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= 038332
(335 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 = 135 bits (340), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 90/291 (30%), Positives = 129/291 (44%), Gaps = 27/291 (9%)
Query: 30 GSNVAYTVTVDQSSSQYRTVQSAIDSIPAENNQWIKVHIKAGTYKEKVKIQRNKPCILLE 89
G NV V S Y+TV A+ + P ++ + IKAG Y+E V + + K I+
Sbjct: 6 GPNV---VVAADGSGDYKTVSEAVAAAPEDSKTRYVIRIKAGVYRENVDVPKKKKNIMFL 62
Query: 90 GEGSGVTKIT----YDDHQXXXXXXXXXXXXXNVVAKGITFEVEGRDLGTLQAGNDITQA 145
G+G T IT D +A+ ITF+ AG QA
Sbjct: 63 GDGRTSTIITASKNVQDGSTTFNSATVAAVGAGFLARDITFQNT--------AGAAKHQA 114
Query: 146 LAARIYGDKSAFYDCRFLGVQDTLWDVQGRHFFKSCYIEGAIDFIFGNGQSVYEDCSVNS 205
+A R+ D SAFY C L QD+L+ R FF +C+I G +DFIFGN V +DC +++
Sbjct: 115 VALRVGSDLSAFYRCDILAYQDSLYVHSNRQFFINCFIAGTVDFIFGNAAVVLQDCDIHA 174
Query: 206 TAGLLIGGRGSGYITAQSRGSANDPGGFVFRGGEVTGTGQ---------AYLGRAYGPYS 256
G +TAQ R N G V + + T YLGR + YS
Sbjct: 175 RRP---GSGQKNMVTAQGRTDPNQNTGIVIQKSRIGATSDLQPVQSSFPTYLGRPWKEYS 231
Query: 257 RVIFYNAWLSSVVTPPGWNAWNLQGQEGNFMYAEVNCKGPGSDTSNRVSWE 307
R + + +++V+ P GW W+ Y E G G+ TS RV+W+
Sbjct: 232 RTVVMQSSITNVINPAGWFPWDGNFALDTLYYGEYQNTGAGAATSGRVTWK 282
>pdb|1XG2|A Chain A, Crystal Structure Of The Complex Between Pectin
Methylesterase And Its Inhibitor Protein
Length = 317
Score = 119 bits (298), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 82/310 (26%), Positives = 130/310 (41%), Gaps = 19/310 (6%)
Query: 33 VAYTVTVDQSSSQYRTVQSAIDSIPAENNQWIKVHIKAGTYKEKVKIQRNKPCILLEGEG 92
+A V + Y+T+ A+ + P ++ +++K GTYKE V++ NK +++ G+G
Sbjct: 2 IANAVVAQDGTGDYQTLAEAVAAAPDKSKTRYVIYVKRGTYKENVEVASNKMNLMIVGDG 61
Query: 93 SGVTKITYDDHQXXXXXXXXXXXXXNVVAKGITFEVEGRDLGTLQAGNDITQALAARIYG 152
T IT + A G F ++ + AG QA+A R+
Sbjct: 62 MYATTIT---GSLNVVDGSTTFRSATLAAVGQGFILQDICIQN-TAGPAKDQAVALRVGA 117
Query: 153 DKSAFYDCRFLGVQDTLWDVQGRHFFKSCYIEGAIDFIFGNGQSVYEDCSVNSTAGLLIG 212
D S CR QDTL+ R F++ Y+ G +DFIFGN V++ C + + G
Sbjct: 118 DMSVINRCRIDAYQDTLYAHSQRQFYRDSYVTGTVDFIFGNAAVVFQKCQLVARKP---G 174
Query: 213 GRGSGYITAQSRGSANDPGGFVFRGGEVTGTGQ---------AYLGRAYGPYSRVIFYNA 263
+TAQ R N G + + + YLGR + YSR + +
Sbjct: 175 KYQQNMVTAQGRTDPNQATGTSIQFCNIIASSDLEPVLKEFPTYLGRPWKEYSRTVVMES 234
Query: 264 WLSSVVTPPGWNAWNLQGQEGNFMYAEVNCKGPGSDTSNRVSW---EKKIDPKLLYKYST 320
+L ++ P GW W+ Y E GPG+ TS RV W DP ++
Sbjct: 235 YLGGLINPAGWAEWDGDFALKTLYYGEFMNNGPGAGTSKRVKWPGYHVITDPAKAMPFTV 294
