 95
Query: 249 SDLQKLTDEYMKKIDS 264
D+QKLTD +KKI++
Sbjct: 96 WDVQKLTDAAIKKIEA 111
>pdb|2WXX|A Chain A, Crystal Structure Of Mouse Angiotensinogen In The Oxidised
Form
pdb|2WXX|B Chain B, Crystal Structure Of Mouse Angiotensinogen In The Oxidised
Form
pdb|2WXX|C Chain C, Crystal Structure Of Mouse Angiotensinogen In The Oxidised
Form
pdb|2WXX|D Chain D, Crystal Structure Of Mouse Angiotensinogen In The Oxidised
Form
pdb|2WXY|C Chain C, Crystal Structure Of Mouse Angiotensinogen In The Reduced
Form
pdb|2WY0|C Chain C, Crystal Structure Of Mouse Angiotensinogen In The Oxidised
Form With Space Group P6122
Length = 453
Score = 32.0 bits (71), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 156 LLIQPYDKSSLKSIEKAIVSSD-LGMTPNNDGEVIRLTLPQLTSERRKELSKVVAK 210
LLIQP+ S L +E I +D L N IRLTLPQL L ++A+
Sbjct: 310 LLIQPHCISDLDRVEALIFQNDLLTWIENPPPRAIRLTLPQLEIRGSYNLQDLLAE 365
>pdb|1C3U|A Chain A, T. Maritima Adenylosuccinate Lyase
pdb|1C3U|B Chain B, T. Maritima Adenylosuccinate Lyase
Length = 431
Score = 31.6 bits (70), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 45/76 (59%), Gaps = 9/76 (11%)
Query: 206 KVVAKQAEEG---KVAVRNIRRDALKAY--EKLQKEKKLSEDNVKDLSS--DLQKLTD-- 256
+V+ K E+G K A ++R+ALK + EK E L ++ VK L + +L++L D
Sbjct: 356 RVLLKLIEKGLTRKEAYDIVQRNALKTWNSEKHFLEYLLEDEEVKKLVTKEELEELFDIS 415
Query: 257 EYMKKIDSIYKQKEKE 272
Y+K +D I+++ EKE
Sbjct: 416 YYLKHVDHIFERFEKE 431
>pdb|3UA1|A Chain A, Crystal Structure Of The Cytochrome
P4503a4-Bromoergocryptine Complex
pdb|3TJS|A Chain A, Crystal Structure Of The Complex Between Human Cytochrome
P450 3a4 And Desthiazolylmethyloxycarbonyl Ritonavir
Length = 487
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 3/33 (9%)
Query: 194 PQLTSERRKELSKVVAKQAEEGKVAVRNIRRDA 226
P TS + KE+ ++A+ G V VRN+RR+A
Sbjct: 115 PTFTSGKLKEMVPIIAQY---GDVLVRNLRREA 144
>pdb|1TQN|A Chain A, Crystal Structure Of Human Microsomal P450 3a4
Length = 486
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 3/33 (9%)
Query: 194 PQLTSERRKELSKVVAKQAEEGKVAVRNIRRDA 226
P TS + KE+ ++A+ G V VRN+RR+A
Sbjct: 114 PTFTSGKLKEMVPIIAQY---GDVLVRNLRREA 143
>pdb|1W0E|A Chain A, Crystal Structure Of Human Cytochrome P450 3a4
pdb|1W0F|A Chain A, Crystal Structure Of Human Cytochrome P450 3a4
pdb|1W0G|A Chain A, Crystal Structure Of Human Cytochrome P450 3a4
pdb|2J0D|A Chain A, Crystal Structure Of Human P450 3a4 In Complex With
Erythromycin
pdb|2J0D|B Chain B, Crystal Structure Of Human P450 3a4 In Complex With
Erythromycin
pdb|2V0M|A Chain A, Crystal Structure Of Human P450 3a4 In Complex With
Ketoconazole
pdb|2V0M|B Chain B, Crystal Structure Of Human P450 3a4 In Complex With
Ketoconazole
pdb|2V0M|C Chain C, Crystal Structure Of Human P450 3a4 In Complex With
Ketoconazole
pdb|2V0M|D Chain D, Crystal Structure Of Human P450 3a4 In Complex With
Ketoconazole
pdb|3NXU|A Chain A, Crystal Structure Of Human Cytochrome P4503a4 Bound To An
Inhibitor Ritonavir
pdb|3NXU|B Chain B, Crystal Structure Of Human Cytochrome P4503a4 Bound To An
Inhibitor Ritonavir
Length = 485
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 3/33 (9%)
Query: 194 PQLTSERRKELSKVVAKQAEEGKVAVRNIRRDA 226
P TS + KE+ ++A+ G V VRN+RR+A
Sbjct: 113 PTFTSGKLKEMVPIIAQY---GDVLVRNLRREA 142
>pdb|2Y75|A Chain A, The Structure Of Cymr (Yrzc) The Global Cysteine Regulator
Of B. Subtilis
