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= 043337
(465 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2NN6|A Chain A, Structure Of The Human Rna Exosome Composed Of Rrp41,
Rrp45, Rrp46, Rrp43, Mtr3, Rrp42, Csl4, Rrp4, And Rrp40
Length = 358
Score = 208 bits (530), Expect = 4e-54, Method: Compositional matrix adjust.
Identities = 110/268 (41%), Positives = 171/268 (63%), Gaps = 3/268 (1%)
Query: 11 LTVNEKRFIETALSSGIRIDGRNPFEYRKLSIKFGREDGSSEVQLGQTHIMGFVTGQLVQ 70
L+ E+RF+ A+ R+DGR ++YR + I FG + G V+LG+T ++G V+ +LV
Sbjct: 23 LSNCERRFLLRAIEEKKRLDGRQTYDYRNIRISFGTDYGCCIVELGKTRVLGQVSCELVS 82
Query: 71 PYRDRPNEGTLSIFTEFSPMADPSFETGRPSESAVELGRIVDRGLRESRAVDTESLCVLA 130
P +R EG L E S MA P+FE GR S+ V+L R+++R LR S+ +DTESLCV+A
Sbjct: 83 PKLNRATEGILFFNLELSQMAAPAFEPGRQSDLLVKLNRLMERCLRNSKCIDTESLCVVA 142
Query: 131 GKLVWAIRIDLHILDNGGNLVDAANIAALASLLTFRRPECSLGGEDDLEVIVHXXXXXXX 190
G+ VW IR+DLH+L++ GN++DAA+IAA+ +L FRRP+ S+ G+ EV ++
Sbjct: 143 GEKVWQIRVDLHLLNHDGNIIDAASIAAIVALCHFRRPDVSVQGD---EVTLYTPEERDP 199
Query: 191 XXXIIHHLPIAVTFGFFSSESLLVIDPTHHEEAVMVGKMTATLNANGDVCAIQKPGGEGV 250
IHH+PI V+F FF + L++DP EE VM G + +N + ++C IQ GG +
Sbjct: 200 VPLSIHHMPICVSFAFFQQGTYLLVDPNEREERVMDGLLVIAMNKHREICTIQSSGGIML 259
Query: 251 LQSVIMQCLRLASRMASDITKKIKDAVE 278
L+ +++C ++A ++IT+ I A+E
Sbjct: 260 LKDQVLRCSKIAGVKVAEITELILKALE 287
>pdb|2WP8|A Chain A, Yeast Rrp44 Nuclease
Length = 305
Score = 186 bits (472), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 102/282 (36%), Positives = 154/282 (54%), Gaps = 16/282 (5%)
Query: 5 LANTWRLTVNEKRFIETALSSGIRIDGRNPFEYRKLSIKFGREDGSSEVQLGQTHIMGFV 64
+A ++ +E +FI AL R+DGR+ ++R + I FG+E G V++G T + +
Sbjct: 1 MAKDIEISASESKFILEALRQNYRLDGRSFDQFRDVEITFGKEFGDVSVKMGNTKVHCRI 60
Query: 65 TGQLVQPYRDRPNEGTLSIFTEFSPMADPSFETGRPS-ESAVELGRIVDRGLRESRAVDT 123
+ Q+ QPY DRP EG I TE SPMA FE G + E V RI+++ +R S A+D
Sbjct: 61 SCQIAQPYEDRPFEGLFVISTEISPMAGSQFENGNITGEDEVLCSRIIEKSVRRSGALDV 120
Query: 124 ESLCVLAGKLVWAIRIDLHILDNGGNLVDAANIAALASLLTFRRPECSLGGEDDLEVIVH 183
E LC++AG WA+R D+H LD G +DA+ IA +A L+ F++P+ ++ GE ++IVH
Sbjct: 121 EGLCIVAGSKCWAVRADVHFLDCDGGFIDASCIAVMAGLMHFKKPDITVHGE---QIIVH 177
Query: 184 XXXXXXXXXXIIHHLPIAVTFGFF------------SSESLLVIDPTHHEEAVMVGKMTA 231
I H+PI VTF FF ++ + +ID T EE + G +T
