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= 048431
(396 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1BHE|A Chain A, Polygalacturonase From Erwinia Carotovora Ssp. Carotovora
Length = 376
Score = 74.7 bits (182), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 64/222 (28%), Positives = 100/222 (45%), Gaps = 20/222 (9%)
Query: 153 LSITKSNNIRINGLLSLNSQMYHIVINRCQDVLVEGAKIIAAGDSPNTDGIHVQQSRNVI 212
+ I KS N + + +NS +H+V + I + NTDGI S+N+
Sbjct: 154 IQINKSKNFTLYNVSLINSPNFHVVFSDGDGFTAWKTTIKTPSTARNTDGIDPMSSKNIT 213
Query: 213 IKSSSIKTGDDCISIG-----PGTNNLWIERVTCGPGHGISIGSLAKDLDEEGVQXXXXX 267
I S+I TGDD ++I T N+ I G GHG+SIGS + GV
Sbjct: 214 IAYSNIATGDDNVAIKAYKGRAETRNISILHNDFGTGHGMSIGS-----ETMGVYNVTVD 268
Query: 268 XXXXXXXXXXLRIKSWARPSNGFVRGIRFIDALMQNVQHPIIIDQNY-CPHNLNCPGQIS 326
LRIKS + + G V G+R+ + +M+NV PI+ID Y N P
Sbjct: 269 DLKMNGTTNGLRIKS-DKSAAGVVNGVRYSNVVMKNVAKPIVIDTVYEKKEGSNVPDW-- 325
Query: 327 GVKISDVIYQDIRGTSATPIAIKFDCSTKYPCKGIRLHNVHL 368
SD+ ++D+ + + + + + K P + + + NV L
Sbjct: 326 ----SDITFKDVTSETKGVVVLNGE-NAKKPIE-VTMKNVKL 361
>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 = 66.2 bits (160), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 73/268 (27%), Positives = 119/268 (44%), Gaps = 23/268 (8%)
Query: 125 GGALDAKGTSLWACKTAAGSNCPNGATTLSITKSNNIRINGLLSLNSQMYHIVINRCQ-- 182
G ++D +G+ W K + G KS+NI+ GL LN+ + IN
Sbjct: 77 GHSIDCQGSRWWDSKGSNGGKTKPKFFYAHSLKSSNIK--GLNVLNTPVQAFSINSATTL 134
Query: 183 ---DVLVEGAKIIAAGDSP---NTDGIHVQQSRNVIIKSSSIKTGDDCISIGPGTNNLWI 236
DV+++ + AGDS NTD V S V I +++K DDC++I GT N+
Sbjct: 135 GVYDVIIDNS----AGDSAGGHNTDAFDVGSSTGVYISGANVKNQDDCLAINSGT-NITF 189
Query: 237 ERVTCGPGHGISIGSLAKDLDEEGVQXXXXXXXXXXXXXXXLRIKSWARPSNGFVRGIRF 296
TC GHG+SIGS+ D V+ +RIK+ + G V G+ +
Sbjct: 190 TGGTCSGGHGLSIGSVGGRSDNT-VKTVTISNSKIVNSDNGVRIKT-VSGATGSVSGVTY 247
Query: 297 IDALMQNV-QHPIIIDQNYCPHNLNCPGQ-ISGVKISDVIYQDIRGTSATPIAIKFDCST 354
+ N+ ++ I+I+Q+Y N + G +GV I+ + I G+ A+ +
Sbjct: 248 SGITLSNIAKYGIVIEQDY--ENGSPTGTPTNGVPITGLTLSKITGSVASSGTNVYILCA 305
Query: 355 KYPCKGIRLHNVHLRHLKQEAKSSCNNV 382
C + V + K+ K C+N+
Sbjct: 306 SGACSNWKWSGVSVTGGKKSTK--CSNI 331
>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 = 55.5 bits (132), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 47/147 (31%), Positives = 73/147 (49%), Gaps = 13/147 (8%)
Query: 194 AGDSPN----TDGIHVQQSRNVIIKSSSIKTGDDCISIGPGTNNLWIERVTCGPGHGISI 249
AGD+ N TDG V + NV I++ +K DDCI+I G NN+ E C GHGISI
Sbjct: 142 AGDTKNLGHNTDGFDVS-ANNVTIQNCIVKNQDDCIAINDG-NNIRFENNQCSGGHGISI 199
