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= psy18119
(263 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2NN6|B Chain B, Structure Of The Human Rna Exosome Composed Of Rrp41,
Rrp45, Rrp46, Rrp43, Mtr3, Rrp42, Csl4, Rrp4, And Rrp40
Length = 249
Score = 285 bits (729), Expect = 2e-77, Method: Compositional matrix adjust.
Identities = 135/235 (57%), Positives = 178/235 (75%), Gaps = 3/235 (1%)
Query: 1 MDLLTEYGGGLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVR-N 59
++LL++ G R DGRR ELRKI+ R+GVF+Q+DGSAYIEQGNTK LA VYGP +R +
Sbjct: 8 LELLSDQG--YRVDGRRAGELRKIQARMGVFAQADGSAYIEQGNTKALAVVYGPHEIRGS 65
Query: 60 KSIKVHGSVLINFQYSMAVFSTGERKTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQI 119
++ + L+N QYS A FSTGERK RP GDRK+ E+ LQLRQ AAI++++HPRSQI
Sbjct: 66 RARALPDRALVNCQYSSATFSTGERKRRPHGDRKSCEMGLQLRQTFEAAILTQLHPRSQI 125
Query: 120 DIFVEVLQADGGNFCACVNAATLALIDAGIPMREYVVACSASLAGDTPLVDISHLEETLG 179
DI+V+VLQADGG + ACVNAATLA++DAGIPMR++V ACSA T L D+SH+EE G
Sbjct: 126 DIYVQVLQADGGTYAACVNAATLAVLDAGIPMRDFVCACSAGFVDGTALADLSHVEEAAG 185
Query: 180 GPNLTVAALPLSGKVAVMELSQKLHLDHLPRVLDCALKGCADIHAILDTAIKQHL 234
GP L +A LP SG++A++E+ +LH DHL RVL+ A + D+H +LD ++QH+
Sbjct: 186 GPQLALALLPASGQIALLEMDARLHEDHLERVLEAAAQAARDVHTLLDRVVRQHV 240
>pdb|2WNR|B Chain B, The Structure Of Methanothermobacter Thermautotrophicus
Exosome Core Assembly
pdb|2WNR|D Chain D, The Structure Of Methanothermobacter Thermautotrophicus
Exosome Core Assembly
pdb|2WNR|F Chain F, The Structure Of Methanothermobacter Thermautotrophicus
Exosome Core Assembly
Length = 240
Score = 177 bits (450), Expect = 4e-45, Method: Compositional matrix adjust.
Identities = 91/223 (40%), Positives = 141/223 (63%), Gaps = 1/223 (0%)
Query: 11 LRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVLI 70
+R DGR ELR ++ G+ ++DGS+Y+E G K+L AVYGPR + + ++ +I
Sbjct: 16 VREDGRAFDELRPLKIEAGILERADGSSYLEFGGNKILVAVYGPREAQIRKLQRPDRAVI 75
Query: 71 NFQYSMAVFSTGERKTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVEVLQADG 130
+Y+MA FS ERK RP DR++ EIS +A+ A++ E PRS ID+F+EVL+A+G
Sbjct: 76 RCRYNMAPFSVEERK-RPGPDRRSVEISKITAEALRPALILEKFPRSVIDVFIEVLEAEG 134
Query: 131 GNFCACVNAATLALIDAGIPMREYVVACSASLAGDTPLVDISHLEETLGGPNLTVAALPL 190
G CA + AA++AL DAGIPMR+ VVAC+A GD ++D+S E+ G ++ VA LP
Sbjct: 135 GTRCAGITAASVALADAGIPMRDMVVACAAGKVGDQVVLDLSEEEDKEGQADVPVAILPR 194
Query: 191 SGKVAVMELSQKLHLDHLPRVLDCALKGCADIHAILDTAIKQH 233
+ ++ +++ L + R LD A++GC IH + A+++
Sbjct: 195 TREITLLQSDGNLTPEEFERALDLAVEGCLRIHEVQKEALRKR 237
>pdb|2PNZ|A Chain A, Crystal Structure Of The P. Abyssi Exosome Rnase Ph Ring
Complexed With Udp And Gmp
pdb|2PO0|A Chain A, Crystal Structure Of The P. Abyssi Exosome Rnase Ph Ring
Complexed With Adp In Double Conformation
pdb|2PO1|A Chain A, Crystal Structure Of The P. Abyssi Exosome Rnase Ph Ring
Complexed With A Single Stranded 10-Mer Poly(A) Rna
pdb|2PO2|A Chain A, Crystal Structure Of The P. Abyssi Exosome Rnase Ph Ring
Complexed With Cdp
Length = 249
Score = 174 bits (442), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 89/229 (38%), Positives = 141/229 (61%), Gaps = 1/229 (0%)
Query: 10 GLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVL 69
G R DGR+ +ELR I+ +GV ++GSAYIE G K++AAVYGPR + K ++ +
Sbjct: 15 GRRIDGRKKYELRPIKMEVGVLKNANGSAYIEWGKNKIIAAVYGPRELHPKHLQRPDRAI 74
Query: 70 INFQYSMAVFSTGERKTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVEVLQAD 129
+ +Y+MA FS ERK +P DR++ EIS ++ A+ A++ E+ PR+ ID+F+EVLQAD
Sbjct: 75 LRVRYNMAPFSVEERK-KPGPDRRSIEISKVIKGALEPALILEMFPRTAIDVFIEVLQAD 133
Query: 130 GGNFCACVNAATLALIDAGIPMREYVVACSASLAGDTPLVDISHLEETLGGPNLTVAALP 189
G A + AA+LAL DAGIPMR+ V AC+A ++D++ E+ G ++ VA +P
Sbjct: 134 AGTRVAGITAASLALADAGIPMRDLVAACAAGKIEGEIVLDLNKEEDNYGEADVPVAIMP 193
Query: 190 LSGKVAVMELSQKLHLDHLPRVLDCALKGCADIHAILDTAIKQHLIKVA 238
L + ++++ L D + A+KG ++ A+K+ +K+A
Sbjct: 194 LKNDITLLQMDGYLTKDEFIEAVKLAIKGAKAVYQKQREALKEKYLKIA 242
>pdb|2BA0|F Chain F, Archaeal Exosome Core
pdb|2BA0|E Chain E, Archaeal Exosome Core
pdb|2BA0|D Chain D, Archaeal Exosome Core
pdb|2BA1|D Chain D, Archaeal Exosome Core
pdb|2BA1|E Chain E, Archaeal Exosome Core
pdb|2BA1|F Chain F, Archaeal Exosome Core
Length = 258
Score = 171 bits (432), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 92/231 (39%), Positives = 142/231 (61%), Gaps = 4/231 (1%)
Query: 10 GLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVL 69
GLR DGR+ ELR I+ V ++DGS Y+E G KV+AAV+GPR V + ++ +
Sbjct: 15 GLRLDGRKFDELRPIKIEASVLKRADGSCYLEMGKNKVIAAVFGPREVHPRHLQDPSKAI 74
Query: 70 INFQYSMAVFSTGERKTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVEVLQAD 129
I ++Y+MA FS ERK RP DR++ EIS ++A A IM E+ PRS IDIFVEVLQAD
Sbjct: 75 IRYRYNMAPFSVEERK-RPGPDRRSIEISKVSKEAFEAVIMKELFPRSAIDIFVEVLQAD 133
Query: 130 GGNFCACVNAATLALIDAGIPMREYVVACSASLAGDTPLVDISHLEETLGGPNLTVAALP 189
G+ AC+NAA++AL+DAG+PM+ + + + A ++D E+ G ++ A L
Sbjct: 134 AGSRTACLNAASVALVDAGVPMKGMITSVAVGKADGQLVLDPMKEEDNFGEADMPFAFLI 193
Query: 190 LSGK---VAVMELSQKLHLDHLPRVLDCALKGCADIHAILDTAIKQHLIKV 237
+GK +A++++ ++ D + + ++ A KG I+ + AI + I+V
Sbjct: 194 RNGKIESIALLQMDGRMTRDEVKQAIELAKKGALQIYEMQREAILRRYIEV 244
>pdb|3M7N|D Chain D, Archaeoglobus Fulgidus Exosome With Rna Bound To The
Active Site
pdb|3M7N|E Chain E, Archaeoglobus Fulgidus Exosome With Rna Bound To The
Active Site
pdb|3M7N|F Chain F, Archaeoglobus Fulgidus Exosome With Rna Bound To The
Active Site
pdb|3M85|D Chain D, Archaeoglobus Fulgidus Exosome Y70a With Rna Bound To The
Active Site
pdb|3M85|E Chain E, Archaeoglobus Fulgidus Exosome Y70a With Rna Bound To The
Active Site
pdb|3M85|F Chain F, Archaeoglobus Fulgidus Exosome Y70a With Rna Bound To The
Active Site
Length = 258
Score = 170 bits (431), Expect = 6e-43, Method: Compositional matrix adjust.