Sbjct: 178 PVNEREPVPLGILHIPICVTFSFFNPQDTEENIKGETNSEISIIDATLKEELLRDGVLTV 237
Query: 232 TLNANGDVCAIQKPGGEGVLQSVIMQCLRLASRMASDITKKI 273
TLN N +V + K GG + +M+C A + IT +I
Sbjct: 238 TLNKNREVVQVSKAGGLPMDALTLMKCCHEAYSIIEKITDQI 279
>pdb|4IFD|A Chain A, Crystal Structure Of An 11-subunit Eukaryotic Exosome
Complex Bound To Rna
Length = 304
Score = 185 bits (470), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 102/281 (36%), Positives = 153/281 (54%), Gaps = 16/281 (5%)
Query: 6 ANTWRLTVNEKRFIETALSSGIRIDGRNPFEYRKLSIKFGREDGSSEVQLGQTHIMGFVT 65
A ++ +E +FI AL R+DGR+ ++R + I FG+E G V++G T + ++
Sbjct: 1 AKDIEISASESKFILEALRQNYRLDGRSFDQFRDVEITFGKEFGDVSVKMGNTKVHCRIS 60
Query: 66 GQLVQPYRDRPNEGTLSIFTEFSPMADPSFETGRPS-ESAVELGRIVDRGLRESRAVDTE 124
Q+ QPY DRP EG I TE SPMA FE G + E V RI+++ +R S A+D E
Sbjct: 61 CQIAQPYEDRPFEGLFVISTEISPMAGSQFENGNITGEDEVLCSRIIEKSVRRSGALDVE 120
Query: 125 SLCVLAGKLVWAIRIDLHILDNGGNLVDAANIAALASLLTFRRPECSLGGEDDLEVIVHX 184
LC++AG WA+R D+H LD G +DA+ IA +A L+ F++P+ ++ GE ++IVH
Sbjct: 121 GLCIVAGSKCWAVRADVHFLDCDGGFIDASCIAVMAGLMHFKKPDITVHGE---QIIVHP 177
Query: 185 XXXXXXXXXIIHHLPIAVTFGFF------------SSESLLVIDPTHHEEAVMVGKMTAT 232
I H+PI VTF FF ++ + +ID T EE + G +T T
Sbjct: 178 VNEREPVPLGILHIPICVTFSFFNPQDTEENIKGETNSEISIIDATLKEELLRDGVLTVT 237
Query: 233 LNANGDVCAIQKPGGEGVLQSVIMQCLRLASRMASDITKKI 273
LN N +V + K GG + +M+C A + IT +I
Sbjct: 238 LNKNREVVQVSKAGGLPMDALTLMKCCHEAYSIIEKITDQI 278
>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 = 154 bits (388), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 96/260 (36%), Positives = 150/260 (57%), Gaps = 12/260 (4%)
Query: 23 LSSGIRIDGRNPFEYRKLSIKFG---REDGSSEVQLGQTHIMGFVTGQLVQPYRDRPNEG 79
L G RID R +YR + I+ G + +GS+ V+LG T ++ + L +P+ D PN G
Sbjct: 22 LKEGKRIDDRGFEDYRPIEIEVGVIEKAEGSALVKLGSTQVLVGIKTSLGEPFPDTPNMG 81
Query: 80 TLSIFTEFSPMADPSFETGRPSESAVELGRIVDRGLRESRAVDTESLCVLAGKLVWAIRI 139
++ E P+A P+FE G P E A+EL R++DRG+RES+A++ E + ++ GK+V + I
Sbjct: 82 VMTTNVELVPLASPTFEPGPPDERAIELARVIDRGIRESKALNLEKMVIVPGKIVRVVFI 141
Query: 140 DLHILDNGGNLVDAANIAALASLLTFRRPECSLGGED-DLEVIVHXXXXXXXXXXIIHHL 198
D+H+LD+ GNL+DA IAA+A+LL R P+ E ++E + + +
Sbjct: 142 DVHVLDHDGNLMDAIGIAAIAALLNARVPKVRYNEETGEVETLDETEPLP------VEKI 195
Query: 199 PIAVTFGFFSSESLLVIDPTHHEEAVMVGKMTATLNANGDVCAIQKPGGEGVLQSVIMQC 258