Query: 250 GSLAKDLDEEGVQXXXXXXXXXXXXXXXLRIKSWARPSNGFVRGIRFIDALMQNV-QHPI 308
GS+A + V +RIK+ ++ V G+ + + + ++ +
Sbjct: 200 GSIAT---GKHVSNVVIKGNTVTRSMYGVRIKAQRTATSASVSGVTYDANTISGIAKYGV 256
Query: 309 IIDQNYCPHNLNCPGQISGVKISDVIY 335
+I Q+Y P ++ PG +G SDV +
Sbjct: 257 LISQSY-PDDVGNPG--TGAPFSDVNF 280
>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 = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 59/224 (26%), Positives = 101/224 (45%), Gaps = 16/224 (7%)
Query: 125 GGALDAKGTSLWACK-TAAGSNCPNGATTLSITKSN----NIRINGLLSLNSQMYHIVIN 179
G +D G+ W K T G P + S NI+ + +++ Q ++ +N
Sbjct: 77 GAVIDGDGSRWWDSKGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQAISVQATNVHLN 136
Query: 180 RCQDVLVEGAKIIAAGDSPNTDGIHVQQSRNVIIKSSSIKTGDDCISIGPGTNNLWIERV 239
D ++ + G NTDG + +S V I +++K DDCI+I G ++
Sbjct: 137 ---DFTIDNSDGDDNG-GHNTDGFDISESTGVYISGATVKNQDDCIAINSG-ESISFTGG 191
Query: 240 TCGPGHGISIGSLAKDLDEEGVQXXXXXXXXXXXXXXXLRIKSWARPSNGFVRGIRFIDA 299
TC GHG+SIGS+ D+ V+ +RIK+ + + G V I + +
Sbjct: 192 TCSGGHGLSIGSVGG-RDDNTVKNVTISDSTVSNSANGVRIKTIYKET-GDVSEITYSNI 249
Query: 300 LMQNV-QHPIIIDQNYCPHNLNCPGQIS-GVKISDVIYQDIRGT 341
+ + + I+I+Q+Y N + G S G+ I+DV + GT
Sbjct: 250 QLSGITDYGIVIEQDY--ENGSPTGTPSTGIPITDVTVDGVTGT 291
>pdb|1RMG|A Chain A, Rhamnogalacturonase A From Aspergillus Aculeatus
Length = 422
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 50/223 (22%), Positives = 94/223 (42%), Gaps = 13/223 (5%)
Query: 149 GATTLSITKSNNIRINGLLSLNSQMYHIVINRCQDVLVEGAKIIAAGDSPNTDGIHVQQS 208
GA L +T + ++ ++ +++ +H ++ C D V I G+ DGI V S
Sbjct: 126 GARILRLTDVTHFSVHDIILVDAPAFHFTMDTCSDGEVYNMAI-RGGNEGGLDGIDVWGS 184
Query: 209 RNVIIKSSSIKTGDDCISIGPGTNNLWIERVTCGPGHGISIGSLAKDLDEEGVQXXXXXX 268
N+ + + D+C+++ NN+ +E + C G ++GSL D D V
Sbjct: 185 -NIWVHDVEVTNKDECVTVKSPANNILVESIYCNWSGGCAMGSLGADTD---VTDIVYRN 240
Query: 269 XXXXXXXXXLRIKSWARPSNGFVRGIRFIDALMQNVQHPIIIDQNYCPHNLNCPGQISGV 328
IKS +G V + + + + + ID Y G GV
Sbjct: 241 VYTWSSNQMYMIKS--NGGSGTVSNVLLENFIGHGNAYSLDID-GYWSSMTAVAGD--GV 295
Query: 329 KISDVIYQDIRGTS---ATPIAIKFDCSTKYPCKGIRLHNVHL 368
+++++ ++ +GT AT I+ CS PC + L ++ +
Sbjct: 296 QLNNITVKNWKGTEANGATRPPIRVVCSDTAPCTDLTLEDIAI 338
>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 = 52.4 bits (124), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 70/266 (26%), Positives = 114/266 (42%), Gaps = 24/266 (9%)
Query: 89 ITFLINGTLV---APTDYRVLGQANNWLSFEGVSHVSIIGGA---LDAKGTSLWACKTAA 142
+T L +GT V T ++ A +S G H+++ G + ++ G W K +
Sbjct: 63 LTGLTSGTKVIFEGTTTFQYEEWAGPLISMSG-EHITVTGASGHLINCDGARWWDGKGTS 121
