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= 008293
(571 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XG2|A Chain A, Crystal Structure Of The Complex Between Pectin
Methylesterase And Its Inhibitor Protein
Length = 317
Score = 354 bits (908), Expect = 9e-98, Method: Compositional matrix adjust.
Identities = 173/306 (56%), Positives = 210/306 (68%), Gaps = 5/306 (1%)
Query: 261 NGTADYTTISDAVAAAPNSTDSSSNGYYLIYVAAGVYEEYVSIPKQKKNLMMIGAGKGLT 320
+GT DY T+++AVAAAP+ + + Y+IYV G Y+E V + K NLM++G G T
Sbjct: 10 DGTGDYQTLAEAVAAAPDKSKTR----YVIYVKRGTYKENVEVASNKMNLMIVGDGMYAT 65
Query: 321 VITGNRSYVDGWTTFNTATFAVVGQGFVAVNITFRNTAGPTKHQAVAVRNGADKSTFYSC 380
ITG+ + VDG TTF +AT A VGQGF+ +I +NTAGP K QAVA+R GAD S C
Sbjct: 66 TITGSLNVVDGSTTFRSATLAAVGQGFILQDICIQNTAGPAKDQAVALRVGADMSVINRC 125
Query: 381 SFEGYQDTLYAHSLRQFYRDCDIYGTIDFIFGNAAVVFQNCNMYPRRPLDNQFNAITAQG 440
+ YQDTLYAHS RQFYRD + GT+DFIFGNAAVVFQ C + R+P Q N +TAQG
Sbjct: 126 RIDAYQDTLYAHSQRQFYRDSYVTGTVDFIFGNAAVVFQKCQLVARKPGKYQQNMVTAQG 185
Query: 441 RTDPNQNTGISIHNCTIKAADDLANSINATQTYLGRPWKEYSRTVYMQSFMDSLIDPAGW 500
RTDPNQ TG SI C I A+ DL + TYLGRPWKEYSRTV M+S++ LI+PAGW
Sbjct: 186 RTDPNQATGTSIQFCNIIASSDLEPVLKEFPTYLGRPWKEYSRTVVMESYLGGLINPAGW 245
Query: 501 KEWSGDFALNTTYYAEFSNTGPGSDTTNRVTWPGYHVIND-TDAECFTVSSFIEGDAWLP 559
EW GDFAL T YY EF N GPG+ T+ RV WPGYHVI D A FTV+ I+G +WL
Sbjct: 246 AEWDGDFALKTLYYGEFMNNGPGAGTSKRVKWPGYHVITDPAKAMPFTVAKLIQGGSWLR 305
Query: 560 ETGVPF 565
TGV +
Sbjct: 306 STGVAY 311
>pdb|1GQ8|A Chain A, Pectin Methylesterase From Carrot
Length = 319
Score = 347 bits (890), Expect = 1e-95, Method: Compositional matrix adjust.
Identities = 170/306 (55%), Positives = 218/306 (71%), Gaps = 5/306 (1%)
Query: 261 NGTADYTTISDAVAAAPNSTDSSSNGYYLIYVAAGVYEEYVSIPKQKKNLMMIGAGKGLT 320
+G+ DY T+S+AVAAAP + + Y+I + AGVY E V +PK+KKN+M +G G+ T
Sbjct: 14 DGSGDYKTVSEAVAAAPEDSKTR----YVIRIKAGVYRENVDVPKKKKNIMFLGDGRTST 69
Query: 321 VITGNRSYVDGWTTFNTATFAVVGQGFVAVNITFRNTAGPTKHQAVAVRNGADKSTFYSC 380
+IT +++ DG TTFN+AT A VG GF+A +ITF+NTAG KHQAVA+R G+D S FY C
Sbjct: 70 IITASKNVQDGSTTFNSATVAAVGAGFLARDITFQNTAGAAKHQAVALRVGSDLSAFYRC 129
Query: 381 SFEGYQDTLYAHSLRQFYRDCDIYGTIDFIFGNAAVVFQNCNMYPRRPLDNQFNAITAQG 440
YQD+LY HS RQF+ +C I GT+DFIFGNAAVV Q+C+++ RRP Q N +TAQG
Sbjct: 130 DILAYQDSLYVHSNRQFFINCFIAGTVDFIFGNAAVVLQDCDIHARRPGSGQKNMVTAQG 189
Query: 441 RTDPNQNTGISIHNCTIKAADDLANSINATQTYLGRPWKEYSRTVYMQSFMDSLIDPAGW 500
RTDPNQNTGI I I A DL ++ TYLGRPWKEYSRTV MQS + ++I+PAGW