Identities = 92/231 (39%), Positives = 142/231 (61%), Gaps = 4/231 (1%)
Query: 10 GLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVL 69
GLR DGR+ ELR I+ V ++DGS Y+E G KV+AAV+GPR V + ++ +
Sbjct: 15 GLRLDGRKFDELRPIKIEASVLKRADGSCYLEMGKNKVIAAVFGPREVHPEHLQDPSKAI 74
Query: 70 INFQYSMAVFSTGERKTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVEVLQAD 129
I ++Y+MA FS ERK RP DR++ EIS ++A A IM E+ PRS IDIFVEVLQAD
Sbjct: 75 IRYRYNMAPFSVEERK-RPGPDRRSIEISKVSKEAFEAVIMKELFPRSAIDIFVEVLQAD 133
Query: 130 GGNFCACVNAATLALIDAGIPMREYVVACSASLAGDTPLVDISHLEETLGGPNLTVAALP 189
G+ AC+NAA++AL+DAG+PM+ + + + A ++D E+ G ++ A L
Sbjct: 134 AGSRTACLNAASVALVDAGVPMKGMITSVAVGKADGQLVLDPMKEEDNFGEADMPFAFLI 193
Query: 190 LSGK---VAVMELSQKLHLDHLPRVLDCALKGCADIHAILDTAIKQHLIKV 237
+GK +A++++ ++ D + + ++ A KG I+ + AI + I+V
Sbjct: 194 RNGKIESIALLQMDGRMTRDEVKQAIELAKKGALQIYEMQREAILRRYIEV 244
>pdb|2BR2|B Chain B, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|D Chain D, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|F Chain F, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|H Chain H, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|J Chain J, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|L Chain L, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|N Chain N, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|P Chain P, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|R Chain R, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|T Chain T, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|V Chain V, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|X Chain X, Rnase Ph Core Of The Archaeal Exosome
pdb|2C37|B Chain B, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|D Chain D, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|F Chain F, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|H Chain H, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|J Chain J, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|L Chain L, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|N Chain N, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|P Chain P, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|R Chain R, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|T Chain T, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|V Chain V, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|X Chain X, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C38|B Chain B, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|D Chain D, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|F Chain F, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|H Chain H, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|J Chain J, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|L Chain L, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|N Chain N, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|P Chain P, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|R Chain R, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|T Chain T, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|V Chain V, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|X Chain X, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C39|B Chain B, Rnase Ph Core Of The Archaeal Exosome In Complex With Adp
pdb|2C39|D Chain D, Rnase Ph Core Of The Archaeal Exosome In Complex With Adp
pdb|2C39|F Chain F, Rnase Ph Core Of The Archaeal Exosome In Complex With Adp
pdb|2C39|H Chain H, Rnase Ph Core Of The Archaeal Exosome In Complex With Adp
pdb|2C39|J Chain J, Rnase Ph Core Of The Archaeal Exosome In Complex With Adp
pdb|2C39|L Chain L, Rnase Ph Core Of The Archaeal Exosome In Complex With Adp
pdb|2C39|N Chain N, Rnase Ph Core Of The Archaeal Exosome In Complex With Adp
pdb|2C39|P Chain P, Rnase Ph Core Of The Archaeal Exosome In Complex With Adp
pdb|2C39|R Chain R, Rnase Ph Core Of The Archaeal Exosome In Complex With Adp
pdb|2C39|T Chain T, Rnase Ph Core Of The Archaeal Exosome In Complex With Adp
pdb|2C39|V Chain V, Rnase Ph Core Of The Archaeal Exosome In Complex With Adp
pdb|2C39|X Chain X, Rnase Ph Core Of The Archaeal Exosome In Complex With Adp
Length = 248
Score = 163 bits (413), Expect = 8e-41, Method: Compositional matrix adjust.
Identities = 82/227 (36%), Positives = 133/227 (58%), Gaps = 1/227 (0%)
Query: 10 GLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVL 69
G R DGR+ ELR I+ LGV +DGSA E GNTK +AAVYGP+ + + + + +
Sbjct: 17 GKRTDGRKPDELRSIKIELGVLKNADGSAIFEMGNTKAIAAVYGPKEMHPRHLSLPDRAV 76
Query: 70 INFQYSMAVFSTGERKTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVEVLQAD 129
+ +Y M FST ERK P R+ E+S +R+A+ +A++ E+ PR+ ID+F E+LQAD
Sbjct: 77 LRVRYHMTPFSTDERKN-PAPSRREIELSKVIREALESAVLVELFPRTAIDVFTEILQAD 135
Query: 130 GGNFCACVNAATLALIDAGIPMREYVVACSASLAGDTPLVDISHLEETLGGPNLTVAALP 189
G+ + AA+LAL DAGIPMR+ + + A ++D++ E+ G ++ +A +P
Sbjct: 136 AGSRLVSLMAASLALADAGIPMRDLIAGVAVGKADGVIILDLNETEDMWGEADMPIAMMP 195
Query: 190 LSGKVAVMELSQKLHLDHLPRVLDCALKGCADIHAILDTAIKQHLIK 236
+V + +L+ + D + D A+KG I+ + A+K ++
Sbjct: 196 SLNQVTLFQLNGSMTPDEFRQAFDLAVKGINIIYNLEREALKSKYVE 242
>pdb|3L7Z|B Chain B, Crystal Structure Of The S. Solfataricus Archaeal Exosome
pdb|3L7Z|E Chain E, Crystal Structure Of The S. Solfataricus Archaeal Exosome
pdb|3L7Z|H Chain H, Crystal Structure Of The S. Solfataricus Archaeal Exosome
Length = 245
Score = 163 bits (412), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 82/227 (36%), Positives = 133/227 (58%), Gaps = 1/227 (0%)
Query: 10 GLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVL 69
G R DGR+ ELR I+ LGV +DGSA E GNTK +AAVYGP+ + + + + +
Sbjct: 14 GKRTDGRKPDELRSIKIELGVLKNADGSAIFEMGNTKAIAAVYGPKEMHPRHLSLPDRAV 73
Query: 70 INFQYSMAVFSTGERKTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVEVLQAD 129
+ +Y M FST ERK P R+ E+S +R+A+ +A++ E+ PR+ ID+F E+LQAD
Sbjct: 74 LRVRYHMTPFSTDERKN-PAPSRREIELSKVIREALESAVLVELFPRTAIDVFTEILQAD 132
Query: 130 GGNFCACVNAATLALIDAGIPMREYVVACSASLAGDTPLVDISHLEETLGGPNLTVAALP 189
G+ + AA+LAL DAGIPMR+ + + A ++D++ E+ G ++ +A +P
Sbjct: 133 AGSRLVSLMAASLALADAGIPMRDLIAGVAVGKADGVIILDLNETEDMWGEADMPIAMMP 192
Query: 190 LSGKVAVMELSQKLHLDHLPRVLDCALKGCADIHAILDTAIKQHLIK 236
+V + +L+ + D + D A+KG I+ + A+K ++
Sbjct: 193 SLNQVTLFQLNGSMTPDEFRQAFDLAVKGINIIYNLEREALKSKYVE 239
>pdb|2JE6|B Chain B, Structure Of A 9-Subunit Archaeal Exosome
pdb|2JEA|B Chain B, Structure Of A 9-Subunit Archaeal Exosome Bound To Rna
pdb|2JEB|B Chain B, Structure Of A 9-Subunit Archaeal Exosome Bound To Mn Ions
pdb|4BA1|B Chain B, Archaeal Exosome (rrp4-rrp41(d182a)-rrp42) Bound To
Inorganic Phosphate
pdb|4BA2|B Chain B, Archaeal Exosome (rrp4-rrp41(d182a)-rrp42) Bound To
Inorganic Phosphate
Length = 250
Score = 162 bits (409), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 82/227 (36%), Positives = 132/227 (58%), Gaps = 1/227 (0%)
Query: 10 GLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVL 69
G R DGR+ ELR I+ LGV +DGSA E GNTK +AAVYGP+ + + + + +
Sbjct: 19 GKRTDGRKPDELRSIKIELGVLKNADGSAIFEMGNTKAIAAVYGPKEMHPRHLSLPDRAV 78
Query: 70 INFQYSMAVFSTGERKTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVEVLQAD 129
+ +Y M FST ERK P R+ E+S +R+A+ +A++ E+ PR+ ID+F E+LQAD
Sbjct: 79 LRVRYHMTPFSTDERKN-PAPSRREIELSKVIREALESAVLVELFPRTAIDVFTEILQAD 137
Query: 130 GGNFCACVNAATLALIDAGIPMREYVVACSASLAGDTPLVDISHLEETLGGPNLTVAALP 189
G+ + AA+LAL DAGIPMR+ + + A ++D++ E G ++ +A +P
Sbjct: 138 AGSRLVSLMAASLALADAGIPMRDLIAGVAVGKADGVIILDLNETEAMWGEADMPIAMMP 197
Query: 190 LSGKVAVMELSQKLHLDHLPRVLDCALKGCADIHAILDTAIKQHLIK 236
+V + +L+ + D + D A+KG I+ + A+K ++
Sbjct: 198 SLNQVTLFQLNGSMTPDEFRQAFDLAVKGINIIYNLEREALKSKYVE 244
>pdb|4IFD|B Chain B, Crystal Structure Of An 11-subunit Eukaryotic Exosome
Complex Bound To Rna
Length = 248
Score = 141 bits (355), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 80/226 (35%), Positives = 125/226 (55%), Gaps = 3/226 (1%)
Query: 10 GLRNDGRRGHELRKIRCRLGVFSQS-DGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSV 68
GLR DGRR +ELR+ + + DGS+Y+EQGN K++ V GP+ R KS
Sbjct: 13 GLRLDGRRWNELRRFESSINTHPHAADGSSYMEQGNNKIITLVKGPKEPRLKSQMDTSKA 72
Query: 69 LINFQYSMAVFSTGER-KTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVEVLQ 127
L+N ++ FS ER K+ + +R+ EI L + +M ++PR+ IDI + VL+
Sbjct: 73 LLNVSVNITKFSKFERSKSSHKNERRVLEIQTSLVRMFEKNVMLNIYPRTVIDIEIHVLE 132
Query: 128 ADGGNFCACVNAATLALIDAGIPMREYVVACSASLAGDTPLVDISHLEETLGGPNLTVAA 187
DGG + +N TLALIDAGI M +Y+ S L TPL+D + LEE +T+
Sbjct: 133 QDGGIMGSLINGITLALIDAGISMFDYISGISVGLYDTTPLLDTNSLEEN-AMSTVTLGV 191
Query: 188 LPLSGKVAVMELSQKLHLDHLPRVLDCALKGCADIHAILDTAIKQH 233
+ S K++++ + K+ LD L VL + G + ++D +++H
Sbjct: 192 VGKSEKLSLLLVEDKIPLDRLENVLAIGIAGAHRVRDLMDEELRKH 237
>pdb|2WP8|B Chain B, Yeast Rrp44 Nuclease
Length = 246
Score = 140 bits (354), Expect = 5e-34, Method: Compositional matrix adjust.
