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= 037736
(377 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2IQ7|A Chain A, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|B Chain B, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|C Chain C, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|D Chain D, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|E Chain E, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|F Chain F, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|G Chain G, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
Length = 339
Score = 109 bits (273), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 87/258 (33%), Positives = 133/258 (51%), Gaps = 23/258 (8%)
Query: 117 TIDGNGRGWWN-----------QAVYFHNCNNLQVKGITIVNSPKSHISINTCNGVSVSN 165
+ID G WW+ + Y H+ + +KG+ ++N+P SIN+ + V +
Sbjct: 79 SIDCQGSRWWDSKGSNGGKTKPKFFYAHSLKSSNIKGLNVLNTPVQAFSINSATTLGVYD 138
Query: 166 IHID-SPEDSP---NTDGIDISFSTQVNILDSSIKSGDDCVAINGGSSNINITGVACGPG 221
+ ID S DS NTD D+ ST V I +++K+ DDC+AIN G +NI TG C G
Sbjct: 139 VIIDNSAGDSAGGHNTDAFDVGSSTGVYISGANVKNQDDCLAINSG-TNITFTGGTCSGG 197
Query: 222 HGISVGSLGLDGADDKVEEVHVRNCNFTGTQNGARIKTSPGGSGYARRISFEHITLI-AS 280
HG+S+GS+G +D+ V+ V + N + NG RIKT G +G +++ ITL +
Sbjct: 198 HGLSIGSVG-GRSDNTVKTVTISNSKIVNSDNGVRIKTVSGATGSVSGVTYSGITLSNIA 256
Query: 281 KNPIIIDQHYCVGGGGCKGTSAVNVSEVTYSDVQGSSADEKA-ITFDCSEEGCFGIKMEQ 339
K I+I+Q Y G T+ V ++ +T S + GS A + C+ C K
Sbjct: 257 KYGIVIEQDYENGSPTGTPTNGVPITGLTLSKITGSVASSGTNVYILCASGACSNWKWSG 316
Query: 340 VSITSSVPGKETTAYCQN 357
VS+T GK++T C N
Sbjct: 317 VSVTG---GKKSTK-CSN 330
>pdb|1NHC|A Chain A, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|B Chain B, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|C Chain C, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|D Chain D, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|E Chain E, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|F Chain F, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
Length = 336
Score = 103 bits (257), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 97/325 (29%), Positives = 156/325 (48%), Gaps = 37/325 (11%)
Query: 51 ATLEIPANKAFLLKSTTFRGPCKSNSVNIQVSGTIVAPDSKSWKQCGSQCWLSLYDVQGL 110
+++E+PA + L ++ I GT + K WK G D+
Sbjct: 24 SSIEVPAGETLDLSD-------AADGSTITFEGT-TSFGYKEWK--GPLIRFGGKDLTVT 73
Query: 111 SIDGSGTIDGNGRGWWN-----------QAVYFHNCNNLQVKGITIVNSPKSHISINTCN 159
DG+ IDG+G WW+ + +Y H+ + KGI I N+P IS+ N
Sbjct: 74 MADGA-VIDGDGSRWWDSKGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQAISVQATN 132
Query: 160 GVSVSNIHIDSPEDSPN----TDGIDISFSTQVNILDSSIKSGDDCVAINGGSSNINITG 215
V +++ ID+ + N TDG DIS ST V I +++K+ DDC+AIN G S I+ TG
Sbjct: 133 -VHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINSGES-ISFTG 190
