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= 011659
(480 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 181 bits (458), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 123/403 (30%), Positives = 202/403 (50%), Gaps = 55/403 (13%)
Query: 51 HSASLEEFGGVGDGTTSNTKAFKAAIDHLSRFQSEGGSQLFVPPGKWLTGSFNLTSHFTL 110
+L +FG GDG T +++FK AI+ LS+ +GG +L VP G +LTG +L S+ L
Sbjct: 26 REVNLLDFGARGDGRTDCSESFKRAIEELSK---QGGGRLIVPEGVFLTGPIHLKSNIEL 82
Query: 111 FLHKDAVLLASQDEKEWPVIEPLPSYGRGRDTEGGRYSSLIFGTNLTDVVITGDNGTIDG 170
+ K + E+ PV+ R E YS L++ + +V ITG +G +DG
Sbjct: 83 HV-KGTIKFIPDPERYLPVV-----LTRFEGIELYNYSPLVYALDCENVAITG-SGVLDG 135
Query: 171 QG--ELWW---------------------RKFRA-------------GELKYTRPYLIEI 194
E WW +K + G+ Y RP ++
Sbjct: 136 SADNEHWWPWKGKKDFGWKEGLPNQQEDVKKLKEMAERGTPVEERVFGKGHYLRPSFVQF 195
Query: 195 MYSQNIQISNLTLINSPSWNVHPVYSSSVIVQGITILAPVTSPNTDGINPDSCTNTRIED 254
+N+ + + +INSP W +HPV S +VI++ I I + T PN DGI+P+SC IE
Sbjct: 196 YRCRNVLVEGVKIINSPMWCIHPVLSENVIIRNIEISS--TGPNNDGIDPESCKYMLIEK 253
Query: 255 CYIVSGDDCVAVKSGWDQYGIAYGMPTKQLIIRRLTCISPFS-AVIALGSEMSGGIQDVR 313
C +GDD V +KSG D G G+P++ +++R IS S + +GSEMSGG+++V
Sbjct: 254 CRFDTGDDSVVIKSGRDADGRRIGVPSEYILVRDNLVISQASHGGLVIGSEMSGGVRNVV 313
Query: 314 AEDITAIDSESGVRIKTAVGRGGFVKDV-YVRRMTMKTMKWAFWITGSYGSHPDNNYDPH 372
A + ++ E +R+KT RGG+++++ ++ + + + I Y +N +
Sbjct: 314 ARNNVYMNVERALRLKTNSRRGGYMENIFFIDNVAVNVSEEVIRINLRY-----DNEEGE 368
Query: 373 ALPVIQNINYRDMVAENVTMAARLEGIAGDPFTGICISNVTIE 415
LPV++++ +++ A A R+EG+ D I IS+ IE
Sbjct: 369 YLPVVRSVFVKNLKATGGKYAVRIEGLENDYVKDILISDTIIE 411
>pdb|1BHE|A Chain A, Polygalacturonase From Erwinia Carotovora Ssp. Carotovora
Length = 376
Score = 91.3 bits (225), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 91/305 (29%), Positives = 136/305 (44%), Gaps = 33/305 (10%)
Query: 97 WLTGSFNLTSHFTLFLHKDAVLLASQDEKEWPVIEPLPSYGRGRDTEGGRYSSLIFGTNL 156
+L+G +L S +L + K L A + K + E PS D G + I +
Sbjct: 52 FLSGPLSLPSGVSLLIDKGVTLRAVNNAKSF---ENAPSSCGVVDKNGKGCDAFITAVST 108
Query: 157 TDVVITGDNGTIDGQGEL--------WWR---KFRAGELKYTRPYLIEIMYSQNIQISNL 205
T+ I G GTIDGQG + WW + +LK P LI+I S+N + N+
Sbjct: 109 TNSGIYGP-GTIDGQGGVKLQDKKVSWWELAADAKVKKLKQNTPRLIQINKSKNFTLYNV 167
Query: 206 TLINSPSWNVHPVYSSS--VIVQGITILAPVTSPNTDGINPDSCTNTRIEDCYIVSGDDC 263
+LINSP N H V+S TI P T+ NTDGI+P S N I I +GDD
Sbjct: 168 SLINSP--NFHVVFSDGDGFTAWKTTIKTPSTARNTDGIDPMSSKNITIAYSNIATGDDN 225
Query: 264 VAVKSGWDQYGIAYGMPTKQLIIRRLTCISPFSAVIALGSEMSGGIQDVRAEDITAIDSE 323
VA+K AY + I L +++GSE + G+ +V +D+ +
