RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780753|ref|YP_003065166.1| peptide chain release factor 2
[Candidatus Liberibacter asiaticus str. psy62]
(355 letters)
>1gqe_A Release factor 2, RF2; protein synthesis, ribosome, macromolecular
mimicry, translation; 1.81A {Escherichia coli} SCOP:
e.38.1.1 PDB: 1mi6_A 1ml5_Z*
Length = 365
Score = 388 bits (997), Expect = e-108
Identities = 184/349 (52%), Positives = 239/349 (68%), Gaps = 1/349 (0%)
Query: 3 LSRQLNCLGGLFDWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEI 62
L+ + + L G D+D +RL +N + E P +W A+ L +ER L+ + + ++
Sbjct: 14 LTERSDVLRGYLDYDAKKERLEEVNAELEQPDVWNEPERAQALGKERSSLEAVVDTLDQM 73
Query: 63 QDRLCDNLILLELALEEDDCSILQETSDNLQRIKLEVEYKQFESLLSGEADSNDAYLEVH 122
+ L D LLELA+E DD E L ++ ++ +F + SGE DS D YL++
Sbjct: 74 KQGLEDVSGLLELAVEADDEETFNEAVAELDALEEKLAQLEFRRMFSGEYDSADCYLDIQ 133
Query: 123 AGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLK 182
AG+GGTE+QDWA+ML RMY RWAE R FKTE +E +GE AGIKS T+ I G AYGWL+
Sbjct: 134 AGSGGTEAQDWASMLERMYLRWAESRGFKTEIIEESEGEVAGIKSVTIKISGDYAYGWLR 193
Query: 183 GEQGVHRLVRISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQH 242
E GVHRLVR SP+DS RRHTSFSS +VYP VDD I+IEI+ +D RID YRASGAGGQH
Sbjct: 194 TETGVHRLVRKSPFDSGGRRHTSFSSAFVYPEVDDDIDIEINPADLRIDVYRASGAGGQH 253
Query: 243 VNTTDSAVRITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGESS 302
VN T+SAVRITHIPTG+V QCQ +RSQHKNK QA ++AKLYE+E+QK+ E +
Sbjct: 254 VNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQAMKQMKAKLYEVEMQKKNAEKQAMEDN 313
Query: 303 KTEIGWGRQIRSYVLQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATL 351
K++IGWG QIRSYVL + +KDLRT +E + VLDG LD F++A+L
Sbjct: 314 KSDIGWGSQIRSYVLDDSR-IKDLRTGVETRNTQAVLDGSLDQFIEASL 361
>2ihr_1 Peptide chain release factor 2; mixed alpha-beta, translation;
2.50A {Thermus thermophilus} PDB: 2b9m_Y* 3f1e_X 3f1g_X
2jl5_Y 2jl7_Y 2wh1_Y 2wh3_Y
Length = 365
Score = 265 bits (678), Expect = 1e-71
Identities = 155/353 (43%), Positives = 213/353 (60%), Gaps = 5/353 (1%)
Query: 2 KLSRQLNCLGGLFDWDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKE 61
+L+++L LGG+FD RL L + EDP LW + A+ + +E L + +
Sbjct: 5 RLAQRLEGLGGIFDIPQKETRLKELERRLEDPSLWNDPEAARKVSQEAARLRRTVDTFRS 64
Query: 62 IQDRLCDNLILLELALEEDDCSILQETSDNLQRIKLEVEYKQFESLLSGEADSNDAYLEV 121
++ L L L+E E+ ++ E + +++ ++LL+ +A L +
Sbjct: 65 LESDLQGLLELMEELPAEEREALKPELEEAAKKLD----ELYHQTLLNFPHAEKNAILTI 120
Query: 122 HAGAGGTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWL 181
GAGGTE+ DWA MLLRMYTR+AE++ F+ E +++ G EAGI A +L+KG NAYG L
Sbjct: 121 QPGAGGTEACDWAEMLLRMYTRFAERQGFQVEVVDLTPGPEAGIDYAQILVKGENAYGLL 180
Query: 182 KGEQGVHRLVRISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQ 241