Identities = 80/226 (35%), Positives = 125/226 (55%), Gaps = 3/226 (1%)
Query: 10 GLRNDGRRGHELRKIRCRLGVFSQS-DGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSV 68
GLR DGRR +ELR+ + + DGS+Y+EQGN K++ V GP+ R KS
Sbjct: 11 GLRLDGRRWNELRRFESSINTHPHAADGSSYMEQGNNKIITLVKGPKEPRLKSQMDTSKA 70
Query: 69 LINFQYSMAVFSTGER-KTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVEVLQ 127
L+N ++ FS ER K+ + +R+ EI L + +M ++PR+ IDI + VL+
Sbjct: 71 LLNVSVNINKFSKFERSKSSHKNERRVLEIQTSLVRMFEKNVMLNIYPRTVIDIEIHVLE 130
Query: 128 ADGGNFCACVNAATLALIDAGIPMREYVVACSASLAGDTPLVDISHLEETLGGPNLTVAA 187
DGG + +N TLALIDAGI M +Y+ S L TPL+D + LEE +T+
Sbjct: 131 QDGGIMGSLINGITLALIDAGISMFDYISGISVGLYDTTPLLDTNSLEEN-AMSTVTLGV 189
Query: 188 LPLSGKVAVMELSQKLHLDHLPRVLDCALKGCADIHAILDTAIKQH 233
+ S K++++ + K+ LD L VL + G + ++D +++H
Sbjct: 190 VGKSEKLSLLLVEDKIPLDRLENVLAIGIAGAHRVRDLMDEELRKH 235
>pdb|2NN6|F Chain F, Structure Of The Human Rna Exosome Composed Of Rrp41,
Rrp45, Rrp46, Rrp43, Mtr3, Rrp42, Csl4, Rrp4, And Rrp40
Length = 272
Score = 85.1 bits (209), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 80/242 (33%), Positives = 123/242 (50%), Gaps = 24/242 (9%)
Query: 6 EYGGGLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPR---------- 55
E G R+ R LR + R G+ SQ+ GSAY+E G TKVL AV GPR
Sbjct: 25 EEAPGTRDPTR----LRPVYARAGLLSQAKGSAYLEAGGTKVLCAVSGPRQAEGGERGGG 80
Query: 56 ---PVRNKSIKVHGSVLINFQYSMAVFSTGERKTRPRGDRKTSEISLQLRQAVSAAIMSE 112
+ G +L +F+ A F+ G R+ P G + E++L L++A+ A+
Sbjct: 81 PAGAGGEAPAALRGRLLCDFR--RAPFA-GRRRRAPPGGCEERELALALQEALEPAVRLG 137
Query: 113 VHPRSQIDIFVEVLQADGGNFCACVNAATLALIDAGIPMREYVVACSASLA-GDTP--LV 169
+PR+Q+++ +L+ G A + AA LAL DAG+ M + VV C SLA G P L+
Sbjct: 138 RYPRAQLEVSALLLEDGGSALAAALTAAALALADAGVEMYDLVVGCGLSLAPGPAPTWLL 197
Query: 170 DISHLEETLGGPNLTVAALPLSGKVAVMELSQKLHL-DHLPRVLDCALKGCADIHAILDT 228
D + LEE LTVA +P+ +VA + S + L + + L+GC ++ +L
Sbjct: 198 DPTRLEEERAAAGLTVALMPVLNQVAGLLGSGEGGLTESWAEAVRLGLEGCQRLYPVLQQ 257
Query: 229 AI 230
++
Sbjct: 258 SL 259
>pdb|2NN6|D Chain D, Structure Of The Human Rna Exosome Composed Of Rrp41,
Rrp45, Rrp46, Rrp43, Mtr3, Rrp42, Csl4, Rrp4, And Rrp40
Length = 237
Score = 83.2 bits (204), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 52/153 (33%), Positives = 78/153 (50%), Gaps = 12/153 (7%)
Query: 18 GHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVR-NKSIKVHGSVLINFQYSM 76
G LR C + S+ DGSA QG+T VLA VYGP V+ +K I ++ + + +
Sbjct: 27 GCSLRHFACEQNLLSRPDGSASFLQGDTSVLAGVYGPAEVKVSKEIFNKATLEVILRPKI 86
Query: 77 AVFSTGERKTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVEVLQADGGNFCAC 136
+ E K+R R R T E A ++ +HPR+ I + ++V+ G C
Sbjct: 87 GLPGVAE-KSRERLIRNTCE----------AVVLGTLHPRTSITVVLQVVSDAGSLLACC 135
Query: 137 VNAATLALIDAGIPMREYVVACSASLAGDTPLV 169
+NAA +AL+DAG+PMR + +L D LV
Sbjct: 136 LNAACMALVDAGVPMRALFCGVACALDSDGTLV 168
>pdb|1R6M|A Chain A, Crystal Structure Of The Trna Processing Enzyme Rnase Ph
From Pseudomonas Aeruginosa In Complex With Phosphate
Length = 239
Score = 77.0 bits (188), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 66/238 (27%), Positives = 111/238 (46%), Gaps = 18/238 (7%)
Query: 12 RNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVLIN 71
R GR +LR IR ++GS +E G+TKV+ V V + +K G +
Sbjct: 3 RPSGRAADQLRPIRITRHYTKHAEGSVLVEFGDTKVICTVSAESGV-PRFLKGQGQGWLT 61
Query: 72 FQYSMAVFSTGERKTR--PRGDR--KTSEISLQLRQAVSAAIMSEVHPRSQIDIFVEVLQ 127
+Y M STGER R RG + +T EI + +++ AA+ + + I +V+Q
Sbjct: 62 AEYGMLPRSTGERNQREASRGKQGGRTLEIQRLIGRSLRAALDLSKLGENTLYIDCDVIQ 121
Query: 128 ADGGNFCACVNAATLALIDA-----------GIPMREYVVACSASLAGDTPLVDISHLEE 176
ADGG A + AT+ALIDA G P+++ V A S + P++D+ +LE+
Sbjct: 122 ADGGTRTASITGATVALIDALAVLKKRGALKGNPLKQMVAAVSVGIYQGVPVLDLDYLED 181
Query: 177 TLGGPNLTVAALPLSGKVAVMELSQ--KLHLDHLPRVLDCALKGCADIHAILDTAIKQ 232
+ +L V G + V ++ L +L+ A +G ++ + A+ +
Sbjct: 182 SAAETDLNVVMTDAGGFIEVQGTAEGAPFRPAELNAMLELAQQGMQELFELQRAALAE 239
>pdb|1R6L|A Chain A, Crystal Structure Of The Trna Processing Enzyme Rnase Ph
From Pseudomonas Aeruginosa
Length = 239
Score = 74.3 bits (181), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 60/200 (30%), Positives = 95/200 (47%), Gaps = 16/200 (8%)
Query: 12 RNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVLIN 71
R GR +LR IR ++GS +E G+TKV+ V V + +K G +
Sbjct: 3 RPSGRAADQLRPIRITRHYTKHAEGSVLVEFGDTKVICTVSAESGV-PRFLKGQGQGWLT 61
Query: 72 FQYSMAVFSTGERKTR--PRGDR--KTSEISLQLRQAVSAAIMSEVHPRSQIDIFVEVLQ 127
+Y STGER R RG + +T EI + +++ AA+ + + I +V+Q
Sbjct: 62 AEYGXLPRSTGERNQREASRGKQGGRTLEIQRLIGRSLRAALDLSKLGENTLYIDCDVIQ 121
Query: 128 ADGGNFCACVNAATLALIDA-----------GIPMREYVVACSASLAGDTPLVDISHLEE 176
ADGG A + AT+ALIDA G P+++ V A S + P++D+ +LE+
Sbjct: 122 ADGGTRTASITGATVALIDALAVLKKRGALKGNPLKQXVAAVSVGIYQGVPVLDLDYLED 181
Query: 177 TLGGPNLTVAALPLSGKVAV 196
+ +L V G + V
Sbjct: 182 SAAETDLNVVXTDAGGFIEV 201
>pdb|3HKM|A Chain A, Crystal Structure Of Rice(Oryza Sativa) Rrp46
pdb|3HKM|B Chain B, Crystal Structure Of Rice(Oryza Sativa) Rrp46
pdb|3HKM|C Chain C, Crystal Structure Of Rice(Oryza Sativa) Rrp46
Length = 246
Score = 71.2 bits (173), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 47/167 (28%), Positives = 77/167 (46%), Gaps = 13/167 (7%)
Query: 12 RNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRP-VRNKSIKVHGSVLI 70
R DGR ++LR C ++ GSA QG+T VLAAVYGP+P R S+ +
Sbjct: 5 RADGRNPNQLRPFSCTRNPLDRAHGSARWAQGDTIVLAAVYGPKPGTRKGENPEKASIEV 64
Query: 71 NFQYSMAVFSTGERKTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVEVLQADG 130
++ E+ E + L++ + + + VHP + + ++V+ DG
Sbjct: 65 VWKPMTGQIGKQEK-----------EYEMTLKRTLQSICLLTVHPNTTTSVILQVVGNDG 113
Query: 131 GNFCACVNAATLALIDAGIPMREYVVACSASLAGDTPLV-DISHLEE 176
+NA AL+ AGIP++ VA + D ++ D + EE
Sbjct: 114 SLLPCAINACCAALVFAGIPLKHLAVAIGCGVLEDGEVILDTNKAEE 160
>pdb|1UDS|A Chain A, Crystal Structure Of The Trna Processing Enzyme Rnase Ph
R126a Mutant From Aquifex Aeolicus
Length = 255
Score = 70.5 bits (171), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 67/245 (27%), Positives = 117/245 (47%), Gaps = 25/245 (10%)
Query: 11 LRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVLI 70
+R+DGR+ +LR + + +GS I G TKV+ V N +K G I
Sbjct: 1 MRSDGRKEDQLRPVSIQRDFLEYPEGSCLISFGKTKVICTASVIENVPN-WLKGKGQGWI 59
Query: 71 NFQYSMAVFSTGERKTRP----RGDRKTSEISLQLRQAVSAAI-MSEVHPRSQIDIFVEV 125
+YSM +T +R R R +T EI + +A+ A+ ++++ R+ I + +V
Sbjct: 60 TAEYSMLPRATQQRTIRESVQGRIGGRTHEIQRMIGRAMRTAVELTKIGERT-IWVDCDV 118
Query: 126 LQADGGNFCACVNAATLALIDAGI-----------PMREYVVACSASLAGDTPLVDISHL 174
+QADGG A + A +A+ DA I P++++V A S + D L+D++
Sbjct: 119 IQADGGTATAAITGAFVAVADAIIKLHKEGIIEETPIKDFVAAVSVGIVNDRILLDLNFE 178
Query: 175 EETLGGPNLTVAALPLSGK---VAVMELSQKLHLDHLPRVLDCALKGCADIHAILDTAIK 231
E++ ++ V SG+ V M D L ++LD A KG I+ +++ K
Sbjct: 179 EDSAAQVDMNVVGTG-SGRLSEVHTMGEEYSFTKDELIKMLDLAQKG---INELIELQKK 234
Query: 232 QHLIK 236
++I+
Sbjct: 235 LYVIQ 239
>pdb|1UDN|A Chain A, Crystal Structure Of The Trna Processing Enzyme Rnase Ph
From Aquifex Aeolicus
Length = 255
Score = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 67/245 (27%), Positives = 117/245 (47%), Gaps = 25/245 (10%)
Query: 11 LRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVLI 70
+R+DGR+ +LR + + +GS I G TKV+ V N +K G I
Sbjct: 1 MRSDGRKEDQLRPVSIQRDFLEYPEGSCLISFGKTKVICTASVIENVPN-WLKGKGQGWI 59
Query: 71 NFQYSMAVFSTGERKTRP----RGDRKTSEISLQLRQAVSAAI-MSEVHPRSQIDIFVEV 125
+YSM +T +R R R +T EI + +A+ A+ ++++ R+ I + +V
Sbjct: 60 TAEYSMLPRATQQRTIRESVQGRIGGRTHEIQRMIGRAMRTAVELTKIGERT-IWVDCDV 118
Query: 126 LQADGGNFCACVNAATLALIDAGI-----------PMREYVVACSASLAGDTPLVDISHL 174
+QADGG A + A +A+ DA I P++++V A S + D L+D++
Sbjct: 119 IQADGGTRTAAITGAFVAVADAIIKLHKEGIIEETPIKDFVAAVSVGIVNDRILLDLNFE 178
