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= 046043
(316 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GQ8|A Chain A, Pectin Methylesterase From Carrot
Length = 319
Score = 169 bits (429), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 99/308 (32%), Positives = 158/308 (51%), Gaps = 21/308 (6%)
Query: 22 IKVDINGDGDFKSIQDAINAVPKGNPNWIIIHVRKGVYREKVYIPEDKPYIFMRGNGKGK 81
+ V +G GD+K++ +A+ A P+ + +I ++ GVYRE V +P+ K I G+G+
Sbjct: 9 VVVAADGSGDYKTVSEAVAAAPEDSKTRYVIRIKAGVYRENVDVPKKKKNIMFLGDGRTS 68
Query: 82 TAIVWS---QSATNNKDSATFSVEAPHFIAFGISFKNEAPTGVAFTSQNQSVAAFVGADM 138
T I S Q + +SAT + F+A I+F+N A +++Q+VA VG+D+
Sbjct: 69 TIITASKNVQDGSTTFNSATVAAVGAGFLARDITFQNTAGA-----AKHQAVALRVGSDL 123
Query: 139 NAFYHCAFYSTHNTLFDYKGRHYYHNCYIQGSIDFIFGRGRSIFQNCEIFVIDDKRVKIH 198
+AFY C + ++L+ + R ++ NC+I G++DFIFG + Q+C+I +
Sbjct: 124 SAFYRCDILAYQDSLYVHSNRQFFINCFIAGTVDFIFGNAAVVLQDCDIHARRPGSGQ-K 182
Query: 199 GSITAQNREDNTDNSGFVFIEGKVYGTGDV---------YLGRAKGAYSRVVFAKTYLSR 249
+TAQ R D N+G V + ++ T D+ YLGR YSR V ++ ++
Sbjct: 183 NMVTAQGRTDPNQNTGIVIQKSRIGATSDLQPVQSSFPTYLGRPWKEYSRTVVMQSSITN 242
Query: 250 TIVPHGWTNWSYVGSTDNLFQAEYRCHGPGAEAKHRVPWSK---QLSDQEAEKFMSIDFV 306
I P GW W + D L+ EY+ G GA RV W S EA+ F F+
Sbjct: 243 VINPAGWFPWDGNFALDTLYYGEYQNTGAGAATSGRVTWKGFKVITSSTEAQGFTPGSFI 302
Query: 307 DGKNWLPA 314
G +WL A
Sbjct: 303 AGGSWLKA 310
>pdb|1XG2|A Chain A, Crystal Structure Of The Complex Between Pectin
Methylesterase And Its Inhibitor Protein
Length = 317
Score = 139 bits (349), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 86/301 (28%), Positives = 143/301 (47%), Gaps = 21/301 (6%)
Query: 27 NGDGDFKSIQDAINAVPKGNPNWIIIHVRKGVYREKVYIPEDKPYIFMRGNGKGKTAIVW 86
+G GD++++ +A+ A P + +I+V++G Y+E V + +K + + G+G T I
Sbjct: 10 DGTGDYQTLAEAVAAAPDKSKTRYVIYVKRGTYKENVEVASNKMNLMIVGDGMYATTITG 69
Query: 87 SQSATNNKD---SATFSVEAPHFIAFGISFKNEAPTGVAFTSQNQSVAAFVGADMNAFYH 143
S + + SAT + FI I +N A +++Q+VA VGADM+
Sbjct: 70 SLNVVDGSTTFRSATLAAVGQGFILQDICIQNTAGP-----AKDQAVALRVGADMSVINR 124
Query: 144 CAFYSTHNTLFDYKGRHYYHNCYIQGSIDFIFGRGRSIFQNCEIFVIDDKRVKIHGSITA 203
C + +TL+ + R +Y + Y+ G++DFIFG +FQ C++ + + +TA
Sbjct: 125 CRIDAYQDTLYAHSQRQFYRDSYVTGTVDFIFGNAAVVFQKCQLVARKPGKYQ-QNMVTA 183
Query: 204 QNREDNTDNSGFVFIEGKVYGTGDV---------YLGRAKGAYSRVVFAKTYLSRTIVPH 254
Q R D +G + + D+ YLGR YSR V ++YL I P
Sbjct: 184 QGRTDPNQATGTSIQFCNIIASSDLEPVLKEFPTYLGRPWKEYSRTVVMESYLGGLINPA 243
Query: 255 GWTNWSYVGSTDNLFQAEYRCHGPGAEAKHRVPWS--KQLSD-QEAEKFMSIDFVDGKNW 311
GW W + L+ E+ +GPGA RV W ++D +A F + G +W
Sbjct: 244 GWAEWDGDFALKTLYYGEFMNNGPGAGTSKRVKWPGYHVITDPAKAMPFTVAKLIQGGSW 303
Query: 312 L 312
L
