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= 020502
(325 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MCA|B Chain B, Structure Of The Dom34-Hbs1 Complex And Implications For
Its Role In No-Go Decay
Length = 390
Score = 250 bits (638), Expect = 8e-67, Method: Compositional matrix adjust.
Identities = 117/319 (36%), Positives = 198/319 (62%)
Query: 1 MKILRRNLVENGPGSVKMEPVDSDDLWFAYNLIAPGDSVMAVTVRKVLRQMASGSRDAER 60
MK++++N+ +NG G + M P + +D+W YN++ GD + A TVR+V++ A+GS R
Sbjct: 1 MKLIQKNIEKNGSGWITMCPEEPEDMWHLYNILQVGDQLKASTVRRVVKVGATGSTSGSR 60
Query: 61 XXXXXXXXXXXXDYDKEGSVLRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDSL 120
D+D + + L I+G+ + VK+G++HTL++ELHR F L K+ WD+
Sbjct: 61 VVMKLRILVENMDFDTKAAQLHIKGRTTEYHPEVKMGSYHTLDLELHRNFTLYKNEWDAF 120
Query: 121 ALDTLHQAADPTASADLAVVLMQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYES 180
ALD + A +P+ +A++ V++ EGLA+I L+ MTI R RI+ IPRK + Y+
Sbjct: 121 ALDRVDAACNPSRNAEIGAVVLDEGLANICLITDYMTILRQRIDQVIPRKRRGDSSAYQK 180
Query: 181 ALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRI 240
L+KF+++V Q+ DF+ ++ ++ASPGF + ++ A + L+ I+++K++
Sbjct: 181 GLDKFYDSVFQSINSEFDFDKLKVVILASPGFVARGLYDYIFSMAVKLDLKQIVKSKNKF 240
Query: 241 ILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVE 300
+++H+S+G+ HSL E+L P V + + DTK QE++ L F++++ D +A YGP HV
Sbjct: 241 VILHSSTGHIHSLNEILKDPAVESKLADTKYVQEIRVLNKFYDVMNEDDRKAWYGPNHVL 300
Query: 301 VAHERMAVQTLLITDDLFR 319
A E A+ LLI+D LFR
Sbjct: 301 KAFELGAIGELLISDSLFR 319
>pdb|2VGM|A Chain A, Structure Of Yeast Dom34 : A Protein Related To
Translation Termination Factor Erf1 And Involved In
No-Go Decay.
pdb|3IZQ|0 Chain 0, Structure Of The Dom34-Hbs1-Gdpnp Complex Bound To A
Translating Ribosome
pdb|3J16|A Chain A, Models Of Ribosome-Bound Dom34p And Rli1p And Their
Ribosomal Binding Partners
Length = 386
Score = 137 bits (344), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 78/318 (24%), Positives = 151/318 (47%), Gaps = 8/318 (2%)
Query: 4 LRRNLVENGPGSVKMEPVDSDDLWFAYNLIAPGDSVMAVTVRKVLRQMASGSRDAERXXX 63
L+++ G + + P D +DL+ Y ++ D + + +K ++ +
Sbjct: 6 LKKDSFNKGGAVITLLPEDKEDLFTVYQIVDKDDEL--IFKKKFTSKLDEAGKKKSTDLV 63
Query: 64 XXXXXXXXXDYDKEGSVLRIRGKNILE-----NEHVKIGAFHTLEIELHRAFVLRKDLWD 118
D+D + L+ +G + + N + +G + + ++ F + K ++
Sbjct: 64 KLKIKVISEDFDMKDEYLKYKGVTVTDESGASNVDIPVGKYLSFTLDYVYPFTIIKQNFN 123
Query: 119 SLALDTLHQAADPTASADLAVVLMQEGLAHILLVGRSMTITRSRIETSIPRKHGPA-IAG 177
L++A + +D A V++QEG+AH+ LV S TI + +IE S+P+K +
Sbjct: 124 KFMQKLLNEACNIEYKSDTAAVVLQEGIAHVCLVTSSSTILKQKIEYSMPKKKRTTDVLK 183
Query: 178 YESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENK 237
++ KF++ + A K ++F+ ++ ++ SPGF + AE + I++NK
Sbjct: 184 FDEKTEKFYKAIYSAMKKDLNFDKLKTIILCSPGFYAKILMDKIFQYAEEEHNKKILDNK 243
Query: 238 SRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPK 297
+ H S+GY + EVL P + ++DTK ++E+ + +F L D +A YG K
Sbjct: 244 GMFFIAHCSTGYLQGINEVLKNPLYASKLQDTKYSKEIMVMDEFLLHLNKDDDKAWYGEK 303
Query: 298 HVEVAHERMAVQTLLITD 315
V A E A+ LL+TD
Sbjct: 304 EVVKAAEYGAISYLLLTD 321
>pdb|2VGN|A Chain A, Structure Of Yeast Dom34 : A Protein Related To
Translation Termination Factor Erf1 And Involved In
No-go Decay.