P+ VTF ++LV+DP+ EE VM GK+T T + G + A+QK G +M
Sbjct: 196 PVPVTFAKIG--NILVVDPSLDEELVMDGKITITTDETGHISAVQKSEGGAFKLEEVMYA 253
Query: 259 LRLASRMASDITKKIKDAVE 278
+ A + A +I K I +AVE
Sbjct: 254 VETAFKKAEEIRKLILEAVE 273
>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 = 148 bits (374), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 90/227 (39%), Positives = 136/227 (59%), Gaps = 12/227 (5%)
Query: 28 RIDGRNPFEYRKLSIKFG---REDGSSEVQLGQTHIMGFVTGQLVQPYRDRPNEGTLSIF 84
RIDGR+ E+R +SI+ G + +GSS V+LG T I+ V Q+ +P+ D P G +
Sbjct: 25 RIDGRSLHEFRDISIETGVISKAEGSSRVKLGNTQIIVGVKPQIGEPFPDTPEMGVILTN 84
Query: 85 TEFSPMADPSFETGRPSESAVELGRIVDRGLRESRAVDTESLCVLAGKLVWAIRIDLHIL 144
+E PMA P+FE G P E +VEL R+VDR +RESR +D E LC++ G VW + +DLHI+
Sbjct: 85 SELLPMASPTFEPGPPDERSVELSRVVDRCIRESRMIDLEKLCIIEGSKVWMLFLDLHII 144
Query: 145 DNGGNLVDAANIAALASLLTFRRPECSLGGEDDLEVIVHXXXXXXXXXXIIHHLPIAVTF 204
D GNL DAA +A +A+LL R P + +D EV+++ ++ + TF
Sbjct: 145 DYDGNLFDAAVLATVAALLDTRIPAAEV---EDGEVVINREKMQPLP---VNRKALMCTF 198
Query: 205 GFFSSESLLVIDPTHHEEAVMVGKMTATLNANGDVCAIQKPGGEGVL 251
+E +V+DP+ EE ++ +++ + G +CA+QK GGEG L
Sbjct: 199 AKIGNE--IVLDPSLEEEDILTARISIGVTEEGSICAMQK-GGEGPL 242
>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 = 147 bits (371), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 86/261 (32%), Positives = 138/261 (52%), Gaps = 17/261 (6%)
Query: 1 MDTRLANTWRLTVNEKRFIETALSSGIRIDGRNPFEYRKLSIKFG---REDGSSEVQLGQ 57
M + +N + + +K I + GIR DGR +YR LSI + DGS+ V+LG
Sbjct: 1 MSSTPSNQNIIPIIKKESIVSLFEKGIRQDGRKLTDYRPLSITLDYAKKADGSALVKLGT 60
Query: 58 THIMGFVTGQLVQPYRDRPNEGTLSIFTEFSPMADPSFETGRPSESAVELGRIVDRGLRE 117
T ++ ++ +PY D PN+G L + E P+A +FE G P E+A+EL R+VDR LR+
Sbjct: 61 TMVLAGTKLEIDKPYEDTPNQGNLIVNVELLPLAYETFEPGPPDENAIELARVVDRSLRD 120
Query: 118 SRAVDTESLCVLAGKLVWAIRIDLHILDNGGNLVDAANIAALASLLTFRRPECSLGGEDD 177
S+A+D L + GK VW + +D+++LD GGN++DA +A++A+L +
Sbjct: 121 SKALDLTKLVIEPGKSVWTVWLDVYVLDYGGNVLDACTLASVAALYNTKV---------- 170
Query: 178 LEVIVHXXXXXXXXXXIIHHLPI---AVTFGFFSSESLLVIDPTHHEEAVMVGKMTATLN 234
+V H ++ LP+ VT + LV+DP EE++M K++ +
Sbjct: 171 YKVEQHSNGISVNKNEVVGKLPLNYPVVTISVAKVDKYLVVDPDLDEESIMDAKISFSYT 230
Query: 235 ANGDVCAIQKPG-GEGVLQSV 254
+ + IQK G G LQ +
Sbjct: 231 PDLKIVGIQKSGKGSMSLQDI 251