Query: 143 GSNCP-----NGATTLSITKSNNIRINGLLSLNSQMYHIVINRCQDVLVEGAKIIAAGDS 197
G P +G + SIT N I+ L++ + Q I DV + A G
Sbjct: 122 GKKKPKFFYAHGLDSSSITGLN-IKNTPLMAFSVQANDITF---TDVTINNADGDTQG-G 176
Query: 198 PNTDGIHVQQSRNVIIKSSSIKTGDDCISIGPGTNNLWIERVTCGPGHGISIGSLAKDLD 257
NTD V S V I + DDC+++ G N+W TC GHG+SIGS+ D
Sbjct: 177 HNTDAFDVGNSVGVNIIKPWVHNQDDCLAVNSG-ENIWFTGGTCIGGHGLSIGSVG-DRS 234
Query: 258 EEGVQXXXXXXXXXXXXXXXLRIKSWARPSNGFVRGIRFIDALMQNV-QHPIIIDQNYCP 316
V+ +RIK+ + G V I + + +M + + ++I Q+Y
Sbjct: 235 NNVVKNVTIEHSTVSNSENAVRIKT-ISGATGSVSEITYSNIVMSGISDYGVVIQQDY-- 291
Query: 317 HNLNCPGQ-ISGVKISDVIYQDIRGT 341
+ G+ +GV I DV + + G+
Sbjct: 292 EDGKPTGKPTNGVTIQDVKLESVTGS 317
>pdb|1HG8|A Chain A, Endopolygalacturonase From The Phytopathogenic Fungus
Fusarium Moniliforme
Length = 349
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 57/215 (26%), Positives = 97/215 (45%), Gaps = 22/215 (10%)
Query: 153 LSITKSNNIRINGLLSLNSQMYHIVINRCQDVLVEGAKIIAAGDSPNTDGIHVQQSRNVI 212
IT S+ + I+GL I+ NR D AK + + NTDG + S +V
Sbjct: 130 FDITGSSQLTISGL---------ILDNRAGDK--PNAKSGSLPAAHNTDGFDISSSDHVT 178
Query: 213 IKSSSIKTGDDCISIGPGTNNLWIERVTCGPGHGISIGSLAKDLDE--EGVQXXXXXXXX 270
+ ++ + DDC+++ GT N+ + + C GHG+SIGS+ D +GVQ
Sbjct: 179 LDNNHVYNQDDCVAVTSGT-NIVVSNMYCSGGHGLSIGSVGGKSDNVVDGVQ---FLSSQ 234
Query: 271 XXXXXXXLRIKSWARPSNGFVRGIRFIDALMQNVQ-HPIIIDQNYCPHNLNCPGQ-ISGV 328
RIKS + + G + + + + + N+ + + + Q+Y N G+ +GV
Sbjct: 235 VVNSQNGCRIKSNSGAT-GTINNVTYQNIALTNISTYGVDVQQDYL--NGGPTGKPTNGV 291
Query: 329 KISDVIYQDIRGTSATPIAIKFDCSTKYPCKGIRL 363
KIS++ + + GT A+ F C G
Sbjct: 292 KISNIKFIKVTGTVASSAQDWFILCGDGSCSGFTF 326
>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 = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 49/188 (26%), Positives = 85/188 (45%), Gaps = 15/188 (7%)
Query: 199 NTDGIHVQQSRNVIIKSSSIKTGDDCISIGPGTNNLWIERVTCGPGHGISIGSLAKDLDE 258
NTD + S V I +++ DDC+++ G N++ C GHG+SIGS+ D
Sbjct: 157 NTDAFDIGTSTYVTISGATVYNQDDCVAVNSG-ENIYFSGGYCSGGHGLSIGSVGGRSDN 215
Query: 259 EGVQXXXXXXXXXXXXXXXLRIKSWARPSNGFVRGIRFIDALMQNV-QHPIIIDQNYCPH 317
V+ +RIK+ + G V + + D + ++ ++ I++ QNY
Sbjct: 216 T-VKNVTFVDSTIINSDNGVRIKT-NIDTTGSVSDVTYKDITLTSIAKYGIVVQQNYGDT 273
Query: 318 NLNCPGQISGVKISDVIYQDIRG---TSATPIAIKFDCSTKYPCKGIRLHNVHLRHLKQE 374
+ + P +GV I+D + ++ G +S T I I C + C +V + K
Sbjct: 274 S-STP--TTGVPITDFVLDNVHGSVVSSGTNILIS--CGSG-SCSDWTWTDVSVSGGKTS 327
Query: 375 AKSSCNNV 382
+K C NV
Sbjct: 328 SK--CTNV 333
>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 = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 82/344 (23%), Positives = 120/344 (34%), Gaps = 82/344 (23%)