E GVHRLVR SP+D++ RRHTSF+ + V P VD+ +E+ + + RID RASG GGQ
Sbjct: 181 SPEAGVHRLVRPSPFDASGRRHTSFAGVEVIPEVDEEVEVVLKPEELRIDVMRASGPGGQ 240
Query: 242 HVNTTDSAVRITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGES 301
VNTTDSAVR+ H+PTG+ V CQ RSQ KNK A +L+A+LYELE +KREE
Sbjct: 241 GVNTTDSAVRVVHLPTGITVTCQTTRSQIKNKELALKILKARLYELERKKREEELKALRG 300
Query: 302 SKTEIGWGRQIRSYVLQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATLAIK 354
I WG QIRSYVL VKD RT + + P +VLDGDL D + A L K
Sbjct: 301 EVRPIEWGSQIRSYVL-DKNYVKDHRTGLMRHDPENVLDGDLMDLIWAGLEWK 352
>1zbt_A RF-1, peptide chain release factor 1; peptide chain release factor
1 (RF-1), structural genomics, joint center for
structural genomics, JCSG; 2.34A {Streptococcus mutans}
Length = 371
Score = 241 bits (616), Expect = 2e-64
Identities = 99/349 (28%), Positives = 165/349 (47%), Gaps = 13/349 (3%)
Query: 13 LFD-WDNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLI 71
++D R L DP + + L RE + ++ +E + + +
Sbjct: 15 IYDQLQAVEDRYEELGELLSDPDVVSDTKRFMELSREEANSRETVAVYREYKQVVQNIAD 74
Query: 72 LLELALEEDD-----CSILQETSDNLQRIKLEVEYKQFESLLSGEADSNDAYLEVHAGAG 126
E+ + +E ++ + E +F L D + LE+ AG
Sbjct: 75 AQEMIKDASGDPELEEMAKEELKNSKVAKEEYEEKLRFLLLPKDPNDDKNIILEIRGAAG 134
Query: 127 GTESQDWANMLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLKGEQG 186
G E+ +A LL MY ++AE + +K E +E G+K ++ G + Y LK E G
Sbjct: 135 GDEAALFAGDLLNMYQKYAENQGWKFEVMEASANGVGGLKEVVAMVSGQSVYSKLKYESG 194
Query: 187 VHRLVRISPYDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTT 246
HR+ R+ +S R HTS +++ V P V++ +E EI D R+D Y ASGAGGQ+VN
Sbjct: 195 AHRVQRVPVTESQGRVHTSTATVLVMPEVEE-VEYEIDPKDLRVDIYHASGAGGQNVNKV 253
Query: 247 DSAVRITHIPTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGESSKTEI 306
+AVRI H+PT + V+ Q+ER+Q KN+ +A ++RA++ + Q ++ K+ +
Sbjct: 254 ATAVRIIHLPTNIKVEMQEERTQQKNRDKAMKIIRARVADHFAQIAQD--EQDAERKSTV 311
Query: 307 GWG---RQIRSYVLQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATLA 352
G G +IR+Y P V D R + +L G LD+ + A +
Sbjct: 312 GTGDRSERIRTYNF-PQNRVTDHRIGLTLQKLDSILSGKLDEVIDALIL 359
>2b3t_B RF-1, peptide chain release factor 1; translation termination,
methylation, conformational changes; HET: SAH; 3.10A
{Escherichia coli} SCOP: e.38.1.1
Length = 360
Score = 239 bits (610), Expect = 9e-64
Identities = 112/338 (33%), Positives = 175/338 (51%), Gaps = 3/338 (0%)
Query: 17 DNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELA 76
+ +R + D + + L RE L + + Q D +
Sbjct: 10 EALHERHEEVQALLGDAQTIADQERFRALSREYAQLSDVSRCFTDWQQVQEDIETAQMML 69
Query: 77 LEEDDCSILQETSDNLQRIKLEVE-YKQFESLLSGEADSNDAYLEVHAGAGGTESQDWAN 135
+ + + Q+ + ++E Q L D +A+LEV AG GG E+ +A