>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 = 147 bits (370), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 86/261 (32%), Positives = 138/261 (52%), Gaps = 17/261 (6%)
Query: 1 MDTRLANTWRLTVNEKRFIETALSSGIRIDGRNPFEYRKLSIKFG---REDGSSEVQLGQ 57
M + +N + + +K I + GIR DGR +YR LSI + DGS+ V+LG
Sbjct: 3 MSSTPSNQNIIPIIKKESIVSLFEKGIRQDGRKLTDYRPLSITLDYAKKADGSALVKLGT 62
Query: 58 THIMGFVTGQLVQPYRDRPNEGTLSIFTEFSPMADPSFETGRPSESAVELGRIVDRGLRE 117
T ++ ++ +PY D PN+G L + E P+A +FE G P E+A+EL R+VDR LR+
Sbjct: 63 TMVLAGTKLEIDKPYEDTPNQGNLIVNVELLPLAYETFEPGPPDENAIELARVVDRSLRD 122
Query: 118 SRAVDTESLCVLAGKLVWAIRIDLHILDNGGNLVDAANIAALASLLTFRRPECSLGGEDD 177
S+A+D L + GK VW + +D+++LD GGN++DA +A++A+L +
Sbjct: 123 SKALDLTKLVIEPGKSVWTVWLDVYVLDYGGNVLDACTLASVAALYNTKV---------- 172
Query: 178 LEVIVHXXXXXXXXXXIIHHLPI---AVTFGFFSSESLLVIDPTHHEEAVMVGKMTATLN 234
+V H ++ LP+ VT + LV+DP EE++M K++ +
Sbjct: 173 YKVEQHSNGISVNKNEVVGKLPLNYPVVTISVAKVDKYLVVDPDLDEESIMDAKISFSYT 232
Query: 235 ANGDVCAIQKPG-GEGVLQSV 254
+ + IQK G G LQ +
Sbjct: 233 PDLKIVGIQKSGKGSMSLQDI 253
>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 = 145 bits (367), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 85/264 (32%), Positives = 140/264 (53%), Gaps = 27/264 (10%)
Query: 1 MDTRLANTWRLTVNEKRFIETALSSGIRIDGRNPFEYRKLSIKFG---REDGSSEVQLGQ 57
M + +N + + +K I + GIR DGR +YR LSI + DGS+ V+LG
Sbjct: 1 MSSTPSNQNIIPIIKKESIVSLFEKGIRQDGRKLTDYRPLSITLDYAKKADGSALVKLGT 60
Query: 58 THIMGFVTGQLVQPYRDRPNEGTLSIFTEFSPMADPSFETGRPSESAVELGRIVDRGLRE 117
T ++ ++ +PY D PN+G L + E P+A +FE G P E+A+EL R+VDR LR+
Sbjct: 61 TMVLAGTKLEIDKPYEDTPNQGNLIVNVELLPLAYTTFEPGPPDENAIELARVVDRSLRD 120
Query: 118 SRAVDTESLCVLAGKLVWAIRIDLHILDNGGNLVDAANIAALASLL---TFRRPECSLGG 174
S+A+D L + GK VW + +D+++LD GGN++DA +A++A+L ++ + S+
Sbjct: 121 SKALDLTKLVIEPGKSVWTVWLDVYVLDYGGNVLDACTLASVAALYNTKVYKVEQISVNK 180
Query: 175 EDDLEVIVHXXXXXXXXXXIIHHLPI---AVTFGFFSSESLLVIDPTHHEEAVMVGKMTA 231
+ ++ LP+ VT + LV+DP EE++M K++
Sbjct: 181 NE-----------------VVGKLPLNYPVVTISVAKVDKYLVVDPDLDEESIMDAKISF 223
Query: 232 TLNANGDVCAIQKPG-GEGVLQSV 254
+ + + IQK G G LQ +
Sbjct: 224 SYTPDLKIVGIQKSGKGSMSLQDI 247
>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 = 133 bits (335), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 78/271 (28%), Positives = 129/271 (47%), Gaps = 8/271 (2%)