Query: 175 EETLGGPNLTVAALPLSGK---VAVMELSQKLHLDHLPRVLDCALKGCADIHAILDTAIK 231
E++ ++ V SG+ V M D L ++LD A KG I+ +++ K
Sbjct: 179 EDSAAQVDMNVVGTG-SGRLSEVHTMGEEYSFTKDELIKMLDLAQKG---INELIELQKK 234
Query: 232 QHLIK 236
++I+
Sbjct: 235 LYVIQ 239
>pdb|1UDQ|A Chain A, Crystal Structure Of The Trna Processing Enzyme Rnase Ph
T125a Mutant From Aquifex Aeolicus
Length = 255
Score = 69.3 bits (168), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 67/245 (27%), Positives = 117/245 (47%), Gaps = 25/245 (10%)
Query: 11 LRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVLI 70
+R+DGR+ +LR + + +GS I G TKV+ V N +K G I
Sbjct: 1 MRSDGRKEDQLRPVSIQRDFLEYPEGSCLISFGKTKVICTASVIENVPN-WLKGKGQGWI 59
Query: 71 NFQYSMAVFSTGERKTRP----RGDRKTSEISLQLRQAVSAAI-MSEVHPRSQIDIFVEV 125
+YSM +T +R R R +T EI + +A+ A+ ++++ R+ I + +V
Sbjct: 60 TAEYSMLPRATQQRTIRESVQGRIGGRTHEIQRMIGRAMRTAVELTKIGERT-IWVDCDV 118
Query: 126 LQADGGNFCACVNAATLALIDAGI-----------PMREYVVACSASLAGDTPLVDISHL 174
+QADGG A + A +A+ DA I P++++V A S + D L+D++
Sbjct: 119 IQADGGARTAAITGAFVAVADAIIKLHKEGIIEETPIKDFVAAVSVGIVNDRILLDLNFE 178
Query: 175 EETLGGPNLTVAALPLSGK---VAVMELSQKLHLDHLPRVLDCALKGCADIHAILDTAIK 231
E++ ++ V SG+ V M D L ++LD A KG I+ +++ K
Sbjct: 179 EDSAAQVDMNVVGTG-SGRLSEVHTMGEEYSFTKDELIKMLDLAQKG---INELIELQKK 234
Query: 232 QHLIK 236
++I+
Sbjct: 235 LYVIQ 239
>pdb|1UDO|A Chain A, Crystal Structure Of The Trna Processing Enzyme Rnase Ph
R86a Mutant From Aquifex Aeolicus
Length = 255
Score = 69.3 bits (168), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 67/245 (27%), Positives = 116/245 (47%), Gaps = 25/245 (10%)
Query: 11 LRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVLI 70
+R+DGR+ +LR + + +GS I G TKV+ V N +K G I
Sbjct: 1 MRSDGRKEDQLRPVSIQRDFLEYPEGSCLISFGKTKVICTASVIENVPN-WLKGKGQGWI 59
Query: 71 NFQYSMAVFSTGERKTRP----RGDRKTSEISLQLRQAVSAAI-MSEVHPRSQIDIFVEV 125
+YSM +T +R R R T EI + +A+ A+ ++++ R+ I + +V
Sbjct: 60 TAEYSMLPRATQQRTIRESVQGRIGGATHEIQRMIGRAMRTAVELTKIGERT-IWVDCDV 118
Query: 126 LQADGGNFCACVNAATLALIDAGI-----------PMREYVVACSASLAGDTPLVDISHL 174
+QADGG A + A +A+ DA I P++++V A S + D L+D++
Sbjct: 119 IQADGGTRTAAITGAFVAVADAIIKLHKEGIIEETPIKDFVAAVSVGIVNDRILLDLNFE 178
Query: 175 EETLGGPNLTVAALPLSGK---VAVMELSQKLHLDHLPRVLDCALKGCADIHAILDTAIK 231
E++ ++ V SG+ V M D L ++LD A KG I+ +++ K
Sbjct: 179 EDSAAQVDMNVVGTG-SGRLSEVHTMGEEYSFTKDELIKMLDLAQKG---INELIELQKK 234
Query: 232 QHLIK 236
++I+
Sbjct: 235 LYVIQ 239
>pdb|1OYP|A Chain A, Crystal Structure Of The Phosphorolytic Exoribonuclease
Rnase Ph From Bacillus Subtilis
pdb|1OYP|B Chain B, Crystal Structure Of The Phosphorolytic Exoribonuclease
Rnase Ph From Bacillus Subtilis
pdb|1OYP|C Chain C, Crystal Structure Of The Phosphorolytic Exoribonuclease
Rnase Ph From Bacillus Subtilis
pdb|1OYP|D Chain D, Crystal Structure Of The Phosphorolytic Exoribonuclease
Rnase Ph From Bacillus Subtilis
pdb|1OYP|E Chain E, Crystal Structure Of The Phosphorolytic Exoribonuclease
Rnase Ph From Bacillus Subtilis
pdb|1OYP|F Chain F, Crystal Structure Of The Phosphorolytic Exoribonuclease
Rnase Ph From Bacillus Subtilis
pdb|1OYR|A Chain A, Crystal Structure Of The Phosphorolytic Exoribonuclease
Rnase Ph From Bacillus Subtilis
pdb|1OYR|B Chain B, Crystal Structure Of The Phosphorolytic Exoribonuclease
Rnase Ph From Bacillus Subtilis
pdb|1OYR|C Chain C, Crystal Structure Of The Phosphorolytic Exoribonuclease
Rnase Ph From Bacillus Subtilis
pdb|1OYR|D Chain D, Crystal Structure Of The Phosphorolytic Exoribonuclease
Rnase Ph From Bacillus Subtilis
pdb|1OYR|E Chain E, Crystal Structure Of The Phosphorolytic Exoribonuclease
Rnase Ph From Bacillus Subtilis
pdb|1OYR|F Chain F, Crystal Structure Of The Phosphorolytic Exoribonuclease
Rnase Ph From Bacillus Subtilis
Length = 245
Score = 60.5 bits (145), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 58/185 (31%), Positives = 88/185 (47%), Gaps = 21/185 (11%)
Query: 11 LRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVL--AAVYGPRPVRNKSIKVHGSV 68
+R+DGR+ ELR I L S +GS I GNTKV+ A+V P ++ G
Sbjct: 1 MRHDGRQHDELRPITFDLDFISHPEGSVLITAGNTKVICNASVEDRVP---PFLRGGGKG 57
Query: 69 LINFQYSMAVFSTGERKTRPRGDRK----TSEISLQLRQAVSAAIMSEVHPRSQIDIFVE 124
I +YSM +T +R R K T EI + +A+ A + E I I +
Sbjct: 58 WITAEYSMLPRATNQRTIRESSKGKISGRTMEIQRLIGRALRAVVDLEKLGERTIWIDCD 117
Query: 125 VLQADGGNFCACVNAATLA-------LIDAGI----PMREYVVACSASLAGDTP-LVDIS 172
V+QADGG A + A LA LI AG P+ +++ A S + + L+D++
Sbjct: 118 VIQADGGTRTASITGAFLAMAIAIGKLIKAGTIKTNPITDFLAAISVGIDKEQGILLDLN 177
Query: 173 HLEET 177
+ E++
Sbjct: 178 YEEDS 182
>pdb|3DD6|A Chain A, Crystal Structure Of Rph, An Exoribonuclease From Bacillus
Anthracis At 1.7 A Resolution
Length = 255
Score = 58.2 bits (139), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 58/229 (25%), Positives = 101/229 (44%), Gaps = 25/229 (10%)
Query: 11 LRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVLI 70
+R DGR ELR I +GS IE G+TKV+ + V ++ G +
Sbjct: 11 MRVDGREKTELRHIHIHTNYLKHPEGSVLIEVGDTKVICSATIEERV-PPFMRGEGKGWV 69
Query: 71 NFQYSMAVFSTGERKTRPRGDRK----TSEISLQLRQAVSAAIMSEVHPRSQIDIFVEVL 126
+Y+M +T +R R K T EI + +A+ A + E + I +V+
Sbjct: 70 TAEYAMIPRATEQRTIRESSKGKVTGRTMEIQRLIGRALRAVVDLEALGERTVWIDCDVI 129
Query: 127 QADGGNFCACVNAATLALIDA-----------GIPMREYVVACSASLAGDTPLV-DISHL 174
QADGG A + A +A++ A IP+++Y+ A S + + +V D+++
Sbjct: 130 QADGGTRTASITGAYVAMVLAFEKLLQAEKVSKIPVKDYLAATSVGIVEEQGVVLDLNYA 189
Query: 175 EETLGGPNLTVAALPLSGKVAVMEL-----SQKLHLDHLPRVLDCALKG 218
E++ ++ V ++GK +E+ L +LD A +G
Sbjct: 190 EDSKADVDMNVI---MTGKGQFVEVQGTGEEATFSRAQLNELLDAAEQG 235
>pdb|3B4T|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Rnase Ph,
The Mycobacterium Tuberculosis Structural Genomics
Consortium Target Rv1340
pdb|3B4T|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Rnase Ph,
The Mycobacterium Tuberculosis Structural Genomics
Consortium Target Rv1340
pdb|3B4T|C Chain C, Crystal Structure Of Mycobacterium Tuberculosis Rnase Ph,
The Mycobacterium Tuberculosis Structural Genomics
Consortium Target Rv1340
pdb|3B4T|D Chain D, Crystal Structure Of Mycobacterium Tuberculosis Rnase Ph,
The Mycobacterium Tuberculosis Structural Genomics
Consortium Target Rv1340
pdb|3B4T|E Chain E, Crystal Structure Of Mycobacterium Tuberculosis Rnase Ph,
The Mycobacterium Tuberculosis Structural Genomics
Consortium Target Rv1340
pdb|3B4T|F Chain F, Crystal Structure Of Mycobacterium Tuberculosis Rnase Ph,
The Mycobacterium Tuberculosis Structural Genomics
Consortium Target Rv1340
Length = 262
Score = 57.8 bits (138), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 67/233 (28%), Positives = 100/233 (42%), Gaps = 23/233 (9%)
Query: 12 RNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVL--AAVYGPRPVRNKSIKVHGSVL 69
R DGR HELR + G GS IE G+TKVL A+V P + K G
Sbjct: 7 REDGRLDHELRPVIITRGFTENPAGSVLIEFGHTKVLCTASVTEGVP---RWRKATGLGW 63
Query: 70 INFQYSM---AVFSTGERKT-RPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVEV 125
+ +Y+M A S +R++ R R +T EIS + +++ A I + I I +V
Sbjct: 64 LTAEYAMLPSATHSRSDRESVRGRLSGRTQEISRLIGRSLRACIDLAALGENTIAIDCDV 123
Query: 126 LQADGGNFCACVNAATLALIDAGI------------PMREYVVACSASLAGDTPLVDISH 173
LQADGG A + A +AL DA P+ + A S + VD+ +
Sbjct: 124 LQADGGTRTAAITGAYVALADAVTYLSAAGKLSDPRPLSCAIAAVSVGVVDGRIRVDLPY 183
Query: 174 LEETLGGPNLTVAALPLSGKVAVMELSQ--KLHLDHLPRVLDCALKGCADIHA 224
E++ ++ V A V + + L ++LD AL C + A
Sbjct: 184 EEDSRAEVDMNVVATDTGTLVEIQGTGEGATFARSTLDKLLDMALGACDTLFA 236
>pdb|3KRN|A Chain A, Crystal Structure Of C. Elegans Cell-Death-Related
Nuclease 5(Crn-5)
pdb|3KRN|B Chain B, Crystal Structure Of C. Elegans Cell-Death-Related
Nuclease 5(Crn-5)
Length = 222