pdb|2Y75|B Chain B, The Structure Of Cymr (Yrzc) The Global Cysteine Regulator
Of B. Subtilis
pdb|2Y75|C Chain C, The Structure Of Cymr (Yrzc) The Global Cysteine Regulator
Of B. Subtilis
pdb|2Y75|D Chain D, The Structure Of Cymr (Yrzc) The Global Cysteine Regulator
Of B. Subtilis
pdb|2Y75|E Chain E, The Structure Of Cymr (Yrzc) The Global Cysteine Regulator
Of B. Subtilis
pdb|2Y75|F Chain F, The Structure Of Cymr (Yrzc) The Global Cysteine Regulator
Of B. Subtilis
Length = 129
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 37/76 (48%), Gaps = 5/76 (6%)
Query: 121 GRSNPAMLDKIEVEYYGSPVSLKSIAQINTPDSSSL--LIQPYDKSSL-KSIEKAIVSSD 177
GR ++ ++ ++ P SLKSIAQ N L L+ P + L KSI A
Sbjct: 8 GRYGLTIMIELAKKHGEGPTSLKSIAQTNNLSEHYLEQLVSPLRNAGLVKSIRGAYGGYV 67
Query: 178 LGMTPN--NDGEVIRL 191
LG P+ G++IR+
Sbjct: 68 LGSEPDAITAGDIIRV 83
>pdb|1RD5|A Chain A, Crystal Structure Of Tryptophan Synthase Alpha Chain
Homolog Bx1: A Member Of The Chemical Plant Defense
System
pdb|1RD5|B Chain B, Crystal Structure Of Tryptophan Synthase Alpha Chain
Homolog Bx1: A Member Of The Chemical Plant Defense
System
Length = 262
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 33/114 (28%), Positives = 51/114 (44%), Gaps = 24/114 (21%)
Query: 107 TIDMVRTNFNSVRTGRSNPAMLDKIEVEYYGSPVSLKSIAQINTPDSSSLLIQ--PYDKS 164
T+D V V S P +L + YY P+ +S+A++ L++ PY +
Sbjct: 78 TMDAVLEMLREVTPELSCPVVL----LSYY-KPIMFRSLAKMKEAGVHGLIVPDLPYVAA 132
Query: 165 -SLKSIEKAIVSSDLGMTPNNDGEVIRLTLPQLTSERRKELSKVVAKQAEEGKV 217
SL S K NN+ E++ LT P + +R KE++K A EG V
Sbjct: 133 HSLWSEAK-----------NNNLELVLLTTPAIPEDRMKEITK-----ASEGFV 170
>pdb|1JNR|A Chain A, Structure Of Adenylylsulfate Reductase From The
Hyperthermophilic Archaeoglobus Fulgidus At 1.6
Resolution
pdb|1JNR|C Chain C, Structure Of Adenylylsulfate Reductase From The
Hyperthermophilic Archaeoglobus Fulgidus At 1.6
Resolution
pdb|1JNZ|A Chain A, Structure Of Adenylylsulfate Reductase From The
Hyperthermophilic Archaeoglobus Fulgidus At 1.6
Resolution
pdb|1JNZ|C Chain C, Structure Of Adenylylsulfate Reductase From The
Hyperthermophilic Archaeoglobus Fulgidus At 1.6
Resolution
Length = 643
Score = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 13/23 (56%), Positives = 15/23 (65%)
Query: 251 LQKLTDEYMKKIDSIYKQKEKEL 273
LQK+ DEY I +IYK EK L
Sbjct: 521 LQKIMDEYAAGIATIYKTNEKML 543
>pdb|2FJA|A Chain A, Adenosine 5'-Phosphosulfate Reductase In Complex With
Substrate
pdb|2FJA|C Chain C, Adenosine 5'-Phosphosulfate Reductase In Complex With
Substrate
pdb|2FJB|A Chain A, Adenosine-5'-Phosphosulfate Reductase Im Complex With
Products
pdb|2FJB|C Chain C, Adenosine-5'-Phosphosulfate Reductase Im Complex With
Products
pdb|2FJD|A Chain A, Adenosine-5-Phosphosulfate Reductase In Complex With
Sulfite (Covalent Adduct)
pdb|2FJD|C Chain C, Adenosine-5-Phosphosulfate Reductase In Complex With
Sulfite (Covalent Adduct)
pdb|2FJE|A Chain A, Adenosine-5-Phosphosulfate Reductase Oxidized State
pdb|2FJE|C Chain C, Adenosine-5-Phosphosulfate Reductase Oxidized State
Length = 643
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 13/23 (56%), Positives = 15/23 (65%)
Query: 251 LQKLTDEYMKKIDSIYKQKEKEL 273
LQK+ DEY I +IYK EK L
Sbjct: 521 LQKIMDEYAAGIATIYKTNEKML 543
>pdb|3IAL|A Chain A, Giardia Lamblia Prolyl-Trna Synthetase In Complex With
Prolyl- Adenylate
pdb|3IAL|B Chain B, Giardia Lamblia Prolyl-Trna Synthetase In Complex With