Query: 12 TVNEKRFIETALSSGIRIDGRNPFEYRKLSIKFGR---EDGSSEVQLGQTHIMGFVTGQL 68
TV + L R DGR E+R ++ G DGS+ V+LG T ++ V +
Sbjct: 9 TVEPLEYYRRFLKENCRPDGRELGEFRTTTVNIGSISTADGSALVKLGNTTVICGVKAEF 68
Query: 69 VQPYRDRPNEGTLSIFTEFSPMADPSFETGRPSESAVELGRIVDRGLRESRAVDTESLCV 128
P D P++G + + P+ F +G P E A + + + S+ + E LC+
Sbjct: 69 AAPSTDAPDKGYVVPNVDLPPLCSSRFRSGPPGEEAQVASQFIADVIENSQIIQKEDLCI 128
Query: 129 LAGKLVWAIRIDLHILDNGGNLVDAANIAALASLLTFRRPECSLGGEDDLEVIVHXXXXX 188
GKLVW + DL LD GN++DA A LA+L + PE ++ E L
Sbjct: 129 SPGKLVWVLYCDLICLDYDGNILDACTFALLAALKNVQLPEVTINEETAL---AEVNLKK 185
Query: 189 XXXXXIIHHLPIAVTFGFFSSESLLVIDPTHHEEAVMVGKMTATLNANGDVCAIQKPGGE 248
I H P+A +F F ++LL++DPT EE + G +T ++ G +C + KPGG
Sbjct: 186 KSYLNIRTH-PVATSFAVF-DDTLLIVDPTGEEEHLATGTLTIVMDEEGKLCCLHKPGGS 243
Query: 249 GVLQSVIMQCLRLASRMASDITKKIKDAVET 279
G+ + + C+ A ++ K + + +++
Sbjct: 244 GLTGAKLQDCMSRAVTRHKEVKKLMDEVIKS 274
>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 = 127 bits (319), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 91/270 (33%), Positives = 150/270 (55%), Gaps = 21/270 (7%)
Query: 11 LTVNEKR-FIETALSSGIRIDGRNPFEYRKLSI---KFGREDGSSEVQLGQTHIMGFVTG 66
+ V+ KR ++ + L RIDGR E+RK+ I + +GS+ V+LG T ++ V
Sbjct: 5 ILVDIKRDYVLSKLRDNERIDGRGFDEFRKVEIIPNVIEKAEGSALVKLGDTQVVVGVKM 64
Query: 67 QLVQPYRDRPNEGTLSIFTEFSPMADPSFETGRPSESAVELGRIVDRGLRESRAVDTESL 126
Q +PY D P+ G + + E P+A P+FE G P E+++EL R+VDRG+RES AVD L
Sbjct: 65 QPGEPYPDTPDRGVIIVNAELVPLASPTFEPGPPDENSIELARVVDRGIRESEAVDLSKL 124
Query: 127 CVLAGKLVWAIRIDLHILDNGGNLVDAANIAALASLLTFRRPECSLG-GEDDLEVIVHXX 185
+ G+ VW + +D+H LD+ GNL+DA+ +AA+A+L+ + P GED L
Sbjct: 125 VIEEGEKVWIVFVDIHALDDDGNLLDASALAAIAALMNTKVPAERFDLGEDYL------- 177
Query: 186 XXXXXXXXIIHHLPIAVTFGFFSSESLLVIDPTHHEEAVMVGKMTATLNANGDVCAIQKP 245
+ LP++VT ++ L +DP+ E +V +T T + + +V A+QK
Sbjct: 178 -------LPVRDLPVSVTSLIVGNKYL--VDPSREEMSVGDTTLTITTDKDDNVVAMQKS 228
Query: 246 GGEGVLQSVIMQCLRLASRMASDITKKIKD 275
GG + + + + L ++ A + +K K+
Sbjct: 229 GGYLLDEKLFDELLDVSINCARKLREKFKE 258
>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 = 123 bits (309), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 90/270 (33%), Positives = 149/270 (55%), Gaps = 21/270 (7%)