Score = 57.4 bits (137), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 38/132 (28%), Positives = 60/132 (45%), Gaps = 12/132 (9%)
Query: 21 LRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVLINFQYSMAVFS 80
LR++RC L +DGSA QG T + A+ GP V + S ++ ++ Y
Sbjct: 5 LREMRCELSFLKNADGSACFSQGATCIWASCSGPGDV-HASKASDEAMTLDISYRANC-- 61
Query: 81 TGERKTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVEVLQADGGNFCACVNAA 140
GD K + ++ + +S AI E+ P + I + V +Q DG +N A
Sbjct: 62 ---------GDNKFNVLNNIIHSTLSNAINLELFPHTTISVTVHGIQDDGSMGAVAINGA 112
Query: 141 TLALIDAGIPMR 152
AL+D G+P
Sbjct: 113 CFALLDNGMPFE 124
>pdb|1OYS|A Chain A, Crystal Structure Of The Phosphorolytic Exoribonuclease
Rnase Ph From Bacillus Subtilis
Length = 245
Score = 56.6 bits (135), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 56/185 (30%), Positives = 88/185 (47%), Gaps = 21/185 (11%)
Query: 11 LRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVL--AAVYGPRPVRNKSIKVHGSV 68
+R+DGR+ ELR I L S +GS I GNTKV+ A+V P ++ G
Sbjct: 1 MRHDGRQHDELRPITFDLDFISHPEGSVLITAGNTKVICNASVEDRVP---PFLRGGGKG 57
Query: 69 LINFQYSMAVFSTGERKTRPRGDRK----TSEISLQLRQAVSAAIMSEVHPRSQIDIFVE 124
I +YSM +T ++ + K T EI + +A+ A + E I I +
Sbjct: 58 WITAEYSMLPQATNQQTIQESSKGKISGRTMEIQRLIGRALRAVVDLEKLGERTIWIDCD 117
Query: 125 VLQADGGNFCACVNAATLA-------LIDAGI----PMREYVVACSASLAGDTP-LVDIS 172
V+QADGG A + A LA LI AG P+ +++ A S + + L+D++
Sbjct: 118 VIQADGGTRTASITGAFLAMAIAIGKLIKAGTIKTNPITDFLAAISVGIDKEQGILLDLN 177
Query: 173 HLEET 177
+ E++
Sbjct: 178 YEEDS 182
>pdb|4IFD|D Chain D, Crystal Structure Of An 11-subunit Eukaryotic Exosome
Complex Bound To Rna
Length = 245
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 39/163 (23%), Positives = 70/163 (42%), Gaps = 19/163 (11%)
Query: 12 RNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGP-RPVRNKSIKVHGSVLI 70
R D + ++ +G+ DGS+ +TKV+ +V GP P + + ++ I
Sbjct: 13 RLDSAEKKKKMSVQAEIGILDHVDGSSEFVSQDTKVICSVTGPIEPKARQELPTQLALEI 72
Query: 71 NFQYSMAVFSTGERKTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVEVLQA-- 128
+ + V +T E+ + LR ++ I +PR I ++L++
Sbjct: 73 IVRPAKGVATTREKVLEDK-----------LRAVLTPLITRHCYPRQLCQITCQILESGE 121
Query: 129 DGGNFC-----ACVNAATLALIDAGIPMREYVVACSASLAGDT 166
D F C+NAA LAL+DAGI + + ++ DT
Sbjct: 122 DEAEFSLRELSCCINAAFLALVDAGIALNSMCASIPIAIIKDT 164
>pdb|3CDI|A Chain A, Crystal Structure Of E. Coli Pnpase
Length = 723
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 57/190 (30%), Positives = 92/190 (48%), Gaps = 17/190 (8%)
Query: 9 GGLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVL-AAVYGPRPVRNKSI--KVH 65
G R DGR +R + R GV ++ GSA +G T+ L A G R+ + ++
Sbjct: 318 GEPRIDGREKDMIRGLDVRTGVLPRTHGSALFTRGETQALVTATLGT--ARDAQVLDELM 375
Query: 66 G--SVLINFQYSMAVFSTGERKTRPRGDRKTSEISL-QLRQAVSAAIMSEV--HPRSQID 120
G + F Y+ +S GE T G K EI +L + A+M ++ P + +
Sbjct: 376 GERTDTFLFHYNFPPYSVGE--TGMVGSPKRREIGHGRLAKRGVLAVMPDMDKFPYT-VR 432
Query: 121 IFVEVLQADGGNFCACVNAATLALIDAGIPMREYVVACSASLA--GDTPLV--DISHLEE 176
+ E+ +++G + A V A+LAL+DAG+P++ V + L GD +V DI E+
Sbjct: 433 VVSEITESNGSSSMASVCGASLALMDAGVPIKAAVAGIAMGLVKEGDNYVVLSDILGDED 492
Query: 177 TLGGPNLTVA 186
LG + VA
Sbjct: 493 HLGDMDFKVA 502
>pdb|3CDJ|A Chain A, Crystal Structure Of The E. Coli KhS1 DOMAIN TRUNCATED
Pnpase
Length = 559
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 57/190 (30%), Positives = 92/190 (48%), Gaps = 17/190 (8%)
Query: 9 GGLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVL-AAVYGPRPVRNKSI--KVH 65
G R DGR +R + R GV ++ GSA +G T+ L A G R+ + ++
Sbjct: 318 GEPRIDGREKDMIRGLDVRTGVLPRTHGSALFTRGETQALVTATLGT--ARDAQVLDELM 375
Query: 66 G--SVLINFQYSMAVFSTGERKTRPRGDRKTSEISL-QLRQAVSAAIMSEV--HPRSQID 120
G + F Y+ +S GE T G K EI +L + A+M ++ P + +
Sbjct: 376 GERTDTFLFHYNFPPYSVGE--TGMVGSPKRREIGHGRLAKRGVLAVMPDMDKFPYT-VR 432
Query: 121 IFVEVLQADGGNFCACVNAATLALIDAGIPMREYVVACSASLA--GDTPLV--DISHLEE 176
+ E+ +++G + A V A+LAL+DAG+P++ V + L GD +V DI E+
Sbjct: 433 VVSEITESNGSSSMASVCGASLALMDAGVPIKAAVAGIAMGLVKEGDNYVVLSDILGDED 492
Query: 177 TLGGPNLTVA 186
LG + VA
Sbjct: 493 HLGDMDFKVA 502
>pdb|4AID|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
pdb|4AID|B Chain B, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
pdb|4AID|C Chain C, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
Length = 726
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 52/186 (27%), Positives = 83/186 (44%), Gaps = 11/186 (5%)
Query: 10 GLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTK-VLAAVYGPRPVRNKSIKVHGSV 68
GLR DGR +R I +G+ ++ GSA +G T+ ++ A G + G+
Sbjct: 329 GLRIDGRDVKTVRPILGEVGILPRTHGSALFTRGETQAIVVATLGTGDDEQFIDALEGTY 388
Query: 69 LINF--QYSMAVFSTGE--RKTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVE 124
+F Y+ +S GE R P G R+ L R E P + I + E
Sbjct: 389 KESFLLHYNFPPYSVGETGRMGSP-GRREIGHGKLAWRALRPMLPTKEDFPYT-IRLVSE 446
Query: 125 VLQADGGNFCACVNAATLALIDAGIPMREYVVACSASLA----GDTPLVDISHLEETLGG 180
+ +++G + A V ++LA++DAG+P+ V + L G L DI E+ LG
Sbjct: 447 ITESNGSSSMATVCGSSLAMMDAGVPLVRPVSGIAMGLILEQDGFAVLSDILGDEDHLGD 506
Query: 181 PNLTVA 186
+ VA
Sbjct: 507 MDFKVA 512
>pdb|4AIM|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
Length = 726
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 52/186 (27%), Positives = 83/186 (44%), Gaps = 11/186 (5%)
Query: 10 GLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTK-VLAAVYGPRPVRNKSIKVHGSV 68
GLR DGR +R I +G+ ++ GSA +G T+ ++ A G + G+
Sbjct: 329 GLRIDGRDVKTVRPILGEVGILPRTHGSALFTRGETQAIVVATLGTGDDEQFIDALEGTY 388
Query: 69 LINF--QYSMAVFSTGE--RKTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVE 124
+F Y+ +S GE R P G R+ L R E P + I + E
Sbjct: 389 KESFLLHYNFPPYSVGETGRMGSP-GRREIGHGKLAWRALRPMLPTKEDFPYT-IRLVSE 446
Query: 125 VLQADGGNFCACVNAATLALIDAGIPMREYVVACSASLA----GDTPLVDISHLEETLGG 180
+ +++G + A V ++LA++DAG+P+ V + L G L DI E+ LG
Sbjct: 447 ITESNGSSSMATVCGSSLAMMDAGVPLVRPVSGIAMGLILEQDGFAVLSDILGDEDHLGD 506
Query: 181 PNLTVA 186
+ VA
Sbjct: 507 MDFKVA 512
>pdb|4AM3|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rna
pdb|4AM3|B Chain B, Crystal Structure Of C. Crescentus Pnpase Bound To Rna
pdb|4AM3|C Chain C, Crystal Structure Of C. Crescentus Pnpase Bound To Rna
Length = 717
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 52/186 (27%), Positives = 83/186 (44%), Gaps = 11/186 (5%)
Query: 10 GLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTK-VLAAVYGPRPVRNKSIKVHGSV 68
GLR DGR +R I +G+ ++ GSA +G T+ ++ A G + G+
Sbjct: 320 GLRIDGRDVKTVRPILGEVGILPRTHGSALFTRGETQAIVVATLGTGDDEQFIDALEGTY 379
Query: 69 LINF--QYSMAVFSTGE--RKTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVE 124
+F Y+ +S GE R P G R+ L R E P + I + E
Sbjct: 380 KESFLLHYNFPPYSVGETGRMGSP-GRREIGHGKLAWRALRPMLPTKEDFPYT-IRLVSE 437
Query: 125 VLQADGGNFCACVNAATLALIDAGIPMREYVVACSASLA----GDTPLVDISHLEETLGG 180
+ +++G + A V ++LA++DAG+P+ V + L G L DI E+ LG
Sbjct: 438 ITESNGSSSMATVCGSSLAMMDAGVPLVRPVSGIAMGLILEQDGFAVLSDILGDEDHLGD 497
Query: 181 PNLTVA 186
+ VA
Sbjct: 498 MDFKVA 503
>pdb|3GCM|A Chain A, Crystal Structure Of E. Coli Polynucleotide Phosphorylase
Bound To Rna And Rnase E
pdb|3GCM|B Chain B, Crystal Structure Of E. Coli Polynucleotide Phosphorylase
Bound To Rna And Rnase E
pdb|3GCM|C Chain C, Crystal Structure Of E. Coli Polynucleotide Phosphorylase
Bound To Rna And Rnase E
pdb|3GLL|A Chain A, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core
pdb|3GME|A Chain A, Crystal Structure Of Polynucleotide Phosphorylase In
Complex With Rnase E And Manganese
Length = 549
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 57/190 (30%), Positives = 92/190 (48%), Gaps = 17/190 (8%)
Query: 9 GGLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVL-AAVYGPRPVRNKSI--KVH 65