Sbjct: 226 VAIK--------AYKGRAETRNISILHNDFGTGHGMSIGSE-TMGVYNVTVDDLKMNGTT 276
Query: 324 SGVRIKTAVGRGGFVKDVYVRRMTMKTMKWAFWITGSYGSHPDNNYDPHALPVIQNINYR 383
+G+RIK+ G V V + MK + I Y +N +P +I ++
Sbjct: 277 NGLRIKSDKSAAGVVNGVRYSNVVMKNVAKPIVIDTVYEKKEGSN-----VPDWSDITFK 331
Query: 384 DMVAE 388
D+ +E
Sbjct: 332 DVTSE 336
>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 = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 89/404 (22%), Positives = 162/404 (40%), Gaps = 83/404 (20%)
Query: 47 SCRAHSASLEEFGGVGDGTTSNTKAFKAAIDHLSRFQSEGGSQLFVPPGKWLTGSFNLTS 106
S + ++ +FG + DG T NTKA + AID + G ++ +P G + +G+ L S
Sbjct: 151 SAKPQIVNVRDFGAIDDGKTLNTKAIQQAID-----SCKPGCRVEIPAGTYKSGALWLKS 205
Query: 107 HFTLFLHKDAVLLASQDEKEWPVIEPLPSYGRGRDTEGGRYSSLIFGTN--------LTD 158
TL L A+LL S++ ++P L Y R +SLI + +
Sbjct: 206 DMTLNLQAGAILLGSENPDDYPAGYRLYPYSTIE-----RPASLINAIDPNNSKPGTFRN 260
Query: 159 VVITGDNGTIDGQGELWWRKFRAGEL---------KYT---------------------- 187
+ ITG +G IDG G W + + E+ +Y
Sbjct: 261 IRITG-SGVIDGNG---WLRAKTAEITDELGRSLPQYVASKNSKVHEDGILAKNQVEKAV 316
Query: 188 -------------RPYLIEIMYSQNIQISNLTLINSPSWNVHPVYSSSVIVQGITILAPV 234
R L+ + +N+ ++ T+ N + + + +V+ G+ I
Sbjct: 317 SDGMDLKNAYGQRRSSLMTLRGVENVYLAGFTVRNPAFHGIMNLENHNVVANGL-IHQTY 375
Query: 235 TSPNTDGINPDSCTNTRIEDCYIVSGDDCVAVKSGWDQYGIAYGMPTKQLIIRRLTCISP 294
+ N DGI + N + + + +GDDC+ +G + +Q ++ +
Sbjct: 376 DANNGDGIEFGNSQNVMVFNNFFDTGDDCINFAAGTGEKA------QEQEPMKGAWLFNN 429
Query: 295 F----SAVIALGSEMSGGIQDVRAEDITAIDSESGVRIKTAVGRGGFVKDVYVRRMTMKT 350
+ I GS I+D+ AE+ ++ G+R K+ GG ++V R M+
Sbjct: 430 YFRMGHGAIVTGSHTGAWIEDILAENNVMYLTDIGLRAKSTSTIGGGARNVTFRNNAMRD 489
Query: 351 M-KWAFWITGSYG-SHPDNNYDPHALPVIQNINYRDMVAENVTM 392
+ K +T Y S+ + +Y P +P + D +NVT+
Sbjct: 490 LAKQVMVMTLDYADSNANIDYPPAKIPA----QFYDFTLKNVTV 529
>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 = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 80/297 (26%), Positives = 121/297 (40%), Gaps = 41/297 (13%)
Query: 157 TDVVITGDNG-TIDGQGELWWRKFRAGELKYTRPYLIEIMYSQNIQISNLTLINSPSWNV 215
+D+ ITG +G +I+G G WW G T+P N IS L ++NSP
Sbjct: 72 SDLTITGASGHSINGDGSRWWDG-EGGNGGKTKPKFFAAHSLTNSVISGLKIVNSPVQVF 130
Query: 216 HPVYSSSVIVQGITILAPVTSPN----TDGINPDSCTNTRIEDCYIVSGDDCVAVKSGWD 271
S + ++ ITI N TD + + T I + + DDCVAV SG +
Sbjct: 131 SVAGSDYLTLKDITIDNSDGDDNGGHNTDAFDIGTSTYVTISGATVYNQDDCVAVNSGEN 190
Query: 272 QY-GIAYGMPTKQLIIRRLTCISPFSAVIALGSEMSGGIQDVRAEDITAIDSESGVRIKT 330
Y Y L I ++G +++V D T I+S++GVRIKT
Sbjct: 191 IYFSGGYCSGGHGLSIG------------SVGGRSDNTVKNVTFVDSTIINSDNGVRIKT 238
Query: 331 AVGRGGFVKDVYVRRMTMKTM-KWAFWITGSYGSHPDNNYDPHALPVIQNINYRDMVAEN 389