Query: 11 LTVNEKR-FIETALSSGIRIDGRNPFEYRKLSI---KFGREDGSSEVQLGQTHIMGFVTG 66
+ V+ KR ++ + L RIDGR E+RK+ I + +GS+ V+LG T ++ V
Sbjct: 5 ILVDIKRDYVLSKLRDNERIDGRGFDEFRKVEIIPNVIEKAEGSALVKLGDTQVVVGVKM 64
Query: 67 QLVQPYRDRPNEGTLSIFTEFSPMADPSFETGRPSESAVELGRIVDRGLRESRAVDTESL 126
Q +P D P+ G + + E P+A P+FE G P E+++EL R+VDRG+RES AVD L
Sbjct: 65 QPGEPAPDTPDRGVIIVNAELVPLASPTFEPGPPDENSIELARVVDRGIRESEAVDLSKL 124
Query: 127 CVLAGKLVWAIRIDLHILDNGGNLVDAANIAALASLLTFRRPECSLG-GEDDLEVIVHXX 185
+ G+ VW + +D+H LD+ GNL+DA+ +AA+A+L+ + P GED L
Sbjct: 125 VIEEGEKVWIVFVDIHALDDDGNLLDASALAAIAALMNTKVPAERFDLGEDYL------- 177
Query: 186 XXXXXXXXIIHHLPIAVTFGFFSSESLLVIDPTHHEEAVMVGKMTATLNANGDVCAIQKP 245
+ LP++VT ++ L +DP+ E +V +T T + + +V A+QK
Sbjct: 178 -------LPVRDLPVSVTSLIVGNKYL--VDPSREEMSVGDTTLTITTDKDDNVVAMQKS 228
Query: 246 GGEGVLQSVIMQCLRLASRMASDITKKIKD 275
GG + + + + L ++ A + +K K+
Sbjct: 229 GGYLLDEKLFDELLDVSINCARKLREKFKE 258
>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 = 97.4 bits (241), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 67/243 (27%), Positives = 113/243 (46%), Gaps = 12/243 (4%)
Query: 11 LTVNEKRFIETALSSGIRIDGRNPFEYRKLSIK---FGREDGSSEVQLGQTHIMGFVTGQ 67
L+ EK +I + +R+DGR +YR + ++ GS+ V+LG T I+ V +
Sbjct: 20 LSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILVGVKAE 79
Query: 68 LVQPYRDRPNEGTLSIFTEFSPMADPSFETGRPSESAVELGRIVDRGLRESRAVDTESLC 127
+ P ++PNEG L F + S A P FE + E+ + R +VD ++LC
Sbjct: 80 MGTPKLEKPNEGYLEFFVDCSASATPEFEGRGGDDLGTEIANTLYRIFNNKSSVDLKTLC 139
Query: 128 VLAGKLVWAIRIDLHILDNGGNLVDAANIAALASLLTFRRPECSL----GGEDDLEVIVH 183
+ + W + +D+ +L+ GGNL DA +IA A+L R P + G D+E+
Sbjct: 140 ISPREHCWVLYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDIEL--- 196
Query: 184 XXXXXXXXXXIIHHLPIAVTFGFFSSESLLVIDPTHHEEAVMVGKMTATLNANGDVCAIQ 243
+ ++P VT V+D T EEA + + ++ + G V ++
Sbjct: 197 SDDPYDCIRLSVENVPCIVTLCKIGYRH--VVDATLQEEACSLASLLVSVTSKGVVTCMR 254
Query: 244 KPG 246
K G
Sbjct: 255 KVG 257
>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 = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 47/105 (44%), Gaps = 5/105 (4%)
Query: 23 LSSGIRIDGRNPFEYRKLSIKFG---REDGSSEVQLGQTHIMGFVTG--QLVQPYRDRPN 77
L G R DGR P E R + I+ G DGS+ ++G T + V G ++ + P+
Sbjct: 16 LDDGKRTDGRKPDELRSIKIELGVLKNADGSAIFEMGNTKAIAAVYGPKEMHPRHLSLPD 75