Sbjct: 70 DDPEMREMAQDELREAKEKSEQLEQQLQVLLLPKDPDDERNAFLEVRAGTGGDEAALFAG 129
Query: 136 MLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLKGEQGVHRLVRISP 195
L RMY+R+AE R+++ E + +GE G K I G YG LK E G HR+ R+
Sbjct: 130 DLFRMYSRYAEARRWRVEIMSASEGEHGGYKEIIAKISGDGVYGRLKFESGGHRVQRVPA 189
Query: 196 YDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHI 255
+S R HTS ++ V P + D+ +++ +D RIDT+R+SGAGGQHVNTTDSA+RITH+
Sbjct: 190 TESQGRIHTSACTVAVMPELPDAELPDVNPADLRIDTFRSSGAGGQHVNTTDSAIRITHL 249
Query: 256 PTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQK-REEIANIGESSKTEIGWGRQIRS 314
PTG+VV+CQ ERSQHKNKA+A ++L A+++ E+ K ++ A+ + + R+
Sbjct: 250 PTGIVVECQDERSQHKNKAKALSVLGARIHAAEMAKRQQAEASTRRNLLGSGDRSDRNRT 309
Query: 315 YVLQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATLA 352
Y P V D R N+ +V++G LD ++ +
Sbjct: 310 YNF-PQGRVTDHRINLTLYRLDEVMEGKLDMLIEPIIQ 346
>3d5a_X RF1, peptide chain release factor 1; ribosome, coiled coil,
ribonucleoprotein, ribosomal protein, RNA-binding,
rRNA-binding; 3.21A {Thermus thermophilus HB27} PDB:
2b64_Y 3d5c_X
Length = 354
Score = 236 bits (603), Expect = 6e-63
Identities = 109/340 (32%), Positives = 167/340 (49%), Gaps = 8/340 (2%)
Query: 17 DNAVQRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELA 76
D + L DP + ++ + L R + I I+E + L D L
Sbjct: 6 DRLEEEYRELEALLSDPEVLKDKGRYQSLSRRYAEMGEVIGLIREYRKVLEDLEQAESLL 65
Query: 77 LEEDDCSILQETSDNLQRIKLEVEYKQFESL-LSGEADSNDAYLEVHAGAGGTESQDWAN 135
+ + + + + L K +E + L D DA +E+ AG GG E+ +A
Sbjct: 66 DDPELKEMAKAEREALLARKEALEKELERHLLPKDPMDERDAIVEIRAGTGGEEAALFAR 125
Query: 136 MLLRMYTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLKGEQGVHRLVRISP 195
L MY R+AE+ F+TE L+ H + G ++GP AYG K E GVHR+ R+
Sbjct: 126 DLFNMYLRFAEEMGFETEVLDSHPTDLGGFSKVVFEVRGPGAYGTFKYESGVHRVQRVPV 185
Query: 196 YDSNSRRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHI 255
++ R HTS +++ V P ++ + ++ + RID RASG GGQ VNTTDSAVR+ H+
Sbjct: 186 TETQGRIHTSTATVAVLPKAEE-EDFALNMDEIRIDVMRASGPGGQGVNTTDSAVRVVHL 244
Query: 256 PTGVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGESSKTEIGWG---RQI 312
PTG++V CQ RSQ KN+ +A +LR+ LE+++ EE + ++ +IG G +I
Sbjct: 245 PTGIMVTCQDSRSQIKNREKALMILRS--RLLEMKRAEEAERLRKTRLAQIGTGERSEKI 302
Query: 313 RSYVLQPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATLA 352
R+Y P V D R VL G L ++A
Sbjct: 303 RTYNF-PQSRVTDHRIGFTTHDLEGVLSGHLTPILEALKR 341
>1rq0_A RF-1, peptide chain release factor 1; X-RAY, crystal, peptide
release factor 1, ribosome, structural genomics, BSGC
structure funded by NIH; 2.65A {Thermotoga maritima}
SCOP: e.38.1.1 PDB: 2fvo_A
Length = 342
Score = 212 bits (540), Expect = 1e-55