+ G V DV + +T+ ++ K+ + +YG D + P + D V +N
Sbjct: 239 NIDTTGSVSDVTYKDITLTSIAKYGIVVQQNYG-------DTSSTPT-TGVPITDFVLDN 290
Query: 390 VTMAARLEGIAGDPFTGICISNVTIELTNKPKKLQWNCTDITGISSGVTPKPCELLP 446
V + G T I IS W TD++ +S G T C +P
Sbjct: 291 VHGSVVSSG------TNILIS------CGSGSCSDWTWTDVS-VSGGKTSSKCTNVP 334
>pdb|1HG8|A Chain A, Endopolygalacturonase From The Phytopathogenic Fungus
Fusarium Moniliforme
Length = 349
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 48/218 (22%), Positives = 97/218 (44%), Gaps = 31/218 (14%)
Query: 150 LIFGTNLTDVVITGDNG-TIDGQGELWWRKFRAGELKYTRP--YLIEIMYSQNIQISNLT 206
+I G+N+T ITG +G IDG G+ +W + +P +++ + N +I+NL
Sbjct: 65 VISGSNIT---ITGASGHVIDGNGQAYWDGKGSNSNSNQKPDHFIVVQKTTGNSKITNLN 121
Query: 207 LINSPSWNVHPVYSSSVIVQGITILAPV------------TSPNTDGINPDSCTNTRIED 254
+ N P SS + + G+ + + NTDG + S + +++
Sbjct: 122 IQNWPVHCFDITGSSQLTISGLILDNRAGDKPNAKSGSLPAAHNTDGFDISSSDHVTLDN 181
Query: 255 CYIVSGDDCVAVKSGWDQYGIAYGMPTKQLIIRRLTCISPFSAVI-ALGSEMSGGIQDVR 313
++ + DDCVAV SG + +++ + C I ++G + + V+
Sbjct: 182 NHVYNQDDCVAVTSGTN------------IVVSNMYCSGGHGLSIGSVGGKSDNVVDGVQ 229
Query: 314 AEDITAIDSESGVRIKTAVGRGGFVKDVYVRRMTMKTM 351
++S++G RIK+ G G + +V + + + +
Sbjct: 230 FLSSQVVNSQNGCRIKSNSGATGTINNVTYQNIALTNI 267
>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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 49/204 (24%), Positives = 84/204 (41%), Gaps = 25/204 (12%)
Query: 157 TDVVITGDNG-TIDGQGELWWRKFRAGELKYTRPYLIEIMYSQNIQISNLTLINSPSWNV 215
T++ I G +G +ID QG WW + T+P + Y+ +++ SN+ +N + V
Sbjct: 68 TNININGASGHSIDCQGSRWWDS-KGSNGGKTKP---KFFYAHSLKSSNIKGLNVLNTPV 123
Query: 216 HPVYSSSVIVQGITILAPVTSP-------NTDGINPDSCTNTRIEDCYIVSGDDCVAVKS 268
+S G+ + S NTD + S T I + + DDC+A+ S
Sbjct: 124 QAFSINSATTLGVYDVIIDNSAGDSAGGHNTDAFDVGSSTGVYISGANVKNQDDCLAINS 183
Query: 269 GWDQYGIAYGMPTKQLIIRRLTCISPFSAVI-ALGSEMSGGIQDVRAEDITAIDSESGVR 327
G + TC I ++G ++ V + ++S++GVR
Sbjct: 184 G------------TNITFTGGTCSGGHGLSIGSVGGRSDNTVKTVTISNSKIVNSDNGVR 231
Query: 328 IKTAVGRGGFVKDVYVRRMTMKTM 351
IKT G G V V +T+ +
Sbjct: 232 IKTVSGATGSVSGVTYSGITLSNI 255
>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 = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 48/201 (23%), Positives = 80/201 (39%), Gaps = 21/201 (10%)
Query: 153 GTNLTDVVITGDNGTIDGQGELWWRKFRAGELKYTRPYLIEIMYSQNIQISNLTLINSPS 212
G +LT V D IDG G WW + T+P + I ++ + + N+P
Sbjct: 67 GKDLT--VTMADGAVIDGDGSRWWDS-KGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPV 123