Query: 216 VACGPGHGISVGSLGLDGADDK-VEEVHVRNCNFTGTQNGARIKTSPGGSGYARRISFEH 274
C GHG+S+GS+G G DD V+ V + + + + NG RIKT +G I++ +
Sbjct: 191 GTCSGGHGLSIGSVG--GRDDNTVKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSN 248
Query: 275 ITLIA-SKNPIIIDQHYCVGGGGCKGTSAVNVSEVTYSDVQGSSADEKA-ITFDCSEEGC 332
I L + I+I+Q Y G ++ + +++VT V G+ D+ + C + C
Sbjct: 249 IQLSGITDYGIVIEQDYENGSPTGTPSTGIPITDVTVDGVTGTLEDDATQVYILCGDGSC 308
Query: 333 FGIKMEQVSITSSVPGKETTAYCQN 357
V ++ G +T+ C+N
Sbjct: 309 SDWTWSGVDLS----GGKTSDKCEN 329
>pdb|1IA5|A Chain A, Polygalacturonase From Aspergillus Aculeatus
pdb|1IB4|A Chain A, Crystal Structure Of Polygalacturonase From Aspergillus
Aculeatus At Ph4.5
pdb|1IB4|B Chain B, Crystal Structure Of Polygalacturonase From Aspergillus
Aculeatus At Ph4.5
Length = 339
Score = 94.0 bits (232), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 78/259 (30%), Positives = 128/259 (49%), Gaps = 25/259 (9%)
Query: 117 TIDGNGRGWWN---------QAVYF--HNCNNLQVKGITIVNSPKSHISINTCNGVSVSN 165
+I+G+G WW+ + +F H+ N + G+ IVNSP S+ + +++ +
Sbjct: 83 SINGDGSRWWDGEGGNGGKTKPKFFAAHSLTNSVISGLKIVNSPVQVFSVAGSDYLTLKD 142
Query: 166 IHIDSPEDSPN----TDGIDISFSTQVNILDSSIKSGDDCVAINGGSSNINITGVACGPG 221
I ID+ + N TD DI ST V I +++ + DDCVA+N G NI +G C G
Sbjct: 143 ITIDNSDGDDNGGHNTDAFDIGTSTYVTISGATVYNQDDCVAVNSG-ENIYFSGGYCSGG 201
Query: 222 HGISVGSLGLDGADDKVEEVHVRNCNFTGTQNGARIKTSPGGSGYARRISFEHITLIA-S 280
HG+S+GS+G +D+ V+ V + + NG RIKT+ +G ++++ ITL + +
Sbjct: 202 HGLSIGSVG-GRSDNTVKNVTFVDSTIINSDNGVRIKTNIDTTGSVSDVTYKDITLTSIA 260
Query: 281 KNPIIIDQHYCVGGGGCKGTSAVNVSEVTYSDVQGSSADEKA-ITFDCSEEGCFGIKMEQ 339
K I++ Q+Y G T+ V +++ +V GS I C C
Sbjct: 261 KYGIVVQQNY--GDTSSTPTTGVPITDFVLDNVHGSVVSSGTNILISCGSGSCSDWTWTD 318
Query: 340 VSITSSVPGKETTAYCQNA 358
V SV G +T++ C N
Sbjct: 319 V----SVSGGKTSSKCTNV 333
>pdb|1CZF|A Chain A, Endo-Polygalacturonase Ii From Aspergillus Niger
pdb|1CZF|B Chain B, Endo-Polygalacturonase Ii From Aspergillus Niger
Length = 362
Score = 90.5 bits (223), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 74/256 (28%), Positives = 126/256 (49%), Gaps = 23/256 (8%)
Query: 118 IDGNGRGWWN----------QAVYFHNCNNLQVKGITIVNSPKSHISINTCNGVSVSNIH 167
I+ +G WW+ + Y H ++ + G+ I N+P S+ N ++ +++
Sbjct: 107 INCDGARWWDGKGTSGKKKPKFFYAHGLDSSSITGLNIKNTPLMAFSVQ-ANDITFTDVT 165
Query: 168 IDSPEDSP----NTDGIDISFSTQVNILDSSIKSGDDCVAINGGSSNINITGVACGPGHG 223
I++ + NTD D+ S VNI+ + + DDC+A+N G NI TG C GHG
Sbjct: 166 INNADGDTQGGHNTDAFDVGNSVGVNIIKPWVHNQDDCLAVNSG-ENIWFTGGTCIGGHG 224
Query: 224 ISVGSLGLDGADDKVEEVHVRNCNFTGTQNGARIKTSPGGSGYARRISFEHITLIA-SKN 282
+S+GS+G D +++ V+ V + + + ++N RIKT G +G I++ +I + S
Sbjct: 225 LSIGSVG-DRSNNVVKNVTIEHSTVSNSENAVRIKTISGATGSVSEITYSNIVMSGISDY 283
Query: 283 PIIIDQHYCVGGGGCKGTSAVNVSEVTYSDVQGS-SADEKAITFDCSEEGCFGIKMEQVS 341
++I Q Y G K T+ V + +V V GS + I C C + V