Sbjct: 304 L 304
>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 = 75.5 bits (184), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 83/335 (24%), Positives = 146/335 (43%), Gaps = 66/335 (19%)
Query: 32 FKSIQDAINAVPKGNPNWIIIHVRKGVYREKVYIPEDKPYIFMRGNGKGKTAIVWSQSAT 91
FK+I DAI + P G+ ++I+ ++ GVY E++ I + + ++G + I + +A
Sbjct: 18 FKTIADAIASAPAGSTPFVIL-IKNGVYNERLTITRNN--LHLKGESRNGAVIAAATAAG 74
Query: 92 NNKD---------SATFSVEAPHFIAFGISFKNE---------APTGVAFTSQNQSVAAF 133
K S+T ++ A F A ++ +N+ + + + Q+VA +
Sbjct: 75 TLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQAVALY 134
Query: 134 V--GADMNAFYHCAFYSTHNTLFDYKGRHYYHNCYIQGSIDFIFGRGRSIFQNCEI---F 188
V D F + +TL+ GR ++ +C I G++DFIFG G ++F NC++ +
Sbjct: 135 VTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDGTALFNNCDLVSRY 194
Query: 189 VIDDKRVKIHGSITAQNREDNTDNSGFVFIEGKVYGTGDVY------LGR--------AK 234
D K + G +TA + N G V +V D LGR +
Sbjct: 195 RADVKSGNVSGYLTAPSTNIN-QKYGLVITNSRVIRESDSVPAKSYGLGRPWHPTTTFSD 253
Query: 235 GAYS------RVVFAKTYLSRTIVPHGWTNWS---------YVGSTDNLFQAEYRCHGPG 279
G Y+ + VF T + I +GW S + D+ F EY+ +G G
Sbjct: 254 GRYADPNAIGQTVFLNTSMDNHI--YGWDKMSGKDKNGNTIWFNPEDSRF-FEYKSYGAG 310
Query: 280 AE-AKHRVPWSKQLSDQEAEKFMSIDFVDGKNWLP 313
A +K R +QL+D +A ++ + +W P
Sbjct: 311 ATVSKDR----RQLTDAQAAEYTQSKVL--GDWTP 339
>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 = 75.1 bits (183), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 83/335 (24%), Positives = 146/335 (43%), Gaps = 66/335 (19%)
Query: 32 FKSIQDAINAVPKGNPNWIIIHVRKGVYREKVYIPEDKPYIFMRGNGKGKTAIVWSQSAT 91
FK+I DAI + P G+ ++I+ ++ GVY E++ I + + ++G + I + +A
Sbjct: 18 FKTIADAIASAPAGSTPFVIL-IKNGVYNERLTITRNN--LHLKGESRNGAVIAAATAAG 74
Query: 92 NNKD---------SATFSVEAPHFIAFGISFKNE---------APTGVAFTSQNQSVAAF 133
K S+T ++ A F A ++ +N+ + + + Q+VA +
Sbjct: 75 TLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQAVALY 134
Query: 134 V--GADMNAFYHCAFYSTHNTLFDYKGRHYYHNCYIQGSIDFIFGRGRSIFQNCEI---F 188
V D F + +TL+ GR ++ +C I G++DFIFG G ++F NC++ +
Sbjct: 135 VTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDGTALFNNCDLVSRY 194
Query: 189 VIDDKRVKIHGSITAQNREDNTDNSGFVFIEGKVYGTGDVY------LGR--------AK 234
D K + G +TA + N G V +V D LGR +
Sbjct: 195 RADVKSGNVSGYLTAPSTNIN-QKYGLVITNSRVIRESDSVPAKSYGLGRPWHPTTTFSD 253
Query: 235 GAYS------RVVFAKTYLSRTIVPHGWTNWS---------YVGSTDNLFQAEYRCHGPG 279
G Y+ + VF T + I +GW S + D+ F EY+ +G G
Sbjct: 254 GRYADPNAIGQTVFLNTSMDNHI--YGWDKMSGKDKNGNTIWFNPEDSRF-FEYKSYGAG 310
Query: 280 AE-AKHRVPWSKQLSDQEAEKFMSIDFVDGKNWLP 313
A +K R +QL+D +A ++ + +W P
Sbjct: 311 AAVSKDR----RQLTDAQAAEYTQSKVL--GDWTP 339