Identities = 124/335 (37%), Positives = 189/335 (56%), Gaps = 18/335 (5%)
Query: 21 QRLSFLNTKTEDPHLWQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNLILLELALEED 80
++ + P L + K E ++ I+ I +R+ + +EL EE
Sbjct: 3 EKKKEIEKLLARPDLTPE--QMKNYGMEYAKIEE----IENITNRIKETQEFIELLREEG 56
Query: 81 DCSILQETSDNLQRIKLEVEYKQFESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRM 140
+ E +L+ Y++ LLS E S+ A +E+ G GG E+ +A L RM
Sbjct: 57 E----NELEIEKYEKELDQLYQELLFLLSPE-ASDKAIVEIRPGTGGEEAALFARDLFRM 111
Query: 141 YTRWAEKRKFKTEALEIHDGEEAGIKSATLLIKGPNAYGWLKGEQGVHRLVRISPYDSNS 200
YTR+AE++ + E EIH+ + GI+ +KG NAYG LK E GVHR+ R+ +S
Sbjct: 112 YTRYAERKGWNLEVAEIHETDLGGIREVVFFVKGKNAYGILKYESGVHRVQRVPVTESGG 171
Query: 201 RRHTSFSSIWVYPVVDDSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTGVV 260
R HTS +++ V P +++ +IEI D +I+T+RASG GGQ+VN T+SAVRITH+PTG+V
Sbjct: 172 RIHTSTATVAVLPEIEE-KDIEIRPEDLKIETFRASGHGGQYVNKTESAVRITHLPTGIV 230
Query: 261 VQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIANIGESSKTEIGWGR---QIRSYVL 317
V CQ ERSQ++NK A +LRA+LY+L+ +++E I + K++IG G +IR+Y
Sbjct: 231 VSCQNERSQYQNKQTALRILRARLYQLQKEQKER--EISQKRKSQIGTGERSEKIRTYNF 288
Query: 318 QPYQMVKDLRTNIEKTSPSDVLDGDLDDFMKATLA 352
P V D R N ++LDGDLD+ + +
Sbjct: 289 -PQNRVTDHRINYTSYRLQEILDGDLDEIISKLIE 322
>2jy9_A Putative tRNA hydrolase domain; GFT protein structure, structural
genomics, PSI-2, protein structure initiative; NMR
{Salmonella typhimurium LT2}
Length = 148
Score = 96.1 bits (239), Expect = 1e-20
Identities = 38/145 (26%), Positives = 61/145 (42%), Gaps = 34/145 (23%)
Query: 218 SIEIEISESDCRIDTYRASGAGGQHVNTTDSA------VRITHIPT-------------- 257
S + I++++ I RA GAGGQHVN T SA +R + +P
Sbjct: 5 SRTVSIADNELEITAIRAQGAGGQHVNKTSSAIHLRFDIRASGLPEYYKQRLLTASHHLI 64
Query: 258 ----GVVVQCQQERSQHKNKAQAWNMLRAKLYELELQKREEIAN-IGESSKTEIGWGRQI 312
++++ Q+ RSQ N+ A L A + EL +++ A +SK +
Sbjct: 65 SDDGVIIIKAQEFRSQELNREAAIARLVAVIKELTAEQKSRRATRPTRASKERRLSSKAQ 124
Query: 313 RSYVLQPYQMVKDLRTNIEKTSPSD 337
+S VK LR + + P D
Sbjct: 125 KS-------SVKALRGKVRR--PLD 140
>2jva_A Peptidyl-tRNA hydrolase domain protein; GFT hydrolase, structural
genomics, PSI-2, protein structure initiative; NMR
{Pseudomonas syringae PV}
Length = 108
Score = 85.0 bits (210), Expect = 2e-17
Identities = 20/91 (21%), Positives = 36/91 (39%), Gaps = 24/91 (26%)
Query: 220 EIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPTG--------------------- 258
+ + +++ + RA GAGGQ+VN SA+ +
Sbjct: 7 NVHLPDAEIELTAIRAQGAGGQNVNKVSSAMHLRFDINASSLPPFYKERLLALNDSRITS 66
Query: 259 ---VVVQCQQERSQHKNKAQAWNMLRAKLYE 286
+V++ QQ R+Q +N+A A L +
Sbjct: 67 DGVIVLKAQQYRTQEQNRADALLRLSELIVN 97
>1j26_A Immature colon carcinoma transcript 1; peptide chain release