Sbjct: 284 GVVIQQDYEDGKPTGKPTNGVTIQDVKLESVTGSVDSGATEIYLLCGSGSCSDWTWDDVK 343
Query: 342 ITSSVPGKETTAYCQN 357
+T GK++TA C+N
Sbjct: 344 VTG---GKKSTA-CKN 355
>pdb|1BHE|A Chain A, Polygalacturonase From Erwinia Carotovora Ssp. Carotovora
Length = 376
Score = 85.9 bits (211), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 73/263 (27%), Positives = 117/263 (44%), Gaps = 42/263 (15%)
Query: 112 IDGSGTIDGNG--------RGWWNQA---------------VYFHNCNNLQVKGITIVNS 148
I G GTIDG G WW A + + N + ++++NS
Sbjct: 113 IYGPGTIDGQGGVKLQDKKVSWWELAADAKVKKLKQNTPRLIQINKSKNFTLYNVSLINS 172
Query: 149 PKSHISINTCNGVSVSNIHIDSPEDSPNTDGIDISFSTQVNILDSSIKSGDDCVAI---- 204
P H+ + +G + I +P + NTDGID S + I S+I +GDD VAI
Sbjct: 173 PNFHVVFSDGDGFTAWKTTIKTPSTARNTDGIDPMSSKNITIAYSNIATGDDNVAIKAYK 232
Query: 205 -NGGSSNINITGVACGPGHGISVGSLGLDGADDKVEEVHVRNCNFTGTQNGARIKTSPGG 263
+ NI+I G GHG+S+GS + V V V + GT NG RIK+
Sbjct: 233 GRAETRNISILHNDFGTGHGMSIGSETMG-----VYNVTVDDLKMNGTTNGLRIKSDKSA 287
Query: 264 SGYARRISFEHITLIASKNPIIIDQHYCVGGGGCKGTSAVNVSEVTYSDVQGSSADEKAI 323
+G + + ++ + PI+ID Y +G++ + S++T+ DV +++ K +
Sbjct: 288 AGVVNGVRYSNVVMKNVAKPIVIDTVY----EKKEGSNVPDWSDITFKDV---TSETKGV 340
Query: 324 TFDCSEEGCFGIK--MEQVSITS 344
E I+ M+ V +TS
Sbjct: 341 VVLNGENAKKPIEVTMKNVKLTS 363
>pdb|1HG8|A Chain A, Endopolygalacturonase From The Phytopathogenic Fungus
Fusarium Moniliforme
Length = 349
Score = 85.9 bits (211), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 73/254 (28%), Positives = 121/254 (47%), Gaps = 30/254 (11%)
Query: 118 IDGNGRGWWNQAVYFHNCN--------------NLQVKGITIVNSPKSHISINTCNGVSV 163
IDGNG+ +W+ N N N ++ + I N P I + +++
Sbjct: 81 IDGNGQAYWDGKGSNSNSNQKPDHFIVVQKTTGNSKITNLNIQNWPVHCFDITGSSQLTI 140
Query: 164 SNIHIDSPE-DSPN-----------TDGIDISFSTQVNILDSSIKSGDDCVAINGGSSNI 211
S + +D+ D PN TDG DIS S V + ++ + + DDCVA+ G +NI
Sbjct: 141 SGLILDNRAGDKPNAKSGSLPAAHNTDGFDISSSDHVTLDNNHVYNQDDCVAVTSG-TNI 199
Query: 212 NITGVACGPGHGISVGSLGLDGADDKVEEVHVRNCNFTGTQNGARIKTSPGGSGYARRIS 271
++ + C GHG+S+GS+G +D+ V+ V + +QNG RIK++ G +G ++
Sbjct: 200 VVSNMYCSGGHGLSIGSVG-GKSDNVVDGVQFLSSQVVNSQNGCRIKSNSGATGTINNVT 258
Query: 272 FEHITLI-ASKNPIIIDQHYCVGGGGCKGTSAVNVSEVTYSDVQGSSADEKAITF-DCSE 329
+++I L S + + Q Y GG K T+ V +S + + V G+ A F C +
Sbjct: 259 YQNIALTNISTYGVDVQQDYLNGGPTGKPTNGVKISNIKFIKVTGTVASSAQDWFILCGD 318
Query: 330 EGCFGIKMEQVSIT 343
C G +IT
Sbjct: 319 GSCSGFTFSGNAIT 332
>pdb|1RMG|A Chain A, Rhamnogalacturonase A From Aspergillus Aculeatus
Length = 422
Score = 75.5 bits (184), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 83/357 (23%), Positives = 151/357 (42%), Gaps = 31/357 (8%)
Query: 16 TFNVVDFGAIGDGKTDDSDAFAKAWTDFCSATGDSATLEIPANKAFLLKSTTFRGPCKSN 75
T N++ +GA+ D TD A AW +A + IP+ L T G +
Sbjct: 20 TCNILSYGAVADNSTDVGPAITSAW----AACKSGGLVYIPSGNYALNTWVTLTG---GS 72
Query: 76 SVNIQVSGTIVAPDSKSWKQCGSQCWLSLYDVQGLSIDGSGTIDGNGRGWWNQAVY---- 131