Query: 78 EGTLSIFTEFSPMADPSFETGRPSESAVELGRIVDRGLRESRAVD 122
L + +P + + PS +EL +++ L + V+
Sbjct: 76 RAVLRVRYHMTPFSTDERKNPAPSRREIELSKVIREALESAVLVE 120
>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 = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 47/105 (44%), Gaps = 5/105 (4%)
Query: 23 LSSGIRIDGRNPFEYRKLSIKFG---REDGSSEVQLGQTHIMGFVTG--QLVQPYRDRPN 77
L G R DGR P E R + I+ G DGS+ ++G T + V G ++ + P+
Sbjct: 14 LDDGKRTDGRKPDELRSIKIELGVLKNADGSAIFEMGNTKAIAAVYGPKEMHPRHLSLPD 73
Query: 78 EGTLSIFTEFSPMADPSFETGRPSESAVELGRIVDRGLRESRAVD 122
L + +P + + PS +EL +++ L + V+
Sbjct: 74 RAVLRVRYHMTPFSTDERKNPAPSRREIELSKVIREALESAVLVE 118
>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 = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 47/105 (44%), Gaps = 5/105 (4%)
Query: 23 LSSGIRIDGRNPFEYRKLSIKFG---REDGSSEVQLGQTHIMGFVTG--QLVQPYRDRPN 77
L G R DGR P E R + I+ G DGS+ ++G T + V G ++ + P+
Sbjct: 11 LDDGKRTDGRKPDELRSIKIELGVLKNADGSAIFEMGNTKAIAAVYGPKEMHPRHLSLPD 70
Query: 78 EGTLSIFTEFSPMADPSFETGRPSESAVELGRIVDRGLRESRAVD 122
L + +P + + PS +EL +++ L + V+
Sbjct: 71 RAVLRVRYHMTPFSTDERKNPAPSRREIELSKVIREALESAVLVE 115
>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 = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/96 (23%), Positives = 47/96 (48%), Gaps = 5/96 (5%)
Query: 25 SGIRIDGRNPFEYRKLSIKFG---REDGSSEVQLGQTHIMGFVTG--QLVQPYRDRPNEG 79
+G RIDGR +E R + ++ G +GS+ ++ G+ I+ V G +L + RP+
Sbjct: 14 NGRRIDGRKKYELRPIKMEVGVLKNANGSAYIEWGKNKIIAAVYGPRELHPKHLQRPDRA 73
Query: 80 TLSIFTEFSPMADPSFETGRPSESAVELGRIVDRGL 115
L + +P + + P ++E+ +++ L
Sbjct: 74 ILRVRYNMAPFSVEERKKPGPDRRSIEISKVIKGAL 109
>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 = 33.5 bits (75), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 19 IETALSSGIRIDGRNPFEYRKLSIK---FGREDGSSEVQLGQTHIMGFVTG 66
+E G R+DGR E RK+ + F + DGS+ ++ G T + V G
Sbjct: 8 LELLSDQGYRVDGRRAGELRKIQARMGVFAQADGSAYIEQGNTKALAVVYG 58
>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 = 33.1 bits (74), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 38/140 (27%), Positives = 57/140 (40%), Gaps = 20/140 (14%)
Query: 28 RIDGRNPFEYRKLSIK---FGREDGSSEVQLGQTHIMGFVTGQLVQP-YRDRPNEGTLSI 83
R DGRNP + R S R GS+ G T ++ V G +P R N SI