Query: 32 NVLRCGAKGNGITDXXXXXXXXXXXXXXXXXXXTIYVPKGRYLLGSVAFRSECKSPSITF 91
N+L GA+G+G TD I VP+G +L G + +S +I
Sbjct: 29 NLLDFGARGDGRTDCSESFKRAIEELSKQGGGRLI-VPEGVFLTGPIHLKS-----NIEL 82
Query: 92 LINGTL-VAPTDYRVLGQANNWLSFEGVS--------------HVSIIG-GALDAKGTSL 135
+ GT+ P R L FEG+ +V+I G G LD +
Sbjct: 83 HVKGTIKFIPDPERYLPVV--LTRFEGIELYNYSPLVYALDCENVAITGSGVLDGSADNE 140
Query: 136 ----WACKTAAG--SNCPNGATTLSITKSNNIRINGLLSLNSQMYH------IVINRCQD 183
W K G PN + K R + H + RC++
Sbjct: 141 HWWPWKGKKDFGWKEGLPNQQEDVKKLKEMAERGTPVEERVFGKGHYLRPSFVQFYRCRN 200
Query: 184 VLVEGAKII---------------------AAGDSPNTDGIHVQQSRNVIIKSSSIKTGD 222
VLVEG KII + PN DGI + + ++I+ TGD
Sbjct: 201 VLVEGVKIINSPMWCIHPVLSENVIIRNIEISSTGPNNDGIDPESCKYMLIEKCRFDTGD 260
Query: 223 DCISIGPG-----------------TNNLWIERVTCGPGHGISIGSLAKDLDEEGVQXXX 265
D + I G +NL I + + G G+ IGS GV+
Sbjct: 261 DSVVIKSGRDADGRRIGVPSEYILVRDNLVISQASHG---GLVIGSEMSG----GVRNVV 313
Query: 266 XXXXXXXXXXXXLRIKSWARPSNGFVRGIRFIDALMQNVQHPII 309
LR+K+ +R G++ I FID + NV +I
Sbjct: 314 ARNNVYMNVERALRLKTNSR-RGGYMENIFFIDNVAVNVSEEVI 356
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 54/255 (21%), Positives = 104/255 (40%), Gaps = 34/255 (13%)
Query: 150 ATTLSITKSNNIRINGLLSLNSQMYHIVINRCQDVLVEGAKIIAAGDSPNTDGIHVQQSR 209
++ +++ N+ + G ++ + +H ++N +V I D+ N DGI S+
Sbjct: 331 SSLMTLRGVENVYLAGF-TVRNPAFHGIMNLENHNVVANGLIHQTYDANNGDGIEFGNSQ 389
Query: 210 NVIIKSSSIKTGDDCISIGPGTNN----------LWIERVTCGPGHGISI-----GSLAK 254
NV++ ++ TGDDCI+ GT W+ GHG + G+ +
Sbjct: 390 NVMVFNNFFDTGDDCINFAAGTGEKAQEQEPMKGAWLFNNYFRMGHGAIVTGSHTGAWIE 449
Query: 255 DLDEEGVQXXXXXXXXXXXXXXXLRIKSWARPSNGFVRGIRFIDALMQNV-QHPIIIDQN 313
D+ E LR KS + G R + F + M+++ + +++ +
Sbjct: 450 DILAEN--------NVMYLTDIGLRAKSTSTIGGG-ARNVTFRNNAMRDLAKQVMVMTLD 500
Query: 314 YCPHNLN-------CPGQISGVKISDVIYQDIRGTSATPIAIKFDCSTKYPCKGIRLHNV 366
Y N N P Q + +V + G + + I IK D + K + + ++NV
Sbjct: 501 YADSNANIDYPPAKIPAQFYDFTLKNVTVDNSTGKNPS-IEIKGDTANKAWHRLVHVNNV 559
Query: 367 HLRHLKQEAKSSCNN 381
L ++ A S +
Sbjct: 560 QLNNVTPTAISDLRD 574
>pdb|4F4O|C Chain C, Structure Of The Haptoglobin-Haemoglobin Complex
pdb|4F4O|F Chain F, Structure Of The Haptoglobin-Haemoglobin Complex
pdb|4F4O|I Chain I, Structure Of The Haptoglobin-Haemoglobin Complex
pdb|4F4O|L Chain L, Structure Of The Haptoglobin-Haemoglobin Complex
Length = 347
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 44/87 (50%), Gaps = 10/87 (11%)
Query: 123 IIGGALDAKGTSLWACKTAAGSNCPNGATTLS----ITKSNNIRINGLLSLNSQ----MY 174