+ IQ+ G I + S D + S G + G G + + Y
Sbjct: 73 ATAIQLDGIIYRTGTASGNMIAVT---DTTDFELFSSTSKGAVQGFGYVYHAEGTYGARI 129
Query: 132 --FHNCNNLQVKGITIVNSPKSHISINTCNGVSVSNIHIDSPEDSPNTDGIDISFSTQVN 189
+ + V I +V++P H +++TC+ V N+ I + DGID+ + + +
Sbjct: 130 LRLTDVTHFSVHDIILVDAPAFHFTMDTCSDGEVYNMAIRGGNEG-GLDGIDV-WGSNIW 187
Query: 190 ILDSSIKSGDDCVAINGGSSNINITGVACGPGHGISVGSLGLDGADDKVEEVHVRNCNFT 249
+ D + + D+CV + ++NI + + C G ++GSL GAD V ++ RN +T
Sbjct: 188 VHDVEVTNKDECVTVKSPANNILVESIYCNWSGGCAMGSL---GADTDVTDIVYRNV-YT 243
Query: 250 GTQNGARIKTSPGGSGYARRISFEHITLIASKNPIIIDQHY----CVGGGGCKGTSAVNV 305
+ N + S GGSG + E+ + + ID ++ V G G + N+
Sbjct: 244 WSSNQMYMIKSNGGSGTVSNVLLENFIGHGNAYSLDIDGYWSSMTAVAGDGVQLN---NI 300
Query: 306 SEVTYSDVQGSSADEKAITFDCSEEG-CFGIKMEQVSITSSVPGKETTAYCQNAHGT 361
+ + + + A I CS+ C + +E ++I + G C++A+G+
Sbjct: 301 TVKNWKGTEANGATRPPIRVVCSDTAPCTDLTLEDIAIWTE-SGSSELYLCRSAYGS 356
>pdb|3JUR|A Chain A, The Crystal Structure Of A Hyperthermoactive
Exopolygalacturonase From Thermotoga Maritima
pdb|3JUR|B Chain B, The Crystal Structure Of A Hyperthermoactive
Exopolygalacturonase From Thermotoga Maritima
pdb|3JUR|C Chain C, The Crystal Structure Of A Hyperthermoactive
Exopolygalacturonase From Thermotoga Maritima
pdb|3JUR|D Chain D, The Crystal Structure Of A Hyperthermoactive
Exopolygalacturonase From Thermotoga Maritima
Length = 448
Score = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 91/353 (25%), Positives = 134/353 (37%), Gaps = 99/353 (28%)
Query: 18 NVVDFGAIGDGKTDDSDAFAKAWTDFCSATGDSATLEIPANKAFLLKSTTFRGP--CKSN 75
N++DFGA GDG+TD S++F +A + G L +P + GP KSN
Sbjct: 29 NLLDFGARGDGRTDCSESFKRAIEELSKQGG--GRLIVP-------EGVFLTGPIHLKSN 79
Query: 76 SVNIQVSGTI-VAPDSKSWKQCGSQCW--LSLY---------DVQGLSIDGSGTIDG--N 121
+ + V GTI PD + + + + LY D + ++I GSG +DG +
Sbjct: 80 -IELHVKGTIKFIPDPERYLPVVLTRFEGIELYNYSPLVYALDCENVAITGSGVLDGSAD 138
Query: 122 GRGWW---------------NQA-------------------------------VYFHNC 135
WW NQ V F+ C
Sbjct: 139 NEHWWPWKGKKDFGWKEGLPNQQEDVKKLKEMAERGTPVEERVFGKGHYLRPSFVQFYRC 198
Query: 136 NNLQVKGITIVNSPKSHISINTCNGVSVSNIHIDSPEDSPNTDGIDISFSTQVNILDSSI 195
N+ V+G+ I+NSP I V + NI I S PN DGID + I
Sbjct: 199 RNVLVEGVKIINSPMWCIHPVLSENVIIRNIEISS--TGPNNDGIDPESCKYMLIEKCRF 256
Query: 196 KSGDDCVAINGG-----------------SSNINITGVACGPGHGISVGSLGLDGADDKV 238
+GDD V I G N+ I+ + G G+ +GS G V
Sbjct: 257 DTGDDSVVIKSGRDADGRRIGVPSEYILVRDNLVISQASHG---GLVIGSEMSGG----V 309
Query: 239 EEVHVRNCNFTGTQNGARIKTSPGGSGYARRISF-EHITLIASKNPIIIDQHY 290
V RN + + R+KT+ GY I F +++ + S+ I I+ Y
Sbjct: 310 RNVVARNNVYMNVERALRLKTNSRRGGYMENIFFIDNVAVNVSEEVIRINLRY 362
>pdb|1K5C|A Chain A, Endopolygalacturonase I From Stereum Purpureum At 0.96 A
Resolution
pdb|1KCC|A Chain A, Endopolygalacturonase I From Stereum Purpureum Complexed
With A Galacturonate At 1.00 A Resolution.