factors, RF-1, the GGQ motif, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus musculus}
SCOP: d.50.4.1
Length = 112
Score = 83.8 bits (207), Expect = 5e-17
Identities = 18/95 (18%), Positives = 29/95 (30%), Gaps = 25/95 (26%)
Query: 217 DSIEIEISESDCRIDTYRASGAGGQHVNTTDSAVRITHIPT------------------- 257
I I R+SG GGQ+VN +S +
Sbjct: 11 KQASSYIPLDRLSISYCRSSGPGGQNVNKVNSKAEVRFHLASADWIEEPVRQKIALTHKN 70
Query: 258 ------GVVVQCQQERSQHKNKAQAWNMLRAKLYE 286
+V+ + R Q +N A+ +R + E
Sbjct: 71 KINKAGELVLTSESSRYQFRNLAECLQKIRDMIAE 105
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 43.4 bits (102), Expect = 8e-05
Identities = 73/435 (16%), Positives = 118/435 (27%), Gaps = 169/435 (38%)
Query: 15 DWDNAVQ-RLSFLNT---KTEDPHLWQ-NVIEAKMLMRERQHLDNAISFIKEIQDRLCDN 69
+ A Q + F TE + L F+ + + +
Sbjct: 26 SFFIASQLQEQFNKILPEPTEG--FAADDEPTTPA------EL--VGKFLGYVSSLVEPS 75
Query: 70 LI-----LLELALEEDDCSILQ------------ETSDNLQRIKLEV--EY--------- 101
+ +L L L E + L+ + +D E+ Y
Sbjct: 76 KVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKR 135
Query: 102 ---KQFESLLSGEADSNDAYLEVHA---GAGGTESQDWANMLLRMYTRWAEKRKFKTEAL 155
K+ S L +A ++ A G G T+ D+ L +Y + +
Sbjct: 136 PFDKKSNSALFRAVGEGNA--QLVAIFGGQGNTD--DYFEELRDLYQTY---HVL----V 184
Query: 156 E--IHDGEEAGIKSATLLI--------------KGPNAYGWLKGEQ---GVHRLVRISPY 196
I SA L +G N WL+ L+ I P
Sbjct: 185 GDLIK-------FSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSI-P- 235
Query: 197 DSNSRRHTSFSSIWV-----YPVVDDSIEIEISESDCRI-----DTYRA--SGAGGQH-- 242
S I V Y V ++ R+ GA G H
Sbjct: 236 -------ISCPLIGVIQLAHYVVT------------AKLLGFTPGELRSYLKGATG-HSQ 275
Query: 243 -------VNTTDS----------AVRIT-HIPTGVVVQCQQ------------ERSQHKN 272
+ TDS A+ + I G V+C + E S N
Sbjct: 276 GLVTAVAIAETDSWESFFVSVRKAITVLFFI--G--VRCYEAYPNTSLPPSILEDSLENN 331
Query: 273 KAQAWNMLRAK-LYELELQKREEIAN--IGESSKTEIGW--GRQIRSYVLQ-P----YQM 322
+ ML L + ++Q N + + EI G ++ V+ P Y +
Sbjct: 332 EGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGA--KNLVVSGPPQSLYGL 389
Query: 323 VKDLRTNIEKTSPSD 337
LR + S D
Sbjct: 390 NLTLR-KAKAPSGLD 403
Score = 31.5 bits (71), Expect = 0.31
Identities = 25/163 (15%), Positives = 41/163 (25%), Gaps = 67/163 (41%)
Query: 50 QHLDNAISFIKEIQDRLCDNLILLELALEEDDCSILQ------ETSDNLQRIKLEVEYKQ 103
L A I + L N ++ D +Q +L+ +
Sbjct: 430 HLLVPASDLINK---DLVKN----NVSFNAKD---IQIPVYDTFDGSDLRVLS------- 472
Query: 104 FESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTR----WAEKRKFK-TEALEIH 158
S+ ++ R W +FK T L+
Sbjct: 473 -GSISE--------------------------RIVDCIIRLPVKWETTTQFKATHILDFG 505
Query: 159 DGEEAGIKSATLLIK-GPNAYGWLKGEQGVHRLVRISPYDSNS 200
G +G+ T K G GV R++ D N