pdb|2VGN|B Chain B, Structure Of Yeast Dom34 : A Protein Related To
Translation Termination Factor Erf1 And Involved In
No-go Decay
Length = 386
Score = 135 bits (339), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 78/318 (24%), Positives = 149/318 (46%), Gaps = 8/318 (2%)
Query: 4 LRRNLVENGPGSVKMEPVDSDDLWFAYNLIAPGDSVMAVTVRKVLRQMASGSRDAERXXX 63
L+++ G + + P D +DL+ Y ++ D + + +K ++ +
Sbjct: 6 LKKDSFNKGGAVITLLPEDKEDLFTVYQIVDKDDEL--IFKKKFTSKLDEAGKKKSTDLV 63
Query: 64 XXXXXXXXXDYDKEGSVLRIRGKNILE-----NEHVKIGAFHTLEIELHRAFVLRKDLWD 118
D+D + L+ +G + + N + +G + + ++ F + K ++
Sbjct: 64 KLKIKVISEDFDXKDEYLKYKGVTVTDESGASNVDIPVGKYLSFTLDYVYPFTIIKQNFN 123
Query: 119 SLALDTLHQAADPTASADLAVVLMQEGLAHILLVGRSMTITRSRIETSIPRKHGPA-IAG 177
L++A + +D A V++QEG+AH+ LV S TI + +IE S P+K +
Sbjct: 124 KFXQKLLNEACNIEYKSDTAAVVLQEGIAHVCLVTSSSTILKQKIEYSXPKKKRTTDVLK 183
Query: 178 YESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENK 237
++ KF++ + A K ++F+ ++ ++ SPGF + AE + I++NK
Sbjct: 184 FDEKTEKFYKAIYSAXKKDLNFDKLKTIILCSPGFYAKILXDKIFQYAEEEHNKKILDNK 243
Query: 238 SRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPK 297
+ H S+GY + EVL P + ++DTK ++E+ +F L D +A YG K
Sbjct: 244 GXFFIAHCSTGYLQGINEVLKNPLYASKLQDTKYSKEIXVXDEFLLHLNKDDDKAWYGEK 303
Query: 298 HVEVAHERMAVQTLLITD 315
V A E A+ LL+TD
Sbjct: 304 EVVKAAEYGAISYLLLTD 321
>pdb|3J15|A Chain A, Model Of Ribosome-Bound Archaeal Pelota And Abce1
Length = 357
Score = 95.9 bits (237), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 86/321 (26%), Positives = 151/321 (47%), Gaps = 22/321 (6%)
Query: 7 NLVENGP--GSVKMEPVDSDDLWFAYNLIAPGDSVMAVTVRKVLRQMAS-GSRDAERXXX 63
++E P G VK++ DDLW Y++I PGD V A T+RK ++ S + E
Sbjct: 2 EILEEKPKEGKVKVKAETLDDLWHLYHIIDPGDIVYAKTLRKQAQRADSLRAEKVEVIPV 61
Query: 64 XXXXXXXXXDYDKEGSVLRIRGKNILEN-EHVKIGAFHTLEIELHRAFVLRKDLWDSLAL 122
++ K + +R+ G + + E V +G +HT+ IE ++K W +
Sbjct: 62 FLGVQAEKINFHKFANQVRVTGPIVYASREDVPLGKYHTIAIEQGTVVTIQKPRWKEHHI 121
Query: 123 DTLHQAADPTASADLAVVLMQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGY---- 178
+ L +A + A + +V++ +G A + LV R + I SI +H Y
Sbjct: 122 ERLKEAVAASKRARVMIVVIDDGEADMALV-REYGV---EILNSI--RHNLGGKRYNTDR 175
Query: 179 ESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKS 238
ES KFF +V + + + V A++A PGF K+ F++ L ++ P E
Sbjct: 176 ESEEMKFFHDVAKTMEEVMKRENVEKAIVAGPGFVKEDFYKFL------KEKYP--ELAK 227
Query: 239 RIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKH 298
++++ TS + + EV+ V + ++ + A+EVQ ++ + + YG K