pdb|1KCD|A Chain A, Endopolygalacturonase I From Stereum Purpureum Complexed
With Two Galacturonate At 1.15 A Resolution
Length = 335
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 60/208 (28%), Positives = 97/208 (46%), Gaps = 26/208 (12%)
Query: 104 LYDVQGLSIDGSGT---IDGNGRGWWNQAVYFHNCNN----LQVKG------ITIVNSPK 150
L+ + G I+ G DGNG +W+ + + L++KG ++NSP
Sbjct: 60 LFTIDGTGINFVGADHIFDGNGALYWDGKGTNNGTHKPHPFLKIKGSGTYKKFEVLNSPA 119
Query: 151 SHISIN------TCNGVSVSNIHIDSPEDSPNTDGIDISFSTQVNILDSSIKSGDDCVAI 204
IS+ T +G++V + D+ NTDG D+S + V I + +K+ DDC+AI
Sbjct: 120 QAISVGPTDAHLTLDGITVDDFAGDTKNLGHNTDGFDVS-ANNVTIQNCIVKNQDDCIAI 178
Query: 205 NGGSSNINITGVACGPGHGISVGSLGLDGADDKVEEVHVRNCNFTGTQNGARIKTS-PGG 263
N G +NI C GHGIS+GS+ V V ++ T + G RIK
Sbjct: 179 NDG-NNIRFENNQCSGGHGISIGSI---ATGKHVSNVVIKGNTVTRSMYGVRIKAQRTAT 234
Query: 264 SGYARRISFEHITLIA-SKNPIIIDQHY 290
S ++++ T+ +K ++I Q Y
Sbjct: 235 SASVSGVTYDANTISGIAKYGVLISQSY 262
>pdb|2UVE|A Chain A, Structure Of Yersinia Enterocolitica Family 28
Exopolygalacturonase
pdb|2UVE|B Chain B, Structure Of Yersinia Enterocolitica Family 28
Exopolygalacturonase
pdb|2UVF|A Chain A, Structure Of Yersinia Enterocolitica Family 28
Exopolygalacturonase In Complex With Digalaturonic Acid
pdb|2UVF|B Chain B, Structure Of Yersinia Enterocolitica Family 28
Exopolygalacturonase In Complex With Digalaturonic Acid
Length = 608
Score = 34.7 bits (78), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 1/74 (1%)
Query: 135 CNNLQVKGITIVNSPKSHISINTCNGVSVSNIHIDSPEDSPNTDGIDISFSTQVNILDSS 194
N+ + G T+ N P H +N N V+N I D+ N DGI+ S V + ++
Sbjct: 339 VENVYLAGFTVRN-PAFHGIMNLENHNVVANGLIHQTYDANNGDGIEFGNSQNVMVFNNF 397
Query: 195 IKSGDDCVAINGGS 208
+GDDC+ G+
Sbjct: 398 FDTGDDCINFAAGT 411
Score = 32.0 bits (71), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 37/128 (28%), Positives = 53/128 (41%), Gaps = 35/128 (27%)
Query: 18 NVVDFGAIGDGKTDDSDAFAKAWTDFCSATGDSATLEIPANK----AFLLKSTTFRGPCK 73
NV DFGAI DGKT ++ A +A D C +EIPA A LKS
Sbjct: 158 NVRDFGAIDDGKTLNTKAIQQA-IDSCKP---GCRVEIPAGTYKSGALWLKSDM------ 207
Query: 74 SNSVNIQVSGTIVAPDSKSWKQCGSQCW--------LSLYD-----------VQGLSIDG 114
++N+Q ++ ++ G + + SL + + + I G
Sbjct: 208 --TLNLQAGAILLGSENPDDYPAGYRLYPYSTIERPASLINAIDPNNSKPGTFRNIRITG 265
Query: 115 SGTIDGNG 122
SG IDGNG
Sbjct: 266 SGVIDGNG 273
>pdb|3ECC|A Chain A, Crystal Structure Of The Dnac Helicase Loader In Complex
With Adp-Bef3
Length = 185
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 123 RGWWNQAVYFHNCNNLQVKGITIVNSP---KSHISINTCNGV 161
R V+ HN N + KG+T V SP K+H+++ T +
Sbjct: 21 RALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAI 62
>pdb|2UP1|A Chain A, Structure Of Up1-Telomeric Dna Complex
pdb|1PO6|A Chain A, Crystal Structure Of Up1 Complexed With
D(Tagg(6mi)ttaggg): A Human Telomeric Repeat Containing
6-Methyl-8-(2-Deoxy-
Beta-Ribofuranosyl)isoxanthopteridine (6mi)
Length = 183
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 2/90 (2%)
Query: 220 PGHGISVGSLGLDGADDKVEEVHVRNC-NFTGTQNGARIKTSPGGSGYARRISFEHITLI 278
PG ++V + + G + EE H+R+ G I T GSG R +F
Sbjct: 91 PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTD-RGSGKKRGFAFVTFDDH 149
Query: 279 ASKNPIIIDQHYCVGGGGCKGTSAVNVSEV 308
S + I+I +++ V G C+ A++ E+
Sbjct: 150 DSVDKIVIQKYHTVNGHNCEVRKALSKQEM 179
>pdb|3EC2|A Chain A, Crystal Structure Of The Dnac Helicase Loader
Length = 180
Score = 28.5 bits (62), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 123 RGWWNQAVYFHNCNNLQVKGITIVNSP---KSHISINTCNGV 161
R V+ HN N + KG+T V SP K+H+++ T +
Sbjct: 21 RALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAI 62
>pdb|1PGZ|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(6-Mi)
G); A Human Telomeric Repeat Containing 6-Methyl-8-(2-
Deoxy-Beta-Ribofuranosyl)isoxanthopteridine (6-Mi)
Length = 195
Score = 28.1 bits (61), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 2/90 (2%)
Query: 220 PGHGISVGSLGLDGADDKVEEVHVRNC-NFTGTQNGARIKTSPGGSGYARRISFEHITLI 278
PG ++V + + G + EE H+R+ G I T GSG R +F
Sbjct: 97 PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTD-RGSGKKRGFAFVTFDDH 155
Query: 279 ASKNPIIIDQHYCVGGGGCKGTSAVNVSEV 308
S + I+I +++ V G C+ A++ E+
Sbjct: 156 DSVDKIVIQKYHTVNGHNCEVRKALSKQEM 185
>pdb|1P6G|K Chain K, Real Space Refined Coordinates Of The 30s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp
State Of E. Coli 70s Ribosome
pdb|1P87|K Chain K, Real Space Refined Coordinates Of The 30s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The