Query: 213 WNVHPVYSSSVIVQGITILAPVTSPN----TDGINPDSCTNTRIEDCYIVSGDDCVAVKS 268
+ V +++V + TI N TDG + T I + + DDC+A+ S
Sbjct: 124 QAI-SVQATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINS 182
Query: 269 GWDQYGIAYGMPTKQLIIRRLTCISPFSAVI-ALGSEMSGGIQDVRAEDITAIDSESGVR 327
G + + TC I ++G +++V D T +S +GVR
Sbjct: 183 G------------ESISFTGGTCSGGHGLSIGSVGGRDDNTVKNVTISDSTVSNSANGVR 230
Query: 328 IKTAVGRGGFVKDVYVRRMTM 348
IKT G V ++ + +
Sbjct: 231 IKTIYKETGDVSEITYSNIQL 251
>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 = 38.1 bits (87), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 59/248 (23%), Positives = 99/248 (39%), Gaps = 44/248 (17%)
Query: 159 VVITGDNG-TIDGQGELWWRKFRAGELKYTRPYLIEIMYSQNIQISNLTLINSPSWNVHP 217
+ +TG +G I+ G WW G +P + Y+ + S++T +N + P
Sbjct: 97 ITVTGASGHLINCDGARWWDG--KGTSGKKKP---KFFYAHGLDSSSITGLNIKN---TP 148
Query: 218 VYSSSVIVQGITILAPVT----------SPNTDGINPDSCTNTRIEDCYIVSGDDCVAVK 267
+ + SV IT VT NTD + + I ++ + DDC+AV
Sbjct: 149 LMAFSVQANDIT-FTDVTINNADGDTQGGHNTDAFDVGNSVGVNIIKPWVHNQDDCLAVN 207
Query: 268 SGWDQYGIAYGMPTKQLIIRRLTCISPFSAVI-ALGSEMSGGIQDVRAEDITAIDSESGV 326
SG + + TCI I ++G + +++V E T +SE+ V
Sbjct: 208 SG------------ENIWFTGGTCIGGHGLSIGSVGDRSNNVVKNVTIEHSTVSNSENAV 255
Query: 327 RIKTAVGRGGFVKDVYVRRMTMKTMKWAFWITGSYGSHPDNNYD---PHALPVIQNINYR 383
RIKT G G V ++ + M + YG +Y+ P P + +
Sbjct: 256 RIKTISGATGSVSEITYSNIVMSGIS-------DYGVVIQQDYEDGKPTGKPT-NGVTIQ 307
Query: 384 DMVAENVT 391
D+ E+VT
Sbjct: 308 DVKLESVT 315
>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 = 34.3 bits (77), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 33/126 (26%), Positives = 57/126 (45%), Gaps = 11/126 (8%)
Query: 151 IFGTNLTDVVITGDNGTIDGQGELWWRKFRAGELKYTRPYLIEIMYSQNIQISNLTLINS 210
+F + T + G + DG G L+W + ++I S + ++NS
Sbjct: 60 LFTIDGTGINFVGADHIFDGNGALYWDGKGTNNGTHKPHPFLKIKGSGTYK--KFEVLNS 117
Query: 211 PSW--NVHPVYSSSVIVQGITI--LAPVT---SPNTDGINPDSCTNTRIEDCYIVSGDDC 263
P+ +V P + + + GIT+ A T NTDG + S N I++C + + DDC
Sbjct: 118 PAQAISVGPT-DAHLTLDGITVDDFAGDTKNLGHNTDGFDV-SANNVTIQNCIVKNQDDC 175
Query: 264 VAVKSG 269
+A+ G
Sbjct: 176 IAINDG 181
>pdb|2VBK|A Chain A, Native Tailspike Protein Of Bacteriophage Sf6
pdb|2VBM|A Chain A, Tailspike Protein Of Bacteriophage Sf6 Complexed With
Tetrasaccharide
Length = 514
Score = 33.9 bits (76), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 54 SLEEFGGVGDGTTSNTKAFKAAIDHLSRFQSEGGSQLFVPPGKWLTG 100
S+ +FG + DG T N +A + AID ++ S G +LF+P G
Sbjct: 53 SILDFGVIDDGVTDNYQAIQNAIDAVASLPS--GGELFIPASNQAVG 97
>pdb|2VBE|A Chain A, Tailspike Protein Of Bacteriophage Sf6