Sbjct: 190 RTDPNQNTGIVIQKSRIGATSDLQPVQSSFPTYLGRPWKEYSRTVVMQSSITNVINPAGW 249
Query: 501 KEWSGDFALNTTYYAEFSNTGPGSDTTNRVTWPGYHVI-NDTDAECFTVSSFIEGDAWLP 559
W G+FAL+T YY E+ NTG G+ T+ RVTW G+ VI + T+A+ FT SFI G +WL
Sbjct: 250 FPWDGNFALDTLYYGEYQNTGAGAATSGRVTWKGFKVITSSTEAQGFTPGSFIAGGSWLK 309
Query: 560 ETGVPF 565
T PF
Sbjct: 310 ATTFPF 315
>pdb|2NTB|A Chain A, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide V
pdb|2NTB|B Chain B, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide V
pdb|2NTP|A Chain A, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vi
pdb|2NTP|B Chain B, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vi
pdb|2NTQ|A Chain A, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vii
pdb|2NTQ|B Chain B, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vii
Length = 342
Score = 99.0 bits (245), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 82/279 (29%), Positives = 125/279 (44%), Gaps = 51/279 (18%)
Query: 266 YTTISDAVAAAPNSTDSSSNGYYLIYVAAGVYEEYVSIPKQKKNLMMIGAGKGLTVITGN 325
+ TI+DA+A+AP + ++I + GVY E ++I + NL + G + VI
Sbjct: 18 FKTIADAIASAPAGSTP-----FVILIKNGVYNERLTITRN--NLHLKGESRNGAVIAAA 70
Query: 326 ------RSYVDGWTTFNTATFAVVGQGFVAVNITFRN--------------TAGPTKHQA 365
+S W T ++T + + F A ++T RN ++ QA
Sbjct: 71 TAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQA 130
Query: 366 VA--VRNGADKSTFYSCSFEGYQDTLYAHSLRQFYRDCDIYGTIDFIFGNAAVVFQNCNM 423
VA V D++ F S GYQDTLY R F+ DC I GT+DFIFG+ +F NC++
Sbjct: 131 VALYVTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDGTALFNNCDL 190
Query: 424 YPRRPLDNQFNAITA---QGRTDPNQNTGISIHNCTIKAADDLANSINATQTYLGRPW-- 478
R D + ++ T+ NQ G+ I N + D S+ A LGRPW
Sbjct: 191 VSRYRADVKSGNVSGYLTAPSTNINQKYGLVITNSRVIRESD---SVPAKSYGLGRPWHP 247
Query: 479 ------------KEYSRTVYMQSFMDSLIDPAGWKEWSG 505
+TV++ + MD+ I GW + SG
Sbjct: 248 TTTFSDGRYADPNAIGQTVFLNTSMDNHI--YGWDKMSG 284
>pdb|1QJV|A Chain A, Pectin Methylesterase Pema From Erwinia Chrysanthemi
pdb|1QJV|B Chain B, Pectin Methylesterase Pema From Erwinia Chrysanthemi
Length = 342
Score = 99.0 bits (245), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 82/279 (29%), Positives = 125/279 (44%), Gaps = 51/279 (18%)
Query: 266 YTTISDAVAAAPNSTDSSSNGYYLIYVAAGVYEEYVSIPKQKKNLMMIGAGKGLTVITGN 325
+ TI+DA+A+AP + ++I + GVY E ++I + NL + G + VI
Sbjct: 18 FKTIADAIASAPAGSTP-----FVILIKNGVYNERLTITRN--NLHLKGESRNGAVIAAA 70
Query: 326 ------RSYVDGWTTFNTATFAVVGQGFVAVNITFRN--------------TAGPTKHQA 365