G R DGR +R + R GV ++ GSA +G T+ L A G R+ + ++
Sbjct: 312 GEPRIDGREKDMIRGLDVRTGVLPRTHGSALFTRGETQALVTATLGT--ARDAQVLDELM 369
Query: 66 G--SVLINFQYSMAVFSTGERKTRPRGDRKTSEISL-QLRQAVSAAIMSEV--HPRSQID 120
G + F Y+ +S GE T G K EI +L + A+M ++ P + +
Sbjct: 370 GERTDTFLFHYNFPPYSVGE--TGMVGSPKRREIGHGRLAKRGVLAVMPDMDKFPYT-VR 426
Query: 121 IFVEVLQADGGNFCACVNAATLALIDAGIPMREYVVACSASLA--GDTPLV--DISHLEE 176
+ E+ +++G + A V A+LAL+DAG+P++ V + L GD +V DI E+
Sbjct: 427 VVSEITESNGSSSMASVCGASLALMDAGVPIKAAVAGIAMGLVKEGDNYVVLSDILGDED 486
Query: 177 TLGGPNLTVA 186
LG + VA
Sbjct: 487 HLGDMDFKVA 496
>pdb|3H1C|A Chain A, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|B Chain B, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|C Chain C, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|G Chain G, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|I Chain I, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|K Chain K, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|M Chain M, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|O Chain O, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|R Chain R, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|T Chain T, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|V Chain V, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|X Chain X, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
Length = 549
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 57/190 (30%), Positives = 92/190 (48%), Gaps = 17/190 (8%)
Query: 9 GGLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVL-AAVYGPRPVRNKSI--KVH 65
G R DGR +R + R GV ++ GSA +G T+ L A G R+ + ++
Sbjct: 312 GEPRIDGREKDMIRGLDVRTGVLPRTHGSALFTRGETQALVTATLGT--ARDAQVLDELM 369
Query: 66 G--SVLINFQYSMAVFSTGERKTRPRGDRKTSEISL-QLRQAVSAAIMSEV--HPRSQID 120
G + F Y+ +S GE T G K EI +L + A+M ++ P + +
Sbjct: 370 GERTDTFLFHYNFPPYSVGE--TGMVGSPKRREIGHGRLAKRGVLAVMPDMDKFPYT-VR 426
Query: 121 IFVEVLQADGGNFCACVNAATLALIDAGIPMREYVVACSASLA--GDTPLV--DISHLEE 176
+ E+ +++G + A V A+LAL+DAG+P++ V + L GD +V DI E+
Sbjct: 427 VVSEITESNGSSSMASVCGASLALMDAGVPIKAAVAGIAMGLVKEGDNYVVLSDILGDED 486
Query: 177 TLGGPNLTVA 186
LG + VA
Sbjct: 487 HLGDMDFKVA 496
>pdb|1E3P|A Chain A, Tungstate Derivative Of Streptomyces Antibioticus Pnpase
Gpsi Enzyme
Length = 757
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 65/237 (27%), Positives = 97/237 (40%), Gaps = 25/237 (10%)
Query: 12 RNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVL-- 69
R DGR ++R + + + GSA E+G T++L + + V
Sbjct: 356 RIDGRGVTDIRTLAAEVEAIPRVHGSALFERGETQILGVTTLNMLRMEQQLDTLSPVTRK 415
Query: 70 -INFQYSMAVFSTGERKTRPRGDRKTSEI---SLQLRQAVSAAIMSEVHPRSQIDIFVEV 125
Y+ +S GE T G K EI +L R V E P + I E
Sbjct: 416 RYMHNYNFPPYSVGE--TGRVGSPKRREIGHGALAERAIVPVLPTREEFPYA-IRQVSEA 472
Query: 126 LQADGGNFCACVNAATLALIDAGIPMREYVVA-----CSASLAGDT---PLVDISHLEET 177
L ++G V A+T++L++AG+P++ V S + G+T L DI E+
Sbjct: 473 LGSNGSTSMGSVCASTMSLLNAGVPLKAPVAGIAMGLISQEINGETHYVALTDILGAEDA 532
Query: 178 LGGPNLTVAALPLSGKVAVMELSQKLHLDHLP-RVLDCALKGCAD--IHAILDTAIK 231
G + VA K V L LD +P VL ALK D +H ILD ++
Sbjct: 533 FGDMDFKVAGT----KEFVTALQLDTKLDGIPASVLAAALKQARDARLH-ILDVMME 584
>pdb|3U1K|A Chain A, Crystal Structure Of Human Pnpase
pdb|3U1K|C Chain C, Crystal Structure Of Human Pnpase
pdb|3U1K|B Chain B, Crystal Structure Of Human Pnpase
pdb|3U1K|D Chain D, Crystal Structure Of Human Pnpase
Length = 630
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 49/174 (28%), Positives = 78/174 (44%), Gaps = 18/174 (10%)
Query: 3 LLTEYGGGLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAV-YGPRPVRNKS 61
+L EY R DGR LR + C + +F GSA ++G T+VL V + KS
Sbjct: 313 VLNEYK---RCDGRDLTSLRNVSCEVDMFKTLHGSALFQRGQTQVLCTVTFDSLESGIKS 369
Query: 62 IKV----HGSVLINF--QYSMAVFSTGERKTRPRGDRKTSEISLQLRQAVSAAIMSEVHP 115
+V +G NF Y ++T E +R+ E+ A++ + V P
Sbjct: 370 DQVITAINGIKDKNFMLHYEFPPYATNEIGKVTGLNRR--ELG---HGALAEKALYPVIP 424
Query: 116 RS---QIDIFVEVLQADGGNFCACVNAATLALIDAGIPMREYVVACSASLAGDT 166
R I + EVL+++G + A +LAL+D+G+P+ V + L T
Sbjct: 425 RDFPFTIRVTSEVLESNGSSSMASACGGSLALMDSGVPISSAVAGVAIGLVTKT 478
>pdb|4IFD|F Chain F, Crystal Structure Of An 11-subunit Eukaryotic Exosome
Complex Bound To Rna
Length = 250
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 51/189 (26%), Positives = 81/189 (42%), Gaps = 40/189 (21%)
Query: 17 RGHEL-RKIRCRLGVFSQSDGSAYIEQGN----TKVLAAVYGPRPVRNKSIKVHGSVLIN 71
+G+E +++ G +GSA +E + T +++AVYGPR +R S G++ I
Sbjct: 38 KGNESEQELSLHTGFIENCNGSALVEARSLGHQTSLISAVYGPRSIRG-SFTSQGTISIQ 96
Query: 72 FQYS-MAVFSTGERKTRPRGDRKTSEISLQLRQAVSAAIMSEVHPRSQIDIFVEVL---- 126
+ + ++T E K E+S L ++ + +P+S IDIFV +
Sbjct: 97 LKNGLLEKYNTNELK----------EVSSFLMGIFNSVVNLSRYPKSGIDIFVYLTYDKD 146
Query: 127 -----QADGGN-----------FCACVNAATLALIDAGIPMREYVVACSASLAGDTPLVD 170
Q D C+ + TLAL DAGI E V A A T +
Sbjct: 147 LTNNPQDDDSQSKMTSSQISSLIPHCITSITLALADAGI---ELVDMAGAGEANGTVVSF 203
Query: 171 ISHLEETLG 179
I + EE +G
Sbjct: 204 IKNGEEIVG 212
>pdb|2WNR|A Chain A, The Structure Of Methanothermobacter Thermautotrophicus
Exosome Core Assembly
pdb|2WNR|C Chain C, The Structure Of Methanothermobacter Thermautotrophicus
Exosome Core Assembly
pdb|2WNR|E Chain E, The Structure Of Methanothermobacter Thermautotrophicus
Exosome Core Assembly
Length = 271
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 26/40 (65%)
Query: 12 RNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAV 51
R DGR HE R I GV S+++GS+ ++ GNT+++ V
Sbjct: 25 RIDGRSLHEFRDISIETGVISKAEGSSRVKLGNTQIIVGV 64
>pdb|3L7Z|A Chain A, Crystal Structure Of The S. Solfataricus Archaeal Exosome
pdb|3L7Z|D Chain D, Crystal Structure Of The S. Solfataricus Archaeal Exosome
pdb|3L7Z|G Chain G, Crystal Structure Of The S. Solfataricus Archaeal Exosome
Length = 271
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 38/171 (22%), Positives = 75/171 (43%), Gaps = 5/171 (2%)
Query: 3 LLTEYGGGLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSI 62
+++ + G+R DGR+ + R + L ++DGSA ++ G T VLA +
Sbjct: 19 IVSLFEKGIRQDGRKLTDYRPLSITLDYAKKADGSALVKLGTTMVLAGTKLEIDKPYEDT 78
Query: 63 KVHGSVLINFQYSMAVFSTGERKTRPRGDRKTSEI---SLQLRQAVSAAIMSEVHPRSQI 119
G++++N + ++T E + + + SL+ +A+ + +S
Sbjct: 79 PNQGNLIVNVELLPLAYTTFEPGPPDENAIELARVVDRSLRDSKALDLTKLVIEPGKSVW 138
Query: 120 DIFVEVLQAD-GGNFC-ACVNAATLALIDAGIPMREYVVACSASLAGDTPL 168
++++V D GGN AC A+ AL + + E + + G PL
Sbjct: 139 TVWLDVYVLDYGGNVLDACTLASVAALYNTKVYKVEQISVNKNEVVGKLPL 189
>pdb|1E3H|A Chain A, Semet Derivative Of Streptomyces Antibioticus PnpaseGPSI
Enzyme
Length = 757
Score = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 65/233 (27%), Positives = 94/233 (40%), Gaps = 25/233 (10%)
Query: 12 RNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVL-- 69
R DGR ++R + + + GSA E+G T++L + + V
Sbjct: 356 RIDGRGVTDIRTLAAEVEAIPRVHGSALFERGETQILGVTTLNXLRXEQQLDTLSPVTRK 415
Query: 70 -INFQYSMAVFSTGERKTRPRGDRKTSEI---SLQLRQAVSAAIMSEVHPRSQIDIFVEV 125
Y+ +S GE T G K EI +L R V E P + I E
Sbjct: 416 RYXHNYNFPPYSVGE--TGRVGSPKRREIGHGALAERAIVPVLPTREEFPYA-IRQVSEA 472
Query: 126 LQADGGNFCACVNAATLALIDAGIPMREYVVA-----CSASLAGDT---PLVDISHLEET 177
L ++G V A+T +L++AG+P++ V S + G+T L DI E+
Sbjct: 473 LGSNGSTSXGSVCASTXSLLNAGVPLKAPVAGIAXGLISQEINGETHYVALTDILGAEDA 532
Query: 178 LGGPNLTVAALPLSGKVAVMELSQKLHLDHLP-RVLDCALKGCAD--IHAILD 227
G + VA K V L LD +P VL ALK D +H ILD
Sbjct: 533 FGDXDFKVAGT----KEFVTALQLDTKLDGIPASVLAAALKQARDARLH-ILD 580
>pdb|2BA0|I Chain I, Archaeal Exosome Core
pdb|2BA0|H Chain H, Archaeal Exosome Core
pdb|2BA0|G Chain G, Archaeal Exosome Core
pdb|2BA1|G Chain G, Archaeal Exosome Core
pdb|2BA1|H Chain H, Archaeal Exosome Core
pdb|2BA1|I Chain I, Archaeal Exosome Core
pdb|3M7N|G Chain G, Archaeoglobus Fulgidus Exosome With Rna Bound To The