Length = 514
Score = 33.5 bits (75), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 54 SLEEFGGVGDGTTSNTKAFKAAIDHLSRFQSEGGSQLFVPPGKWLTG 100
S+ +FG + DG T N +A + AID ++ S G +LF+P G
Sbjct: 53 SILDFGVIDDGVTDNYQAIQNAIDAVASLPS--GGELFIPASNQAVG 97
>pdb|3GQ7|A Chain A, Crystal Structure Of The Bacteriophage Phi29 Gene Product
12 N- Terminal Fragment
pdb|3GQ8|A Chain A, Crystal Structure Of The Bacteriophage Phi29 Gene Product
12 N- Terminal Fragment In Complex With
2-(N-Cyclohexylamino)ethane Sulfonic Acid (Ches)
pdb|3GQ9|A Chain A, Crystal Structure Of The Bacteriophage Phi29 Gene Product
12 N- Terminal Fragment In An Apo Form
pdb|3GQA|A Chain A, Crystal Structure Of The Bacteriophage Phi29 Gene Product
12 N- Terminal Fragment In Complex With Cobalt Ions
Length = 609
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 46/104 (44%), Gaps = 25/104 (24%)
Query: 54 SLEEFGGVGDGTTSNTKAFKAAIDHLSRFQSEGGSQLFVPPGKWLTGSFNLTSHFTLFLH 113
S++ +G GDG T + +AF+ AI E G ++VP G ++ + L
Sbjct: 24 SVKTYGAKGDGVTDDIRAFEKAI--------ESGFPVYVPYGTFMVSR-------GIKLP 68
Query: 114 KDAVLLASQDEKEWPVIEPLPSYGRGRDTEGGRYSSLIFGTNLT 157
+ VL + K VI + S GRG SL++ N+T
Sbjct: 69 SNTVLTGAG--KRNAVIRFMDSVGRGE--------SLMYNENVT 102
>pdb|2PMV|A Chain A, Crystal Structure Of Human Intrinsic Factor- Cobalamin
Complex At 2.6 A Resolution
pdb|2PMV|B Chain B, Crystal Structure Of Human Intrinsic Factor- Cobalamin
Complex At 2.6 A Resolution
pdb|2PMV|C Chain C, Crystal Structure Of Human Intrinsic Factor- Cobalamin
Complex At 2.6 A Resolution
pdb|2PMV|D Chain D, Crystal Structure Of Human Intrinsic Factor- Cobalamin
Complex At 2.6 A Resolution
Length = 399
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 10/70 (14%)
Query: 372 HALPVIQNINYRDM-------VAENVTMAARLEGIAGDPF-TGICISNVTIELTNKPKKL 423
+ +PV YR + + E ++M + GI GD + TG+ + +++ T +P K
Sbjct: 167 NKIPVGSEEGYRSLFGQVLKDIVEKISMKIKDNGIIGDIYSTGLAMQALSV--TPEPSKK 224
Query: 424 QWNCTDITGI 433
+WNC T +
Sbjct: 225 EWNCKKTTDM 234
>pdb|3SUC|A Chain A, Crystal Structure Of The Pre-Mature Bacteriophage Phi29
Gene Product 12
Length = 772
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 47/109 (43%), Gaps = 25/109 (22%)
Query: 49 RAHSASLEEFGGVGDGTTSNTKAFKAAIDHLSRFQSEGGSQLFVPPGKWLTGSFNLTSHF 108
+ S++ +G GDG T + +AF+ AI E G ++VP G ++
Sbjct: 19 KQFGVSVKTYGAKGDGVTDDIRAFEKAI--------ESGFPVYVPYGTFMVSR------- 63
Query: 109 TLFLHKDAVLLASQDEKEWPVIEPLPSYGRGRDTEGGRYSSLIFGTNLT 157
+ L + VL + K VI + S GRG SL++ N+T
Sbjct: 64 GIKLPSNTVLTGAG--KRNAVIRFMDSVGRGE--------SLMYNENVT 102