Initiation-Like State Of E. Coli 70s Ribosome
pdb|2AVY|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2AW7|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 30s Subunit Of The Second 70s Ribosome. The Entire
Crystal Structure Contains Two 70s Ribosomes And Is
Described In Remark 400.
pdb|2I2P|K Chain K, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2I2U|K Chain K, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QOU|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 30s Subunit Of The First 70s Ribosome,
With Spectinomycin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|2QOW|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 30s Subunit Of The Second 70s
Ribosome, With Spectinomycin Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|2QOY|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 30s Subunit Of The
First 70s Ribosome, With Spectinomycin And Neomycin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|2QP0|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 30s Subunit Of The
Second 70s Ribosome, With Spectinomycin And Neomycin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|2QAL|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 30s Subunit Of The First 70s Ribosome, With
Neomycin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QAN|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 30s Subunit Of The Second 70s Ribosome,
With Neomycin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QB9|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 30s Subunit Of The First 70s Ribosome, With
Gentamicin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QBB|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 30s Subunit Of The Second 70s Ribosome,
With Gentamicin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBD|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 30s Subunit Of The
First 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBF|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 30s Subunit Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBH|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 30s
Subunit Of The First 70s Ribosome, With Gentamicin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2QBJ|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 30s
Subunit Of The Second 70s Ribosome, With Gentamicin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2Z4K|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
30s Subunit Of The First 70s Ribosome, With Paromomycin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2Z4M|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
30s Subunit Of The Second 70s Ribosome, With Paromomycin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2VHO|K Chain K, Structure Of Pdf Binding Helix In Complex With The
Ribosome (Part 3 Of 4)
pdb|2VHP|K Chain K, Structure Of Pdf Binding Helix In Complex With The
Ribosome (Part 4 Of 4)
pdb|3DF1|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 30s Subunit Of The First 70s Ribosome, With
Hygromycin B Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3DF3|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 30s Subunit Of The Second 70s Ribosome,
With Hygromycin B Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3J00|K Chain K, Structure Of The Ribosome-Secye Complex In The Membrane
Environment
pdb|4ADV|K Chain K, Structure Of The E. Coli Methyltransferase Ksga Bound To
The E. Coli 30s Ribosomal Subunit
pdb|3J0U|N Chain N, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class2 Of The Six
Classes)
pdb|3J0V|N Chain N, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 4a Of The Six
Classes)
pdb|3J0X|N Chain N, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 4b Of The Six
Classes)
pdb|3J0Z|N Chain N, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 5 Of The Six
Classes)
pdb|3J10|N Chain N, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 6 Of The Six
Classes)
pdb|3J13|M Chain M, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 3 Of The Six
Classes)
Length = 128
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 6/45 (13%)
Query: 333 FGIKMEQVSITSSVPGKETTAYCQNAHG------TSTSTSPHVGC 371
+GIK +V + PG+E+T NA G T + PH GC
Sbjct: 76 YGIKNLEVMVKGPGPGRESTIRALNAAGFRITNITDVTPIPHNGC 120
>pdb|3FIH|K Chain K, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry
Consists Of The 30s Subunit, Trnas And The Ternary
Complex.