Active Site
pdb|3M7N|H Chain H, Archaeoglobus Fulgidus Exosome With Rna Bound To The
Active Site
pdb|3M7N|I Chain I, Archaeoglobus Fulgidus Exosome With Rna Bound To The
Active Site
Length = 259
Score = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 56/242 (23%), Positives = 96/242 (39%), Gaps = 49/242 (20%)
Query: 12 RNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAV-------YGPRPVRNKSIKV 64
R DGR E RK+ V +++GSA ++ G+T+V+ V Y P R
Sbjct: 23 RIDGRGFDEFRKVEIIPNVIEKAEGSALVKLGDTQVVVGVKMQPGEPYPDTPDR------ 76
Query: 65 HGSVLINFQ---YSMAVFSTGER--------KTRPRGDRKTSEISLQLRQAVSAAIMSEV 113
G +++N + + F G + RG R++ + L S ++ E
Sbjct: 77 -GVIIVNAELVPLASPTFEPGPPDENSIELARVVDRGIRESEAVDL------SKLVIEEG 129
Query: 114 HPRSQIDIFVEVLQADGG------------NFCACVNAATLAL-IDAGIPMREYVVACSA 160
+ + + L DG V A L D +P+R+ V+ ++
Sbjct: 130 EKVWIVFVDIHALDDDGNLLDASALAAIAALMNTKVPAERFDLGEDYLLPVRDLPVSVTS 189
Query: 161 SLAGDTPLVDISHLEETLGGPNLTVAALPLSGKVAVME-----LSQKLHLDHLPRVLDCA 215
+ G+ LVD S E ++G LT+ VA+ + L +KL + L ++CA
Sbjct: 190 LIVGNKYLVDPSREEMSVGDTTLTITTDKDDNVVAMQKSGGYLLDEKLFDELLDVSINCA 249
Query: 216 LK 217
K
Sbjct: 250 RK 251
>pdb|2NN6|C Chain C, Structure Of The Human Rna Exosome Composed Of Rrp41,
Rrp45, Rrp46, Rrp43, Mtr3, Rrp42, Csl4, Rrp4, And Rrp40
Length = 278
Score = 35.8 bits (81), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 22/40 (55%)
Query: 12 RNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAV 51
R DGR E R +G S +DGSA ++ GNT V+ V
Sbjct: 25 RPDGRELGEFRTTTVNIGSISTADGSALVKLGNTTVICGV 64
>pdb|3M85|G Chain G, Archaeoglobus Fulgidus Exosome Y70a With Rna Bound To The
Active Site
pdb|3M85|H Chain H, Archaeoglobus Fulgidus Exosome Y70a With Rna Bound To The
Active Site
pdb|3M85|I Chain I, Archaeoglobus Fulgidus Exosome Y70a With Rna Bound To The
Active Site
Length = 259
Score = 35.8 bits (81), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 56/248 (22%), Positives = 99/248 (39%), Gaps = 43/248 (17%)
Query: 3 LLTEYGGGLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVY----GPRPVR 58
+L++ R DGR E RK+ V +++GSA ++ G+T+V+ V P P
Sbjct: 14 VLSKLRDNERIDGRGFDEFRKVEIIPNVIEKAEGSALVKLGDTQVVVGVKMQPGEPAP-- 71
Query: 59 NKSIKVHGSVLINFQ---YSMAVFSTGER--------KTRPRGDRKTSEISLQLRQAVSA 107
G +++N + + F G + RG R++ + L S
Sbjct: 72 --DTPDRGVIIVNAELVPLASPTFEPGPPDENSIELARVVDRGIRESEAVDL------SK 123
Query: 108 AIMSEVHPRSQIDIFVEVLQADGG------------NFCACVNAATLAL-IDAGIPMREY 154
++ E + + + L DG V A L D +P+R+
Sbjct: 124 LVIEEGEKVWIVFVDIHALDDDGNLLDASALAAIAALMNTKVPAERFDLGEDYLLPVRDL 183
Query: 155 VVACSASLAGDTPLVDISHLEETLGGPNLTVAALPLSGKVAVME-----LSQKLHLDHLP 209
V+ ++ + G+ LVD S E ++G LT+ VA+ + L +KL + L
Sbjct: 184 PVSVTSLIVGNKYLVDPSREEMSVGDTTLTITTDKDDNVVAMQKSGGYLLDEKLFDELLD 243
Query: 210 RVLDCALK 217
++CA K
Sbjct: 244 VSINCARK 251
>pdb|2BR2|A Chain A, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|C Chain C, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|E Chain E, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|G Chain G, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|I Chain I, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|K Chain K, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|M Chain M, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|O Chain O, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|Q Chain Q, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|S Chain S, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|U Chain U, Rnase Ph Core Of The Archaeal Exosome
pdb|2BR2|W Chain W, Rnase Ph Core Of The Archaeal Exosome
pdb|2C37|A Chain A, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|C Chain C, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|E Chain E, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|G Chain G, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|I Chain I, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|K Chain K, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|M Chain M, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|O Chain O, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|Q Chain Q, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|S Chain S, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|U Chain U, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C37|W Chain W, Rnase Ph Core Of The Archaeal Exosome In Complex With U8
Rna
pdb|2C38|A Chain A, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|E Chain E, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|G Chain G, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|I Chain I, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|K Chain K, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|M Chain M, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|O Chain O, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|Q Chain Q, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|S Chain S, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|U Chain U, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C39|A Chain A, Rnase Ph Core Of The Archaeal Exosome In Complex With
Adp
pdb|2C39|C Chain C, Rnase Ph Core Of The Archaeal Exosome In Complex With
Adp
pdb|2C39|E Chain E, Rnase Ph Core Of The Archaeal Exosome In Complex With
Adp
pdb|2C39|G Chain G, Rnase Ph Core Of The Archaeal Exosome In Complex With
Adp
pdb|2C39|I Chain I, Rnase Ph Core Of The Archaeal Exosome In Complex With
Adp
pdb|2C39|K Chain K, Rnase Ph Core Of The Archaeal Exosome In Complex With
Adp
pdb|2C39|M Chain M, Rnase Ph Core Of The Archaeal Exosome In Complex With
Adp
pdb|2C39|O Chain O, Rnase Ph Core Of The Archaeal Exosome In Complex With
Adp
pdb|2C39|Q Chain Q, Rnase Ph Core Of The Archaeal Exosome In Complex With
Adp
pdb|2C39|S Chain S, Rnase Ph Core Of The Archaeal Exosome In Complex With
Adp
pdb|2C39|U Chain U, Rnase Ph Core Of The Archaeal Exosome In Complex With
Adp
pdb|2C39|W Chain W, Rnase Ph Core Of The Archaeal Exosome In Complex With
Adp
pdb|2C38|C Chain C, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
pdb|2C38|W Chain W, Rnase Ph Core Of The Archaeal Exosome In Complex With A5
Rna
Length = 275
Score = 35.0 bits (79), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 28/47 (59%)
Query: 3 LLTEYGGGLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLA 49
+++ + G+R DGR+ + R + L ++DGSA ++ G T VLA
Sbjct: 19 IVSLFEKGIRQDGRKLTDYRPLSITLDYAKKADGSALVKLGTTMVLA 65
>pdb|2JE6|A Chain A, Structure Of A 9-Subunit Archaeal Exosome
pdb|2JEA|A Chain A, Structure Of A 9-Subunit Archaeal Exosome Bound To Rna
pdb|2JEB|A Chain A, Structure Of A 9-Subunit Archaeal Exosome Bound To Mn
Ions
pdb|4BA1|A Chain A, Archaeal Exosome (rrp4-rrp41(d182a)-rrp42) Bound To
Inorganic Phosphate
pdb|4BA2|A Chain A, Archaeal Exosome (rrp4-rrp41(d182a)-rrp42) Bound To
Inorganic Phosphate
Length = 277
Score = 35.0 bits (79), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 28/47 (59%)
Query: 3 LLTEYGGGLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLA 49
+++ + G+R DGR+ + R + L ++DGSA ++ G T VLA
Sbjct: 21 IVSLFEKGIRQDGRKLTDYRPLSITLDYAKKADGSALVKLGTTMVLA 67
>pdb|2PNZ|B Chain B, Crystal Structure Of The P. Abyssi Exosome Rnase Ph Ring
Complexed With Udp And Gmp
pdb|2PO0|B Chain B, Crystal Structure Of The P. Abyssi Exosome Rnase Ph Ring
Complexed With Adp In Double Conformation
pdb|2PO1|B Chain B, Crystal Structure Of The P. Abyssi Exosome Rnase Ph Ring
Complexed With A Single Stranded 10-Mer Poly(A) Rna
pdb|2PO2|B Chain B, Crystal Structure Of The P. Abyssi Exosome Rnase Ph Ring
Complexed With Cdp
Length = 277
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 30/51 (58%), Gaps = 3/51 (5%)