Sbjct: 5 RADGRNPNQLRPFSCTRNPLDRAHGSARWAQGDTIVLAAVYGP--KPGTRKGENPEKASI 62
Query: 84 FTEFSPMADPSFETGRPSESAVELGRIVDRGLRESRAVDTESLCVLAGKLVWAIRIDLHI 143
+ PM TG+ + E + R L +S+C+L + L +
Sbjct: 63 EVVWKPM------TGQIGKQEKEYEMTLKRTL--------QSICLLTVHPNTTTSVILQV 108
Query: 144 LDNGGNLVDAANIAALASLL 163
+ N G+L+ A A A+L+
Sbjct: 109 VGNDGSLLPCAINACCAALV 128
>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 = 31.6 bits (70), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 5/96 (5%)
Query: 20 ETALSSGIRIDGRNPFEYRKLSIK---FGREDGSSEVQLGQTHIMGFVTG-QLVQP-YRD 74
E + G+R+DGR E R + I+ R DGS +++G+ ++ V G + V P +
Sbjct: 9 EKLIVDGLRLDGRKFDELRPIKIEASVLKRADGSCYLEMGKNKVIAAVFGPREVHPRHLQ 68
Query: 75 RPNEGTLSIFTEFSPMADPSFETGRPSESAVELGRI 110
P++ + +P + + P ++E+ ++
Sbjct: 69 DPSKAIIRYRYNMAPFSVEERKRPGPDRRSIEISKV 104
>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 = 31.6 bits (70), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 46/96 (47%), Gaps = 5/96 (5%)
Query: 20 ETALSSGIRIDGRNPFEYRKLSIK---FGREDGSSEVQLGQTHIMGFVTG-QLVQP-YRD 74
E + G+R+DGR E R + I+ R DGS +++G+ ++ V G + V P +
Sbjct: 9 EKLIVDGLRLDGRKFDELRPIKIEASVLKRADGSCYLEMGKNKVIAAVFGPREVHPEHLQ 68
Query: 75 RPNEGTLSIFTEFSPMADPSFETGRPSESAVELGRI 110
P++ + +P + + P ++E+ ++
Sbjct: 69 DPSKAIIRYRYNMAPFSVEERKRPGPDRRSIEISKV 104
>pdb|3N00|A Chain A, Crystal Structure Of A Deletion Mutant Of Human Reverba
Ligand Binding Domain Bound With An Ncor Id1 Peptide
Determined To 2.60a
Length = 245
Score = 28.5 bits (62), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 310 EPSGHNVVNELSRKHLEKPRLASAENASSPGNNGEGESKSSNF--GRSSR 357
EP+ +V+++++R H E A + SSPGN + S + GRS R
Sbjct: 12 EPTVEDVISQVARAHREIFTYAHDKLGSSPGNFNANHASGSPYPHGRSGR 61
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 0.131 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,016,081
Number of Sequences: 62578
Number of extensions: 512006
Number of successful extensions: 804
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 762
Number of HSP's gapped (non-prelim): 24
length of query: 465
length of database: 14,973,337
effective HSP length: 102
effective length of query: 363
effective length of database: 8,590,381
effective search space: 3118308303
effective search space used: 3118308303
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (25.0 bits)