Prolyl- Adenylate
Length = 518
Score = 27.7 bits (60), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 23/41 (56%)
Query: 203 ELSKVVAKQAEEGKVAVRNIRRDALKAYEKLQKEKKLSEDN 243
E+ KV + E ++ V+N+ +D L AY+ KEK + N
Sbjct: 397 EVMKVSSHTTENHELVVKNVIKDELDAYKARLKEKAFAFHN 437
>pdb|1MLV|A Chain A, Structure And Catalytic Mechanism Of A Set Domain Protein
Methyltransferase
pdb|1MLV|B Chain B, Structure And Catalytic Mechanism Of A Set Domain Protein
Methyltransferase
pdb|1MLV|C Chain C, Structure And Catalytic Mechanism Of A Set Domain Protein
Methyltransferase
pdb|1OZV|A Chain A, Crystal Structure Of The Set Domain Of Lsmt Bound To
Lysine And Adohcy
pdb|1OZV|B Chain B, Crystal Structure Of The Set Domain Of Lsmt Bound To
Lysine And Adohcy
pdb|1OZV|C Chain C, Crystal Structure Of The Set Domain Of Lsmt Bound To
Lysine And Adohcy
pdb|1P0Y|A Chain A, Crystal Structure Of The Set Domain Of Lsmt Bound To
Melysine And Adohcy
pdb|1P0Y|B Chain B, Crystal Structure Of The Set Domain Of Lsmt Bound To
Melysine And Adohcy
pdb|1P0Y|C Chain C, Crystal Structure Of The Set Domain Of Lsmt Bound To
Melysine And Adohcy
Length = 444
Score = 27.3 bits (59), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%), Gaps = 4/60 (6%)
Query: 218 AVRNIRRDALKAYEK-LQKEKKLSEDNVKD---LSSDLQKLTDEYMKKIDSIYKQKEKEL 273
AVR + AL Y ++++++L E N+ ++ +++ +++ID I++QKE EL
Sbjct: 355 AVREACKSALAGYHTTIEQDRELKEGNLDSRLAIAVGIREGEKMVLQQIDGIFEQKELEL 414
>pdb|2H21|A Chain A, Structure Of Rubisco Lsmt Bound To Adomet
pdb|2H21|B Chain B, Structure Of Rubisco Lsmt Bound To Adomet
pdb|2H21|C Chain C, Structure Of Rubisco Lsmt Bound To Adomet
pdb|2H23|A Chain A, Structure Of Rubisco Lsmt Bound To Trimethyllysine And
Adohcy
pdb|2H23|B Chain B, Structure Of Rubisco Lsmt Bound To Trimethyllysine And
Adohcy
pdb|2H23|C Chain C, Structure Of Rubisco Lsmt Bound To Trimethyllysine And
Adohcy
pdb|2H2E|A Chain A, Structure Of Rubisco Lsmt Bound To Azaadomet And Lysine
pdb|2H2E|B Chain B, Structure Of Rubisco Lsmt Bound To Azaadomet And Lysine
pdb|2H2E|C Chain C, Structure Of Rubisco Lsmt Bound To Azaadomet And Lysine
pdb|2H2J|A Chain A, Structure Of Rubisco Lsmt Bound To Sinefungin And
Monomethyllysine
pdb|2H2J|B Chain B, Structure Of Rubisco Lsmt Bound To Sinefungin And
Monomethyllysine
pdb|2H2J|C Chain C, Structure Of Rubisco Lsmt Bound To Sinefungin And
Monomethyllysine
Length = 440
Score = 27.3 bits (59), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%), Gaps = 4/60 (6%)
Query: 218 AVRNIRRDALKAYEK-LQKEKKLSEDNVKD---LSSDLQKLTDEYMKKIDSIYKQKEKEL 273
AVR + AL Y ++++++L E N+ ++ +++ +++ID I++QKE EL
Sbjct: 351 AVREACKSALAGYHTTIEQDRELKEGNLDSRLAIAVGIREGEKMVLQQIDGIFEQKELEL 410
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
0.313 0.127 0.343
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,852,839
Number of Sequences: 62578
Number of extensions: 230592
Number of successful extensions: 913
Number of sequences better than 100.0: 53
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 867
Number of HSP's gapped (non-prelim): 61
length of query: 276
length of database: 14,973,337
effective HSP length: 97
effective length of query: 179
effective length of database: 8,903,271
effective search space: 1593685509
effective search space used: 1593685509
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (24.3 bits)