>pdb|3KQ4|A Chain A, Structure Of Intrinsic Factor-Cobalamin Bound To Its
Receptor Cubilin
pdb|3KQ4|C Chain C, Structure Of Intrinsic Factor-Cobalamin Bound To Its
Receptor Cubilin
pdb|3KQ4|E Chain E, Structure Of Intrinsic Factor-Cobalamin Bound To Its
Receptor Cubilin
Length = 393
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 10/70 (14%)
Query: 372 HALPVIQNINYRDM-------VAENVTMAARLEGIAGDPF-TGICISNVTIELTNKPKKL 423
+ +PV YR + + E ++M + GI GD + TG+ + +++ T +P K
Sbjct: 161 NKIPVGSEEGYRSLFGQVLKDIVEKISMKIKDNGIIGDIYSTGLAMQALSV--TPEPSKK 218
Query: 424 QWNCTDITGI 433
+WNC T +
Sbjct: 219 EWNCKKTTDM 228
>pdb|1H80|A Chain A, 1,3-Alpha-1,4-Beta-D-Galactose-4-Sulfate-3,6-Anhydro-D-
Galactose-2-Sulfate 4 Galactohydrolase
pdb|1H80|B Chain B, 1,3-Alpha-1,4-Beta-D-Galactose-4-Sulfate-3,6-Anhydro-D-
Galactose-2-Sulfate 4 Galactohydrolase
pdb|1KTW|A Chain A, Iota-carrageenase Complexed To Iota-carrageenan Fragments
pdb|1KTW|B Chain B, Iota-carrageenase Complexed To Iota-carrageenan Fragments
Length = 464
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/64 (23%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 55 LEEFGGVGDGTTSNTKAFKAAIDHLSRFQSEGGSQLFVPPGKWLTGSFNLTSHFTLFLHK 114
+++FG G+ T+ ++ A + AI+ +SR G L +P G + + S+ + +
Sbjct: 25 VDDFGANGNDTSDDSNALQRAINAISR--KPNGGTLLIPNGTYHFLGIQMKSNVHIRVES 82
Query: 115 DAVL 118
D ++
Sbjct: 83 DVII 86
>pdb|3LMW|A Chain A, Crystal Structure Of Iota-Carrageenase Family Gh82 From A.
Fortis In Absence Of Chloride Ions
pdb|3LMW|B Chain B, Crystal Structure Of Iota-Carrageenase Family Gh82 From A.
Fortis In Absence Of Chloride Ions
Length = 473
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/64 (23%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 55 LEEFGGVGDGTTSNTKAFKAAIDHLSRFQSEGGSQLFVPPGKWLTGSFNLTSHFTLFLHK 114
+++FG G+ T+ ++ A + AI+ +SR G L +P G + + S+ + +
Sbjct: 26 VDDFGANGNDTSDDSNALQRAINAISR--KPNGGTLLIPNGTYHFLGIQMKSNVHIRVES 83
Query: 115 DAVL 118
D ++
Sbjct: 84 DVII 87
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
0.317 0.134 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,974,548
Number of Sequences: 62578
Number of extensions: 664056
Number of successful extensions: 1147
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1123
Number of HSP's gapped (non-prelim): 24
length of query: 480
length of database: 14,973,337
effective HSP length: 103
effective length of query: 377
effective length of database: 8,527,803
effective search space: 3214981731
effective search space used: 3214981731
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)