Sbjct: 506 PGGASGLGVLTHRNKDG----------TGV-RVIVAGTLDINP 537
Score = 28.0 bits (62), Expect = 3.2
Identities = 22/155 (14%), Positives = 42/155 (27%), Gaps = 54/155 (34%)
Query: 246 TDSAVRIT-HIPTGVVVQCQQERSQH---------------------------------- 270
+ ++ +PT Q + Q
Sbjct: 12 SHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSL 71
Query: 271 ---KNKAQAWNMLRAKLYELE---LQKREEI----ANIGESSKTEIGWGRQ-IRSYVLQP 319
Q +L L E E L+ +I A + + + T + ++ I++Y
Sbjct: 72 VEPSKVGQFDQVLNLCLTEFENCYLE-GNDIHALAAKLLQENDTTLVKTKELIKNY---- 126
Query: 320 YQMVKDLRTNIEKTSPSDVLDGDLDDFMKATL-AI 353
+ +K S S + + A L AI
Sbjct: 127 ITARIMAKRPFDKKSNSALFRAVGEG--NAQLVAI 159
>1m1c_A GAG protein, major coat protein; dsRNA virus structure, RNA-protein
interaction, mRNA decapping, L-A virus,
QUAI-equivalence; 3.50A {Saccharomyces cerevisiae virus
l-a} SCOP: e.42.1.1
Length = 680
Score = 26.9 bits (59), Expect = 6.8
Identities = 9/52 (17%), Positives = 18/52 (34%), Gaps = 5/52 (9%)
Query: 100 EYKQFESLLSGEADSNDAYLEVHAGAGGTESQDWANMLLRMYTRWAEKRKFK 151
Y + + YL+V T ++ N +L M ++W +
Sbjct: 182 SYPDWAQFSESFPSIDVPYLDVR---PLTVTE--VNFVLMMMSKWHRRTNLA 228
>3n0f_A Isoprene synthase; terpene cyclase fold, hemiterpene synthase,
DDXXD motif, NSE motif, lyase; 2.70A {Populus tremula x
populus alba} PDB: 3n0g_A*
Length = 555
Score = 26.9 bits (59), Expect = 7.0
Identities = 17/69 (24%), Positives = 33/69 (47%), Gaps = 3/69 (4%)
Query: 19 AVQRLSFLNTKTEDPHLWQNVIEA-KMLMRERQHLDNAISFIKEIQDRLCDNLILLELAL 77
A+ L L+ + L + V A ++ + R A+ I+ + + N +LLELA+
Sbjct: 175 AISHLKELSEEKIGKELAEQVNHALELPLHRRTQRLEAVWSIEAYRKKEDANQVLLELAI 234
Query: 78 EEDDCSILQ 86
D +++Q
Sbjct: 235 L--DYNMIQ 241
>1hyh_A L-hicdh, L-2-hydroxyisocaproate dehydrogenase;
L-2-hydroxycarboxylate dehydrogenase, L-lactate
dehydrogenase; HET: NAD; 2.20A {Weissella confusa} SCOP:
c.2.1.5 d.162.1.1
Length = 309
Score = 26.9 bits (59), Expect = 7.6
Identities = 6/35 (17%), Positives = 14/35 (40%)
Query: 36 WQNVIEAKMLMRERQHLDNAISFIKEIQDRLCDNL 70
+ E++ L + +I++ D + D L
Sbjct: 275 VLAETTLDLTTDEQEKLLQSRDYIQQRFDEIVDTL 309
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.316 0.132 0.385
Gapped
Lambda K H
0.267 0.0572 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,999,329
Number of extensions: 134225
Number of successful extensions: 355
Number of sequences better than 10.0: 1
Number of HSP's gapped: 331
Number of HSP's successfully gapped: 18
Length of query: 355
Length of database: 5,693,230
Length adjustment: 93
Effective length of query: 262
Effective length of database: 3,438,538
Effective search space: 900896956
Effective search space used: 900896956
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 57 (26.1 bits)