+S W T ++T + + F A ++T RN ++ QA
Sbjct: 71 TAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQA 130
Query: 366 VA--VRNGADKSTFYSCSFEGYQDTLYAHSLRQFYRDCDIYGTIDFIFGNAAVVFQNCNM 423
VA V D++ F S GYQDTLY R F+ DC I GT+DFIFG+ +F NC++
Sbjct: 131 VALYVTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDGTALFNNCDL 190
Query: 424 YPRRPLDNQFNAITA---QGRTDPNQNTGISIHNCTIKAADDLANSINATQTYLGRPW-- 478
R D + ++ T+ NQ G+ I N + D S+ A LGRPW
Sbjct: 191 VSRYRADVKSGNVSGYLTAPSTNINQKYGLVITNSRVIRESD---SVPAKSYGLGRPWHP 247
Query: 479 ------------KEYSRTVYMQSFMDSLIDPAGWKEWSG 505
+TV++ + MD+ I GW + SG
Sbjct: 248 TTTFSDGRYADPNAIGQTVFLNTSMDNHI--YGWDKMSG 284
>pdb|2NSP|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide I
pdb|2NSP|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide I
pdb|2NST|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Ii
pdb|2NST|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Ii
pdb|2NT6|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iii
pdb|2NT6|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iii
pdb|2NT9|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iv
pdb|2NT9|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iv
Length = 342
Score = 95.9 bits (237), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 81/279 (29%), Positives = 124/279 (44%), Gaps = 51/279 (18%)
Query: 266 YTTISDAVAAAPNSTDSSSNGYYLIYVAAGVYEEYVSIPKQKKNLMMIGAGKGLTVITGN 325
+ TI+DA+A+AP + ++I + GVY E ++I + NL + G + VI
Sbjct: 18 FKTIADAIASAPAGSTP-----FVILIKNGVYNERLTITRN--NLHLKGESRNGAVIAAA 70
Query: 326 ------RSYVDGWTTFNTATFAVVGQGFVAVNITFRN--------------TAGPTKHQA 365
+S W T ++T + + F A ++T RN ++ QA
Sbjct: 71 TAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQA 130
Query: 366 VA--VRNGADKSTFYSCSFEGYQDTLYAHSLRQFYRDCDIYGTIDFIFGNAAVVFQNCNM 423
VA V D++ F S GYQ TLY R F+ DC I GT+DFIFG+ +F NC++
Sbjct: 131 VALYVTKSGDRAYFKDVSLVGYQATLYVSGGRSFFSDCRISGTVDFIFGDGTALFNNCDL 190
Query: 424 YPRRPLDNQFNAITA---QGRTDPNQNTGISIHNCTIKAADDLANSINATQTYLGRPW-- 478
R D + ++ T+ NQ G+ I N + D S+ A LGRPW
Sbjct: 191 VSRYRADVKSGNVSGYLTAPSTNINQKYGLVITNSRVIRESD---SVPAKSYGLGRPWHP 247
Query: 479 ------------KEYSRTVYMQSFMDSLIDPAGWKEWSG 505
+TV++ + MD+ I GW + SG
Sbjct: 248 TTTFSDGRYADPNAIGQTVFLNTSMDNHI--YGWDKMSG 284
>pdb|3UW0|A Chain A, Pectin Methylesterase From Yersinia Enterocolitica
Length = 364
Score = 90.9 bits (224), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 86/307 (28%), Positives = 139/307 (45%), Gaps = 61/307 (19%)