Sbjct: 228 KVVIEDTSVTGRTGIYEVIKRGVVDRVYQENRVAKEVQLVEKVLENIARNNGLVAYGLKE 287
Query: 299 VEVAHERMAVQTLLITDDLFR 319
VE A AV+TLL+ D+L +
Sbjct: 288 VEEAVNYGAVETLLVLDELLK 308
>pdb|2QI2|A Chain A, Crystal Structure Of The Thermoplasma Acidophilum Pelota
Protein
Length = 347
Score = 73.2 bits (178), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 79/320 (24%), Positives = 140/320 (43%), Gaps = 28/320 (8%)
Query: 1 MKILRRNLVENGPGSVKMEPVDSDDLWFAYNLIAPGDSVMAVTVRKVLRQM-ASGSRDAE 59
M+IL +L +N +++E +D DLW+ N+++ GD V A+T R+V SR+ E
Sbjct: 1 MRILEEDL-KNSTYRIRIESLD--DLWYLRNILSEGDEVSAITFRRVEESADVQRSRERE 57
Query: 60 RXXXXXXXXXXXXDYDKEGSVLRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDS 119
R ++ + LRI G I E K G ++ + + + K+ WD
Sbjct: 58 RIPITIRLKVEKIEFQDFDNRLRILGTVIEGPEDTK-GKHQSITVTVDSEISITKE-WDD 115
Query: 120 LALDTLHQAADPTASADLAVVLMQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYE 179
+D L +A D V M E A I L+ ++ T + G G
Sbjct: 116 QHIDLLKEATDEKYVTVYTAVAMDEDEAQIFLI---HPYGIQQVGTVYSGRSGKYAEGNY 172
Query: 180 SALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSR 239
S + +F+ ++ A LK N +I PGF +D+F R+ +R + I +
Sbjct: 173 SEAS-YFDQIVNA-LK----NYSNSIIILGPGFARDRFARY----CAQRGVNVIGSFPAN 222
Query: 240 IILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHV 299
T SG ++ E + + + ++ + + A++ + + +F + D YG
Sbjct: 223 ----RTDSG---AVYEFITSADGAKLLSNERIARDKEIVDEFLVAVKKDM--GVYGRDQT 273
Query: 300 EVAHERMAVQTLLITDDLFR 319
E A + A+ L+ITD++FR
Sbjct: 274 ESALQMGALSDLIITDEMFR 293
>pdb|1X52|A Chain A, Solution Structures Of The C-Terminal Domain Of The Human
Pelota Homolog (Cgi-17)
Length = 124
Score = 72.4 bits (176), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 34/59 (57%), Positives = 44/59 (74%)
Query: 261 NVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFR 319
V + + DTKAA EV+AL DF+ ML ++P RA YG K VE A+E MA+ TLLI+D+LFR
Sbjct: 8 TVASRLSDTKAAGEVKALDDFYKMLQHEPDRAFYGLKQVEKANEAMAIDTLLISDELFR 66
>pdb|3OBW|A Chain A, Crystal Structure Of Two Archaeal Pelotas Reveal
Inter-Domain Structural Plasticity
Length = 364
Score = 66.2 bits (160), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 76/319 (23%), Positives = 139/319 (43%), Gaps = 53/319 (16%)
Query: 15 SVKMEPVDSDDLWFAYNLIAPGDSVMAVTVRKVLRQMASGSRDAERXXXXXXXXXXXXDY 74
+VK+ DDLW + ++ D V+A T R V +++ R ++
Sbjct: 32 AVKLHIESEDDLWLLHLILEKDDKVVAKTTRDV-----GLGKESRRIPMTIILKVDYTEF 86
Query: 75 DKEGSVLRIRGKNILEN--EHVKI-GAFHTLEIELHRAFVLRKDLWDSLALDTLHQAADP 131
+ + LRI G I+E+ E I GA HT+ +++ ++ K W+ LD L + A+