I+GG+LDAKG+ W K + N +GAT ++ +T + N+R+ ++
Sbjct: 103 IMGGSLDAKGSFPWQAKMISHHNLTSGATLINEQWLLTTAKNLRLGHKNDTKAKDIAPTL 162
Query: 175 HIVINRCQDVLVEGAKIIAAGDSPNTD 201
+ + + Q+V +E K+I D+ D
Sbjct: 163 RLYVGKKQEVEIE--KVIFHPDNSTVD 187
>pdb|3VI3|H Chain H, Crystal Structure Of Alpha5beta1 Integrin Headpiece
(Ligand-Free Form)
pdb|3VI3|F Chain F, Crystal Structure Of Alpha5beta1 Integrin Headpiece
(Ligand-Free Form)
pdb|3VI4|H Chain H, Crystal Structure Of Alpha5beta1 Integrin Headpiece In
Complex With Rgd Peptide
pdb|3VI4|F Chain F, Crystal Structure Of Alpha5beta1 Integrin Headpiece In
Complex With Rgd Peptide
Length = 218
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 203 IHVQQSRNVIIKS-SSIKTGDDCISIGPGTNNLWIERVTCGPGHGI 247
+H+QQS ++K +S+K C + G + WIE V PGHG+
Sbjct: 2 VHLQQSGAELMKPGASVKI--SCKATGYTFTSYWIEWVKQRPGHGL 45
>pdb|3OZ9|H Chain H, Crystal Structure Of Anti-Gp41 Fab Nc-1
Length = 219
Score = 28.9 bits (63), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 203 IHVQQSRNVIIKS-SSIKTGDDCISIGPGTNNLWIERVTCGPGHGI 247
+ +QQS ++K SS+K C + G ++ W+E V PGHG+
Sbjct: 2 VQLQQSGTELMKPGSSVKI--SCKATGYRFSSYWVEWVKQRPGHGL 45
>pdb|1FEH|A Chain A, Fe-Only Hydrogenase From Clostridium Pasteurianum
pdb|1C4A|A Chain A, Binding Of Exogenously Added Carbon Monoxide At The Active
Site Of The Fe-Only Hydrogenase (Cpi) From Clostridium
Pasteurianum
pdb|1C4C|A Chain A, Binding Of Exogenously Added Carbon Monoxide At The Active
Site Of The Fe-Only Hydrogenase (Cpi) From Clostridium
Pasteurianum
pdb|3C8Y|A Chain A, 1.39 Angstrom Crystal Structure Of Fe-Only Hydrogenase
Length = 574
Score = 28.9 bits (63), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 35/70 (50%), Gaps = 4/70 (5%)
Query: 145 NCPNGATTLSITKSNNIRINGLLSLNSQMYHIVINRCQ--DVLVEGAKIIAAGDSPNTDG 202
N T L + NNI I+ L LN+ + IN+C+ V VEG ++ A D+ DG
Sbjct: 12 NTDEDTTILKFARDNNIDISALCFLNN--CNNDINKCEICTVEVEGTGLVTACDTLIEDG 69
Query: 203 IHVQQSRNVI 212
+ + + + +
Sbjct: 70 MIINTNSDAV 79
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
0.319 0.136 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,038,934
Number of Sequences: 62578
Number of extensions: 426345
Number of successful extensions: 840
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 817
Number of HSP's gapped (non-prelim): 17
length of query: 396
length of database: 14,973,337
effective HSP length: 101
effective length of query: 295
effective length of database: 8,652,959
effective search space: 2552622905
effective search space used: 2552622905
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)