>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 = 73.9 bits (180), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 83/335 (24%), Positives = 145/335 (43%), Gaps = 66/335 (19%)
Query: 32 FKSIQDAINAVPKGNPNWIIIHVRKGVYREKVYIPEDKPYIFMRGNGKGKTAIVWSQSAT 91
FK+I DAI + P G+ ++I+ ++ GVY E++ I + + ++G + I + +A
Sbjct: 18 FKTIADAIASAPAGSTPFVIL-IKNGVYNERLTITRNN--LHLKGESRNGAVIAAATAAG 74
Query: 92 NNKD---------SATFSVEAPHFIAFGISFKNE---------APTGVAFTSQNQSVAAF 133
K S+T ++ A F A ++ +N+ + + + Q+VA +
Sbjct: 75 TLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQAVALY 134
Query: 134 V--GADMNAFYHCAFYSTHNTLFDYKGRHYYHNCYIQGSIDFIFGRGRSIFQNCEI---F 188
V D F + TL+ GR ++ +C I G++DFIFG G ++F NC++ +
Sbjct: 135 VTKSGDRAYFKDVSLVGYQATLYVSGGRSFFSDCRISGTVDFIFGDGTALFNNCDLVSRY 194
Query: 189 VIDDKRVKIHGSITAQNREDNTDNSGFVFIEGKVYGTGDVY------LGR--------AK 234
D K + G +TA + N G V +V D LGR +
Sbjct: 195 RADVKSGNVSGYLTAPSTNIN-QKYGLVITNSRVIRESDSVPAKSYGLGRPWHPTTTFSD 253
Query: 235 GAYS------RVVFAKTYLSRTIVPHGWTNWS---------YVGSTDNLFQAEYRCHGPG 279
G Y+ + VF T + I +GW S + D+ F EY+ +G G
Sbjct: 254 GRYADPNAIGQTVFLNTSMDNHI--YGWDKMSGKDKNGNTIWFNPEDSRF-FEYKSYGAG 310
Query: 280 AE-AKHRVPWSKQLSDQEAEKFMSIDFVDGKNWLP 313
A +K R +QL+D +A ++ + +W P
Sbjct: 311 ATVSKDR----RQLTDAQAAEYTQSKVL--GDWTP 339
>pdb|3UW0|A Chain A, Pectin Methylesterase From Yersinia Enterocolitica
Length = 364
Score = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 61/226 (26%), Positives = 103/226 (45%), Gaps = 27/226 (11%)
Query: 19 NRTIKVDINGDGDFKSIQDAINAVPKGNPNWIIIHVRKGVYREKVYIPEDKPYIFMRGNG 78
N + GD +F SI A+ + PK + +II ++ GVY E++ + + ++ ++G
Sbjct: 32 NAVVSTTPQGD-EFSSINAALKSAPKDDTPFIIF-LKNGVYTERLEVA--RSHVTLKGEN 87
Query: 79 KGKTAIVWSQSAT---------NNKDSATFSVEAPHFIAFGISFKNE---------APTG 120
+ T I + +A S+T V AP+F A ++ +N+ A T
Sbjct: 88 RDGTVIGANTAAGMLNPQGEKWGTSGSSTVLVNAPNFTAENLTIRNDFDFPANKKKADTD 147
Query: 121 VAFTSQNQSVAAFVG--ADMNAFYHCAFYSTHNTLFDYKG-RHYYHNCYIQGSIDFIFGR 177
Q+VA + +D F +TL+ G R Y+ +C I G +DFIFG
Sbjct: 148 PTKLKDTQAVALLLAENSDKARFKAVKLEGYQDTLYSKTGSRSYFSDCEISGHVDFIFGS 207
Query: 178 GRSIFQNCEIFVIDDKRVK-IHGSITAQNREDNTDNSGFVFIEGKV 222
G ++F NC I D ++ +G ITA + T G +FI ++
Sbjct: 208 GITVFDNCNIVARDRSDIEPPYGYITAPSTL-TTSPYGLIFINSRL 252
>pdb|3GRH|A Chain A, Crystal Structure Of Escherichia Coli Ybhc
Length = 422
Score = 34.7 bits (78), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 159 RHYYHNCYIQGSIDFIFGRGRSIFQNCEIFVIDDK 193
R N YI+G +D + GRG +F N E V++ +
Sbjct: 267 RTLVTNSYIEGDVDIVSGRGAVVFDNTEFRVVNSR 301
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 33.1 bits (74), Expect = 0.22, Method: Composition-based stats.