Sbjct: 87 QEFTNRLRIHG--IIEDAPERFGIKGAHHTINLDIGDEIIIIKQQWNKYVLDRLKRQANK 144
Query: 132 TASADLAVVLMQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYES--ALNK----F 185
+ +A+V E L +IP + G I +S LN+
Sbjct: 145 RSRIIIALVDFDEYL------------------IAIPFEQGIKILSEKSLRPLNEEEGII 186
Query: 186 FENVLQ------AFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSR 239
+N L+ ++K D + + ++A PGF K++ + ++ I++NK +
Sbjct: 187 EQNALEIATELAEYVKQYDPDAI---LLAGPGFFKEEVSK---------KVNAILKNK-K 233
Query: 240 IILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHV 299
I + SS + L EVL + ++ D + A + ++ +L P YG + V
Sbjct: 234 IYIDSVSSATRAGLHEVLKRDIIDKIMTDYEIAIGAKKMEKAMELLAKQPELVTYGLEQV 293
Query: 300 EVAHERMAVQTLLITDDLF 318
+ A E AV+T+L+ +DL
Sbjct: 294 KNAIEMGAVETVLVIEDLL 312
>pdb|3OBY|A Chain A, Crystal Structure Of Archaeoglobus Fulgidus Pelota Reveals
Inter- Domain Structural Plasticity
pdb|3OBY|B Chain B, Crystal Structure Of Archaeoglobus Fulgidus Pelota Reveals
Inter- Domain Structural Plasticity
Length = 352
Score = 62.8 bits (151), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 77/319 (24%), Positives = 133/319 (41%), Gaps = 28/319 (8%)
Query: 1 MKILRRNLVENGPGSVKMEPVDSDDLWFAYNLIAPGDSVMAVTVRKVLRQMASGSR-DAE 59
M+I+ NL +N G +K+ P DDLW +I GD V A T R Q + R D E
Sbjct: 1 MQIVEENLRDN-EGEIKLIPETLDDLWHLRFIIEKGDVVFATTKRA--SQSSDKLRSDKE 57
Query: 60 RXXXXXXXXXXXXDYDKEGSVLRIRGKNILENEHVKIGAFHTLEIELHRAFVLRKDLWDS 119
++ + + LR+ GK + E +HTL I + + + K W
Sbjct: 58 MVTVRLGIEVEKVEFHRFANRLRVSGKIVAGIEE---SGYHTLNITVGKELSIIKK-WKP 113
Query: 120 LALDTLHQAADPTASADLAVVLMQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYE 179
L+ L +A + + ++ ++ ++EG A + + + +E + G G
Sbjct: 114 EQLERLRRAVEDSNRPEIVMLTIEEGYAV------AGVLRQWGVEEIFEERMGYG-KGMG 166
Query: 180 SALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSR 239
+ +FF V A L+ DF + ++A PGF K+ F L ++ P E
Sbjct: 167 DSRKEFFGEV-AAKLESFDF---KYLIVAGPGFAKNDFLDFL------KERYP--EMAKN 214
Query: 240 IILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHV 299
++V SS E+L V ++ + + A+E + + + R YG V
Sbjct: 215 AVVVDVSSVGSRGFIEILKRRVVDKIVGEVRLAEEAEYIDRLLEGIAKGE-RVAYGLDEV 273
Query: 300 EVAHERMAVQTLLITDDLF 318
AH A++ LL+ D+
Sbjct: 274 REAHNYRAIEVLLVADEFL 292
>pdb|3AGJ|B Chain B, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
pdb|3AGJ|D Chain D, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
pdb|3AGJ|F Chain F, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
pdb|3AGJ|H Chain H, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
Length = 358