pdb|3IY8|K Chain K, Leishmania Tarentolae Mitonchondrial Ribosome Small
Subunit
pdb|2WWL|K Chain K, E.Coli 70s Ribosome Stalled During Translation Of Tnac
Leader Peptide. This File Contains The 30s, The P-Site
Trna And The Tnac Leader Peptide (Part 1 Of 2).
pdb|3OFO|K Chain K, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 30s Subunit Of The
First 70s Ribosome.
pdb|3OFP|K Chain K, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 30s Subunit Of The
Second 70s Ribosome.
pdb|3OFA|K Chain K, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 30s Subunit Of
The First 70s Ribosome.
pdb|3OFB|K Chain K, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 30s Subunit Of
The Second 70s Ribosome.
pdb|3OFX|K Chain K, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 30s Subunit Of The
First 70s Ribosome.
pdb|3OFY|K Chain K, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 30s Subunit Of The
Second 70s Ribosome
pdb|3OAQ|K Chain K, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 30s Subunit Of The
First 70s Ribosome.
pdb|3OAR|K Chain K, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 30s Subunit Of The
Second 70s Ribosome.
pdb|2YKR|K Chain K, 30s Ribosomal Subunit With Rsga Bound In The Presence Of
Gmppnp
pdb|4A2I|K Chain K, Cryo-Electron Microscopy Structure Of The 30s Subunit In
Complex With The Yjeq Biogenesis Factor
pdb|3J18|K Chain K, Structure Of The Bacterial Ribosome Complexed By
Tmrna-Smpb And Ef-G During Translocation And Mld-Loading
(30s Subunit)
pdb|4GD1|K Chain K, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|4GD2|K Chain K, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
Length = 117
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 6/45 (13%)
Query: 333 FGIKMEQVSITSSVPGKETTAYCQNAHG------TSTSTSPHVGC 371
+GIK +V + PG+E+T NA G T + PH GC
Sbjct: 65 YGIKNLEVMVKGPGPGRESTIRALNAAGFRITNITDVTPIPHNGC 109
>pdb|2GY9|K Chain K, Structure Of The 30s Subunit Of A Pre-Translocational E.
Coli Ribosome Obtained By Fitting Atomic Models For Rna
And Protein Components Into Cryo-Em Map Emd-1056
pdb|2GYB|K Chain K, Structure Of The 30s Subunit Of A Secm-Stalled E. Coli
Ribosome Complex Obtained By Fitting Atomic Models For
Rna And Protein Components Into Cryo-Em Map Emd-1143
Length = 116
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 6/45 (13%)
Query: 333 FGIKMEQVSITSSVPGKETTAYCQNAHG------TSTSTSPHVGC 371
+GIK +V + PG+E+T NA G T + PH GC
Sbjct: 65 YGIKNLEVMVKGPGPGRESTIRALNAAGFRITNITDVTPIPHNGC 109
>pdb|1L3K|A Chain A, Up1, The Two Rna-Recognition Motif Domain Of Hnrnp A1
pdb|1U1K|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt 7da
Ggg); A Human Telomeric Repeat Containing
7-Deaza-Adenine
pdb|1U1L|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtt Prn
Ggg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1M|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 7gu
Gg); A Human Telomeric Repeat Containing 7-Deaza-Guanine
pdb|1U1N|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta (Prn)
Gg); A Human Telomeric Repeat Containing Nebularine
pdb|1U1O|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggttag(Di)g); A Human Telomeric Repeat Containing
Inosine
pdb|1U1P|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggtta 2pr
Gg); A Human Telomeric Repeat Containing 2-Aminopurine
pdb|1U1Q|A Chain A, Crystal Structure Of Up1 Complexed With
D(Ttagggtta(Di)gg); A Human Telomeric Repeat Containing
Inosine
pdb|1U1R|A Chain A, Crystal Structure Of Up1 Complexed With D(Ttagggttag(2pr)
G); A Human Telomeric Repeat Containing 2-Aminopurine
Length = 196
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 2/90 (2%)
Query: 220 PGHGISVGSLGLDGADDKVEEVHVRNC-NFTGTQNGARIKTSPGGSGYARRISFEHITLI 278
PG ++V + + G + EE H+R+ G I T GSG R +F
Sbjct: 98 PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTD-RGSGKKRGFAFVTFDDH 156
Query: 279 ASKNPIIIDQHYCVGGGGCKGTSAVNVSEV 308