Identities = 20/77 (25%), Positives = 34/77 (44%), Gaps = 4/77 (5%)
Query: 214 GFVFIEGKVYGTGDVYLGRAKGAYSRVVFAKTYLSRTIVPHGWTNWSYVGSTDNLFQAEY 273
G F GK+ G VY + ++ A+T L VPHG++ Y D F + Y
Sbjct: 2306 GSQFFTGKISGVWSVYCTFLLSWFHALITARTRL----VPHGFSKKYYFNDCDFQFASVY 2361
Query: 274 RCHGPGAEAKHRVPWSK 290
+ + + +PW++
Sbjct: 2362 LENVLATNSTNNIPWAQ 2378
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 32.7 bits (73), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 34/77 (44%), Gaps = 4/77 (5%)
Query: 214 GFVFIEGKVYGTGDVYLGRAKGAYSRVVFAKTYLSRTIVPHGWTNWSYVGSTDNLFQAEY 273
G F GK+ G VY + ++ A+T L VPHG++ Y D F + Y
Sbjct: 2515 GSQFFTGKISGVWSVYCTFLLSWFHALITARTRL----VPHGFSKKYYFNDCDFQFASVY 2570
Query: 274 RCHGPGAEAKHRVPWSK 290
+ + + +PW++
Sbjct: 2571 LENVLATNSTNNIPWAQ 2587
>pdb|3MZS|A Chain A, Crystal Structure Of Cytochrome P450 Cyp11a1 In Complex
With 22- Hydroxy-Cholesterol
pdb|3MZS|B Chain B, Crystal Structure Of Cytochrome P450 Cyp11a1 In Complex
With 22- Hydroxy-Cholesterol
pdb|3MZS|C Chain C, Crystal Structure Of Cytochrome P450 Cyp11a1 In Complex
With 22- Hydroxy-Cholesterol
pdb|3MZS|D Chain D, Crystal Structure Of Cytochrome P450 Cyp11a1 In Complex
With 22- Hydroxy-Cholesterol
Length = 486
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 42/107 (39%), Gaps = 13/107 (12%)
Query: 56 KGVYREKVYIPEDKPYIFMRGNGKGKTAIVWSQSATNNKDSATFSVE--APHFIAFGISF 113
+G Y E+ IP P++ + +++ +S T KD + E AP I I
Sbjct: 76 EGSYPERYDIP---PWLAYHRYYQKPIGVLFKKSGTWKKDRVVLNTEVMAPEAIKNFIPL 132
Query: 114 KNEAPTGVAFTS------QNQSVAAFVGADMNAFYHCAFYSTHNTLF 154
N P F S + Q FVG +H AF S N +F
Sbjct: 133 LN--PVSQDFVSLLHKRIKQQGSGKFVGDIKEDLFHFAFESITNVMF 177
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
0.320 0.136 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,628,736
Number of Sequences: 62578
Number of extensions: 482503
Number of successful extensions: 910
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 893
Number of HSP's gapped (non-prelim): 10
length of query: 316
length of database: 14,973,337
effective HSP length: 99
effective length of query: 217
effective length of database: 8,778,115
effective search space: 1904850955
effective search space used: 1904850955
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: 51 (24.3 bits)