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 72/317 (22%), Positives = 121/317 (38%), Gaps = 22/317 (6%)
Query: 4 LRRNLVENGPGSVKMEPVDSDDLWFAYNLIAPGDSVMAVTVRKVLRQMASGSRDAERXXX 63
+R +++N V++ P +DLW + PGD V T R V GS ER
Sbjct: 3 MRVEVLDNKRRIVRLRPESEEDLWLLRITLRPGDVVRKRTSRDV----PVGSGRKERVVM 58
Query: 64 XXXXXXXXXDYDKEGSVLRIRGKNILENEHVKI-GAFHTLEIELHRAFVLRKDL-WDSLA 121
++ LRI G + + + G H+ + + V+ +D W
Sbjct: 59 TLRIRLDSIEFQPFTGKLRISGIVVEGPDEFGVKGRRHSTAVSIGTWLVVERDKGWSEQE 118
Query: 122 LDTLHQAADPTASADLAVVLMQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESA 181
L+ L A +A +A V E A +L G M I +P K P+ E
Sbjct: 119 LERL-AAGRARGTAVIAAVDYDE-FALAVLAGHGMKILED-TSARLPGKDDPS---REQE 172
Query: 182 LNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRII 241
+ K+ + + ++ + AVIA PG K + E +R + + ++
Sbjct: 173 VEKYVDRAAKRIVEEAARHRSPIAVIAGPGQLKTS-----VAEKVQRAMPSL-----KVA 222
Query: 242 LVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEV 301
V TS G +RE L +V ++++ + L++F + Y P V
Sbjct: 223 TVDTSMGGVAGVREALRRESVTRILRELSIVEAEGVLEEFLRRIAKSRDTVAYTPGEVLA 282
Query: 302 AHERMAVQTLLITDDLF 318
AV T+L+ D L
Sbjct: 283 VARMGAVDTVLLVDTLL 299
>pdb|3AGK|A Chain A, Crystal Structure Of Archaeal Translation Termination
Factor, Arf1
pdb|3VMF|B Chain B, Archaeal Protein
Length = 373
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 48/191 (25%), Positives = 86/191 (45%), Gaps = 26/191 (13%)
Query: 137 LAVVLMQEGLAHI-LLVGRSMTITRSRIETSIPRKH---GPAIAGYE----SALNKFFEN 188
+ +++++ A I LL G + + + +E +P KH G + YE +++FF+
Sbjct: 143 IGIIIVERDQATIGLLKGARLEVLKE-LEGFVPGKHKMGGQSQRRYERIIEQMVDEFFKK 201
Query: 189 VLQA----FLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVH 244
V + + + V++ ++A PG K +F L+ +L+ I+ + +
Sbjct: 202 VGEEASNLLVPLAEKGVLKGVIVAGPGLAKQEFVEGNYLDY---RLKKILAPELVDVAYQ 258
Query: 245 TSSGYKHSLREVLDAPNVM--NMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVA 302
G K + V+ A V+ M +D V A+++F L YG K VE A
Sbjct: 259 GLQGLKEA---VMKAEKVVEAQMYRDA-----VNAMEEFKLHLAKGTGMIVYGEKDVEAA 310
Query: 303 HERMAVQTLLI 313
E AV+TLLI
Sbjct: 311 LEMGAVKTLLI 321
>pdb|3E20|C Chain C, Crystal Structure Of S.Pombe Erf1ERF3 COMPLEX
pdb|3E20|B Chain B, Crystal Structure Of S.Pombe Erf1ERF3 COMPLEX
pdb|3E20|H Chain H, Crystal Structure Of S.Pombe Erf1ERF3 COMPLEX
pdb|3E20|K Chain K, Crystal Structure Of S.Pombe Erf1ERF3 COMPLEX
Length = 441
Score = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 41/170 (24%), Positives = 67/170 (39%), Gaps = 28/170 (16%)
Query: 162 RIETSIPRKHGPAIAGYESALN--------------KFFENVLQAFLKHVDFNVVRCAVI 207