Query: 1 MDLLTEYGGGLRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAV 51
++LL E G R D R + R I +GV +++GSA ++ G+T+VL +
Sbjct: 19 INLLKE---GKRIDDRGFEDYRPIEIEVGVIEKAEGSALVKLGSTQVLVGI 66
>pdb|2NN6|E Chain E, Structure Of The Human Rna Exosome Composed Of Rrp41,
Rrp45, Rrp46, Rrp43, Mtr3, Rrp42, Csl4, Rrp4, And Rrp40
Length = 305
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 40/149 (26%), Positives = 65/149 (43%), Gaps = 13/149 (8%)
Query: 11 LRNDGRRGHELRKIRCRLGVFSQSDGSAYIEQGNTKVLAAVYGPRPVRNKSIKVHGSVLI 70
LR DGR + R + V S + GSA ++ G+T +L V + ++ +
Sbjct: 36 LRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILVGVKA--EMGTPKLEKPNEGYL 93
Query: 71 NFQYSMAVFSTGERKTRPRGDRKTSEISLQL------RQAVSAAIMSEVHPRSQIDI-FV 123
F + +T E + R GD +EI+ L + +V + + PR + +V
Sbjct: 94 EFFVDCSASATPEFEGRG-GDDLGTEIANTLYRIFNNKSSVDLKTLC-ISPREHCWVLYV 151
Query: 124 EVLQAD-GGN-FCACVNAATLALIDAGIP 150
+VL + GGN F A A AL + IP
Sbjct: 152 DVLLLECGGNLFDAISIAVKAALFNTRIP 180
>pdb|1V4I|A Chain A, Crystal Structure Of Octaprenyl Pyrophosphate Synthase
From Hyperthermophilic Thermotoga Maritima F132a Mutant
Length = 299
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 25/45 (55%)
Query: 159 SASLAGDTPLVDISHLEETLGGPNLTVAALPLSGKVAVMELSQKL 203
+A AGD LV H E +G L AAL + GK++ EL ++L
Sbjct: 104 AAVAAGDLVLVSAFHTVEEIGNNKLRRAALNVIGKMSEAELIEQL 148
>pdb|2Z0U|A Chain A, Crystal Structure Of C2 Domain Of Kibra Protein
pdb|2Z0U|B Chain B, Crystal Structure Of C2 Domain Of Kibra Protein
Length = 155
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 161 SLAGDTPLVDISHLEETLGGPNLTVAALPLSGK 193
+L D D SHLEE LGG +++A + SG+
Sbjct: 113 TLRVDVCTTDRSHLEECLGGAQISLAEVCRSGE 145
>pdb|4F3T|A Chain A, Human Argonaute-2 - Mir-20a Complex
Length = 861
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 23/51 (45%), Gaps = 2/51 (3%)
Query: 146 DAGIPMREYVVACSASLAGDTPLVDISHLEETLGGPNLTVAALPLSGKVAV 196
DAG+P++ C + D+ HL+ T G L V LP GK V
Sbjct: 482 DAGMPIQGQPCFCKYAQGADSVEPMFRHLKNTYAGLQLVVVILP--GKTPV 530
>pdb|4EI1|A Chain A, Crystal Structure Of Human Argonaute2
pdb|4EI3|A Chain A, Crystal Structure Of Human Argonaute2
Length = 859
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 23/51 (45%), Gaps = 2/51 (3%)
Query: 146 DAGIPMREYVVACSASLAGDTPLVDISHLEETLGGPNLTVAALPLSGKVAV 196
DAG+P++ C + D+ HL+ T G L V LP GK V
Sbjct: 480 DAGMPIQGQPCFCKYAQGADSVEPMFRHLKNTYAGLQLVVVILP--GKTPV 528
>pdb|3LUC|A Chain A, Crystal Structure Of Mid Domain From Hago2
pdb|3LUC|B Chain B, Crystal Structure Of Mid Domain From Hago2
pdb|3LUC|C Chain C, Crystal Structure Of Mid Domain From Hago2
pdb|3LUD|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
Amp
pdb|3LUD|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
Amp
pdb|3LUD|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
Amp
pdb|3LUG|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
Cmp
pdb|3LUG|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
Cmp
pdb|3LUG|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
Cmp
pdb|3LUH|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
Gmp
pdb|3LUH|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
Gmp
pdb|3LUH|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
Gmp
pdb|3LUJ|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
Ump
pdb|3LUJ|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
Ump
pdb|3LUJ|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
Ump
pdb|3QX8|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
M7gpppg
pdb|3QX8|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
M7gpppg
pdb|3QX8|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
M7gpppg
pdb|3QX9|A Chain A, Crystal Structure Of Mid Domain From Hago2 In Complex With
Atp
pdb|3QX9|B Chain B, Crystal Structure Of Mid Domain From Hago2 In Complex With
Atp
pdb|3QX9|C Chain C, Crystal Structure Of Mid Domain From Hago2 In Complex With
Atp
Length = 138
Score = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 23/51 (45%), Gaps = 2/51 (3%)
Query: 146 DAGIPMREYVVACSASLAGDTPLVDISHLEETLGGPNLTVAALPLSGKVAV 196
DAG+P++ C + D+ HL+ T G L V LP GK V
Sbjct: 43 DAGMPIQGQPCFCKYAQGADSVEPMFRHLKNTYAGLQLVVVILP--GKTPV 91
>pdb|2ZW4|A Chain A, Crystal Structure Of Bleomycin N-Acetyltransferase
Complexed With Coenzyme A In The Orthorhombic Crystal
pdb|2ZW4|B Chain B, Crystal Structure Of Bleomycin N-Acetyltransferase
Complexed With Coenzyme A In The Orthorhombic Crystal
pdb|2ZW4|C Chain C, Crystal Structure Of Bleomycin N-Acetyltransferase
Complexed With Coenzyme A In The Orthorhombic Crystal
pdb|2ZW4|D Chain D, Crystal Structure Of Bleomycin N-Acetyltransferase
Complexed With Coenzyme A In The Orthorhombic Crystal
pdb|2ZW7|A Chain A, Crystal Structure Of Bleomycin N-Acetyltransferase
Complexed With Bleomycin A2 And Coenzyme A
pdb|2ZW7|B Chain B, Crystal Structure Of Bleomycin N-Acetyltransferase
Complexed With Bleomycin A2 And Coenzyme A
Length = 301
Score = 27.7 bits (60), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 32/68 (47%), Gaps = 10/68 (14%)
Query: 139 AATLALIDAGIPMREYVVACSASLAGDTPLVDISHLEETLGGPNLTVAALPLSGKVAVME 198
AATL L++A + R +A GD P + L GP +AA+P G V +
Sbjct: 195 AATLRLVEAALGAR------TAFAIGDPPEFAEAALTPWSAGPRFRLAAVPGPGPVEPV- 247
Query: 199 LSQKLHLD 206
+LHLD
Sbjct: 248 ---RLHLD 252
>pdb|3LUK|A Chain A, Crystal Structure Of Mid Domain From Hago2
pdb|3LUK|B Chain B, Crystal Structure Of Mid Domain From Hago2
pdb|3LUK|C Chain C, Crystal Structure Of Mid Domain From Hago2
Length = 138
Score = 27.7 bits (60), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 146 DAGIPMREYVVACSASLAGDTPLVDISHLEETLGGPNLTVAALPLSGKVAV 196
DAG P++ C + D+ HL+ T G L V LP GK V
Sbjct: 43 DAGXPIQGQPCFCKYAQGADSVEPXFRHLKNTYAGLQLVVVILP--GKTPV 91
>pdb|2ZW5|A Chain A, Crystal Structure Of Bleomycin N-Acetyltransferase
Complexed With Coenzyme A In The Trigonal Crystal
pdb|2ZW5|B Chain B, Crystal Structure Of Bleomycin N-Acetyltransferase
Complexed With Coenzyme A In The Trigonal Crystal
pdb|2ZW6|A Chain A, Crystal Structure Of Bleomycin N-Acetyltransferase From
Bleomycin-Producing Streptomyces Verticillus Atcc15003
pdb|2ZW6|B Chain B, Crystal Structure Of Bleomycin N-Acetyltransferase From
Bleomycin-Producing Streptomyces Verticillus Atcc15003
Length = 301
Score = 27.7 bits (60), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 32/68 (47%), Gaps = 10/68 (14%)
Query: 139 AATLALIDAGIPMREYVVACSASLAGDTPLVDISHLEETLGGPNLTVAALPLSGKVAVME 198
AATL L++A + R +A GD P + L GP +AA+P G V +
Sbjct: 195 AATLRLVEAALGAR------TAFAIGDPPEFAEAALTPWSAGPRFRLAAVPGPGPVEPV- 247
Query: 199 LSQKLHLD 206
+LHLD
Sbjct: 248 ---RLHLD 252
>pdb|2AZL|A Chain A, Crystal Structure For The Mutant F117e Of Thermotoga
Maritima Octaprenyl Pyrophosphate Synthase
Length = 299
Score = 27.3 bits (59), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%)
Query: 159 SASLAGDTPLVDISHLEETLGGPNLTVAALPLSGKVAVMELSQKL 203
+A AGD LV H E +G L A L + GK++ EL ++L
Sbjct: 104 AAVAAGDLVLVSAEHTVEEIGNNKLRRAFLNVIGKMSEAELIEQL 148
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
0.319 0.135 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,310,434
Number of Sequences: 62578
Number of extensions: 280155
Number of successful extensions: 703
Number of sequences better than 100.0: 69
Number of HSP's better than 100.0 without gapping: 60
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 597
Number of HSP's gapped (non-prelim): 72
length of query: 263
length of database: 14,973,337
effective HSP length: 97
effective length of query: 166
effective length of database: 8,903,271
effective search space: 1477942986
effective search space used: 1477942986
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)