Query: 265 DYTTISDAVAAAPNSTDSSSNGYYLIYVAAGVYEEYVSIPKQKKNLMMIGAGKGLTVITG 324
++++I+ A+ +AP + ++I++ GVY E + + + ++ + G + TVI
Sbjct: 43 EFSSINAALKSAPKD-----DTPFIIFLKNGVYTERLEV--ARSHVTLKGENRDGTVIGA 95
Query: 325 NRS------YVDGWTTFNTATFAVVGQGFVAVNITFRNT-----------AGPTK---HQ 364
N + + W T ++T V F A N+T RN PTK Q
Sbjct: 96 NTAAGMLNPQGEKWGTSGSSTVLVNAPNFTAENLTIRNDFDFPANKKKADTDPTKLKDTQ 155
Query: 365 AVAV--RNGADKSTFYSCSFEGYQDTLYAHS-LRQFYRDCDIYGTIDFIFGNAAVVFQNC 421
AVA+ +DK+ F + EGYQDTLY+ + R ++ DC+I G +DFIFG+ VF NC
Sbjct: 156 AVALLLAENSDKARFKAVKLEGYQDTLYSKTGSRSYFSDCEISGHVDFIFGSGITVFDNC 215
Query: 422 NMYPRRPLDNQ--FNAITAQGRTDPNQNTGISIHNCTIKAADDLANSINATQTYLGRPWK 479
N+ R D + + ITA + I I++ K ANS LGRPW
Sbjct: 216 NIVARDRSDIEPPYGYITAPSTLTTSPYGLIFINSRLTKEPGVPANSF-----ALGRPWH 270
Query: 480 EYS--------------RTVYMQSFMDSLIDPAGWKEWSGD--------FALNTTYYAEF 517
+ ++V++ + MD I GW + SG F + + E
Sbjct: 271 PTTTFADGRYADPAAIGQSVFINTTMDDHI--YGWDKMSGKDKQGEKIWFYPQDSRFFEA 328
Query: 518 SNTGPGS 524
++ GPG+
Sbjct: 329 NSQGPGA 335
>pdb|3GRH|A Chain A, Crystal Structure Of Escherichia Coli Ybhc
Length = 422
Score = 35.4 bits (80), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 39/101 (38%), Gaps = 16/101 (15%)
Query: 337 TATFAVVGQGFVAVNITFRNTAGPT----KHQAVAVRNGADKSTFYSCSFEGYQDTLYA- 391
+A F G N+T NT G + H AVA+R D+ + + G Q+T +
Sbjct: 193 SAVFWSQNNGLQLQNLTIENTLGDSVDAGNHPAVALRTDGDQVQINNVNILGRQNTFFVT 252
Query: 392 -----------HSLRQFYRDCDIYGTIDFIFGNAAVVFQNC 421
R + I G +D + G AVVF N
Sbjct: 253 NSGVQNRLETNRQPRTLVTNSYIEGDVDIVSGRGAVVFDNT 293
>pdb|3FM2|A Chain A, Crystal Structure Of A Putative Heme-binding Protein
(ava_4353) From Anabaena Variabilis Atcc 29413 At 1.80 A
Resolution
pdb|3FM2|B Chain B, Crystal Structure Of A Putative Heme-binding Protein
(ava_4353) From Anabaena Variabilis Atcc 29413 At 1.80 A
Resolution
Length = 135
Score = 30.8 bits (68), Expect = 2.0, Method: Composition-based stats.
Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 5/63 (7%)
Query: 391 AHSLRQFYRDCDIYGTIDFIFGNAAVVFQNCNMYPRRPLDNQFNAITAQGRTDPNQNTGI 450
+HSL+ F C+ GT+ I ++A V + R ++ F A A+G+ G
Sbjct: 3 SHSLKDFLEACETLGTLRLIVTSSAAVLE-----ARGKIEKLFYAELAKGKYANXHTEGF 57
Query: 451 SIH 453
H
Sbjct: 58 EFH 60
>pdb|1KS8|A Chain A, The Structure Of Endoglucanase From Termite, Nasutitermes
Takasagoensis, At Ph 2.5.
pdb|1KSC|A Chain A, The Structure Of Endoglucanase From Termite, Nasutitermes
Takasagoensis, At Ph 5.6.