R +P+KHG G +SAL K E +Q F+ NV +
Sbjct: 176 RFTVDLPKKHG---RGGQSALRFARLRDEKRHNYVRKVAEGAVQHFITDDKPNVAGIVLA 232
Query: 208 ASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIK 267
S F + L +R Q R I K+ + +G+ ++ D +
Sbjct: 233 GSADFKTELGQSDLF--DQRLQSRII---KTVDVSYGGDAGFNQAIELAADT------LS 281
Query: 268 DTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDL 317
+ K QE + ++ FF+ ++ D + C+G A + AV+TLL DL
Sbjct: 282 NVKYVQEKKLIQRFFDEISLDSGKYCFGVVDTMNALQEGAVETLLCFADL 331
>pdb|3IR9|A Chain A, C-Terminal Domain Of Peptide Chain Release Factor From
Methanosarcina Mazei.
pdb|3IR9|B Chain B, C-Terminal Domain Of Peptide Chain Release Factor From
Methanosarcina Mazei
Length = 166
Score = 33.1 bits (74), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 34/68 (50%), Gaps = 2/68 (2%)
Query: 250 KHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQ 309
+ L E+++A ++D + + A++DFF L D + YG V E +V
Sbjct: 7 ESGLSELVNAAG--EKLQDLELXGQKNAVRDFFKELIADSGKVAYGESQVRANLEINSVD 64
Query: 310 TLLITDDL 317
LL+++DL
Sbjct: 65 VLLLSEDL 72
>pdb|4DB5|A Chain A, Crystal Structure Of Rabbit Gitrl
Length = 125
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 24/52 (46%)
Query: 260 PNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTL 311
P+ +N I D K L + + DPT + P V++ + A+QTL
Sbjct: 24 PSCVNKISDWKLKILQNGLYIIYGQVAPDPTYKGFAPFEVQLCKNKEAIQTL 75
>pdb|3AQ8|A Chain A, Crystal Structure Of Truncated Hemoglobin From Tetrahymena
Pyriformis, Q46e Mutant, Fe(Iii) Form
pdb|3AQ8|B Chain B, Crystal Structure Of Truncated Hemoglobin From Tetrahymena
Pyriformis, Q46e Mutant, Fe(Iii) Form
Length = 121
Score = 28.1 bits (61), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 2/58 (3%)
Query: 254 REVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTL 311
++VL V + K+T E + DF ML P Y K++ AH+ M +Q L
Sbjct: 26 KKVLADERVKHFFKNTDMDHETKQQTDFLTMLLGGPNH--YKGKNMTEAHKGMNLQNL 81
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
0.322 0.135 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,795,721
Number of Sequences: 62578
Number of extensions: 315425
Number of successful extensions: 590
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 565
Number of HSP's gapped (non-prelim): 16
length of query: 325
length of database: 14,973,337
effective HSP length: 99
effective length of query: 226
effective length of database: 8,778,115
effective search space: 1983853990
effective search space used: 1983853990
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)