S + I+I +++ V G C+ A++ E+
Sbjct: 157 DSVDKIVIQKYHTVNGHNCEVRKALSKQEM 186
>pdb|1VS5|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|1VS7|K Chain K, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|3E1A|C Chain C, Structure Of The 30s Subunit And The Trnas Of E. Coli
Ribosome In Pre- Accommodation State
pdb|3E1C|C Chain C, Structure Of The 30s Subunit And The Trnas Of E. Coli
Ribosome In Post-Accommodation State
pdb|3I1M|K Chain K, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1O|K Chain K, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1Q|K Chain K, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1S|K Chain K, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1Z|K Chain K, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I21|K Chain K, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3KC4|K Chain K, Ribosome-Secy Complex. This Entry 3kc4 Contains 30s
Ribosomal Subnit. The 50s Ribosomal Subunit Can Be Found
In Pdb Entry 3kcr
pdb|3OR9|K Chain K, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 30s Subunit Of The First
70s Ribosome.
pdb|3ORA|K Chain K, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 30s Subunit Of The
Second 70s Ribosome.
pdb|3IZV|O Chain O, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Small Subunit Of A Ribosome Programmed With A
Near-Cognate Codon, AT-Site Trna, P-Site Trna, Mrna And
Ef-Tu
pdb|3IZW|O Chain O, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding.This Entry Contains The
Small Subunit Of A Ribosome Programmed With A Cognate
Codon, AT-Site Trna, P-Site Trna, Mrna And Ef-Tu
pdb|3SFS|K Chain K, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome
pdb|3UOQ|K Chain K, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome (Without
Viomycin)
pdb|4GAQ|K Chain K, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
pdb|4GAS|K Chain K, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
Length = 129
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 6/45 (13%)
Query: 333 FGIKMEQVSITSSVPGKETTAYCQNAHG------TSTSTSPHVGC 371
+GIK +V + PG+E+T NA G T + PH GC
Sbjct: 77 YGIKNLEVMVKGPGPGRESTIRALNAAGFRITNITDVTPIPHNGC 121
>pdb|2PYG|A Chain A, Azotobacter Vinelandii Mannuronan C-5 Epimerase Alge4
A-Module
pdb|2PYG|B Chain B, Azotobacter Vinelandii Mannuronan C-5 Epimerase Alge4
A-Module
pdb|2PYH|A Chain A, Azotobacter Vinelandii Mannuronan C-5 Epimerase Alge4
A-Module Complexed With Mannuronan Trisaccharide
pdb|2PYH|B Chain B, Azotobacter Vinelandii Mannuronan C-5 Epimerase Alge4
A-Module Complexed With Mannuronan Trisaccharide
Length = 377
Score = 28.1 bits (61), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 11/16 (68%), Positives = 14/16 (87%)
Query: 17 FNVVDFGAIGDGKTDD 32
+NV DFGA+GDG +DD
Sbjct: 3 YNVKDFGALGDGVSDD 18
>pdb|2LYV|A Chain A, Solution Structure Of The Two Rrm Domains Of Hnrnp A1
(up1) Using Segmental Isotope Labeling
Length = 197
Score = 28.1 bits (61), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 2/90 (2%)
Query: 220 PGHGISVGSLGLDGADDKVEEVHVRNC-NFTGTQNGARIKTSPGGSGYARRISFEHITLI 278
PG ++V + + G + EE H+R+ G I T G SG R +F
Sbjct: 99 PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRG-SGKKRGFAFVTFDDH 157
Query: 279 ASKNPIIIDQHYCVGGGGCKGTSAVNVSEV 308
S + I+I +++ V G C+ A++ E+
Sbjct: 158 DSVDKIVIQKYHTVNGHNCEVRKALSKQEM 187
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
0.314 0.132 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,261,354
Number of Sequences: 62578
Number of extensions: 542793
Number of successful extensions: 918
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 873
Number of HSP's gapped (non-prelim): 34
length of query: 377
length of database: 14,973,337
effective HSP length: 100
effective length of query: 277
effective length of database: 8,715,537
effective search space: 2414203749
effective search space used: 2414203749
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: 52 (24.6 bits)