pdb|1KSD|A Chain A, The Structure Of Endoglucanase From Termite, Nasutitermes
Takasagoensis, At Ph 6.5
Length = 433
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 45/106 (42%), Gaps = 17/106 (16%)
Query: 65 GRYSVHQSLSVARKFQSLVDH-----------YRKLPSTSYLSTIRALEDCSLL----AG 109
G+YS S++ AR F + D+ YR +YL+T +L D L G
Sbjct: 193 GKYS--DSITDARNFYASADYRDELVWAAAWLYRATNDNTYLNTAESLYDEFGLQNWGGG 250
Query: 110 MNVDSLSHASNTINSTNTLHSLQADDLHTLLSALLTNQQTCLDGLL 155
+N DS + + T D + + ++ L+ NQQ GLL
Sbjct: 251 LNWDSKVSGVQVLLAKLTNKQAYKDTVQSYVNYLINNQQKTPKGLL 296
>pdb|1G6E|A Chain A, Antifungal Protein From Streptomyces Tendae Tu901, 30-
Conformers Ensemble
pdb|1GH5|A Chain A, Antifungal Protein From Streptomyces Tendae Tu901, Nmr
Average Structure
Length = 87
Score = 29.3 bits (64), Expect = 6.5, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 27/71 (38%), Gaps = 7/71 (9%)
Query: 441 RTDPNQNTGISIHNCTIKAADDLANSINATQTYLGRPWKEYSRTVYMQSFMDSLIDP--- 497
RTD N+N+ + IHN + AN+ G W E V F +L DP
Sbjct: 4 RTDCNENSYLEIHNNEGRDTLCFANAGTMPVAIYGVNWVESGNNVVTLQFQRNLSDPRLE 63
Query: 498 ----AGWKEWS 504
W W+
Sbjct: 64 TITLQKWGSWN 74
>pdb|3R4S|A Chain A, Cell Entry Of Botulinum Neurotoxin Type C Is Dependent
Upon Interaction With Two Ganglioside Molecules
pdb|3R4S|B Chain B, Cell Entry Of Botulinum Neurotoxin Type C Is Dependent
Upon Interaction With Two Ganglioside Molecules
pdb|3R4U|A Chain A, Cell Entry Of Botulinum Neurotoxin Type C Is Dependent
Upon Interaction With Two Ganglioside Molecules
pdb|3R4U|B Chain B, Cell Entry Of Botulinum Neurotoxin Type C Is Dependent
Upon Interaction With Two Ganglioside Molecules
Length = 443
Score = 28.9 bits (63), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 17/80 (21%), Positives = 39/80 (48%), Gaps = 3/80 (3%)
Query: 482 SRTVYMQSFMDSLIDPAGWK---EWSGDFALNTTYYAEFSNTGPGSDTTNRVTWPGYHVI 538
S+ + +Q+ ++L+D +G+ GD LN + +F G D + +++
Sbjct: 11 SKILSLQNRKNTLVDTSGYNAEVSEEGDVQLNPIFPFDFKLGSSGEDRGKVIVTQNENIV 70
Query: 539 NDTDAECFTVSSFIEGDAWL 558
++ E F++S +I + W+
Sbjct: 71 YNSMYESFSISFWIRINKWV 90
>pdb|3N7K|A Chain A, Crystal Structure Of Botulinum Neurotoxin Serotype C1
Binding Domain
pdb|3N7K|B Chain B, Crystal Structure Of Botulinum Neurotoxin Serotype C1
Binding Domain
Length = 426
Score = 28.5 bits (62), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 17/80 (21%), Positives = 39/80 (48%), Gaps = 3/80 (3%)
Query: 482 SRTVYMQSFMDSLIDPAGWK---EWSGDFALNTTYYAEFSNTGPGSDTTNRVTWPGYHVI 538
S+ + +Q+ ++L+D +G+ GD LN + +F G D + +++
Sbjct: 6 SKILSLQNRKNTLVDTSGYNAEVSEEGDVQLNPIFPFDFKLGSSGEDRGKVIVTQNENIV 65
Query: 539 NDTDAECFTVSSFIEGDAWL 558
++ E F++S +I + W+
Sbjct: 66 YNSMYESFSISFWIRINKWV 85
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 0.132 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,959,130
Number of Sequences: 62578
Number of extensions: 704523
Number of successful extensions: 1411
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1391
Number of HSP's gapped (non-prelim): 12
length of query: 571
length of database: 14,973,337
effective HSP length: 104
effective length of query: 467
effective length of database: 8,465,225
effective search space: 3953260075
effective search space used: 3953260075
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)