Query: 321 SYFINQDGWI 330
+ I W+
Sbjct: 295 AKLIQGGSWL 304
>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 = 75.9 bits (185), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 70/244 (28%), Positives = 106/244 (43%), Gaps = 28/244 (11%)
Query: 33 VAYTVTVDQSSSQ---YRTVQSAIDSIPAENNQWIKVHIKAGTYKEKVKIQRNKPCILLE 89
Y V +SSS ++T+ AI S PA + ++ + IK G Y E++ I RN + L+
Sbjct: 2 TTYNAVVSKSSSDGKTFKTIADAIASAPAGSTPFV-ILIKNGVYNERLTITRNN--LHLK 58
Query: 90 GEGSGVTKITYDDHQX----------XXXXXXXXXXXXNVVAKGITFEVEGRDLGTLQAG 139
GE I + A+ +T + D QA
Sbjct: 59 GESRNGAVIAAATAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRND-FDFPANQAK 117
Query: 140 NDI-------TQALAARIY--GDKSAFYDCRFLGVQDTLWDVQGRHFFKSCYIEGAIDFI 190
+D TQA+A + GD++ F D +G QDTL+ GR FF C I G +DFI
Sbjct: 118 SDSDSSKIKDTQAVALYVTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFI 177
Query: 191 FGNGQSVYEDCS-VNSTAGLLIGGRGSGYITAQSRGSANDPGGFVFRGGEVTGTGQAYLG 249
FG+G +++ +C V+ + G SGY+TA S + N G V V +
Sbjct: 178 FGDGTALFNNCDLVSRYRADVKSGNVSGYLTAPST-NINQKYGLVITNSRVIRESDSVPA 236
Query: 250 RAYG 253
++YG
Sbjct: 237 KSYG 240
>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 = 75.9 bits (185), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 70/244 (28%), Positives = 106/244 (43%), Gaps = 28/244 (11%)
Query: 33 VAYTVTVDQSSSQ---YRTVQSAIDSIPAENNQWIKVHIKAGTYKEKVKIQRNKPCILLE 89
Y V +SSS ++T+ AI S PA + ++ + IK G Y E++ I RN + L+
Sbjct: 2 TTYNAVVSKSSSDGKTFKTIADAIASAPAGSTPFV-ILIKNGVYNERLTITRNN--LHLK 58
Query: 90 GEGSGVTKITYDDHQX----------XXXXXXXXXXXXNVVAKGITFEVEGRDLGTLQAG 139
GE I + A+ +T + D QA
Sbjct: 59 GESRNGAVIAAATAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRND-FDFPANQAK 117
Query: 140 NDI-------TQALAARIY--GDKSAFYDCRFLGVQDTLWDVQGRHFFKSCYIEGAIDFI 190
+D TQA+A + GD++ F D +G QDTL+ GR FF C I G +DFI
Sbjct: 118 SDSDSSKIKDTQAVALYVTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFI 177
Query: 191 FGNGQSVYEDCS-VNSTAGLLIGGRGSGYITAQSRGSANDPGGFVFRGGEVTGTGQAYLG 249
FG+G +++ +C V+ + G SGY+TA S + N G V V +
Sbjct: 178 FGDGTALFNNCDLVSRYRADVKSGNVSGYLTAPST-NINQKYGLVITNSRVIRESDSVPA 236
Query: 250 RAYG 253
++YG
Sbjct: 237 KSYG 240
>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 = 72.8 bits (177), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 69/244 (28%), Positives = 105/244 (43%), Gaps = 28/244 (11%)
Query: 33 VAYTVTVDQSSSQ---YRTVQSAIDSIPAENNQWIKVHIKAGTYKEKVKIQRNKPCILLE 89
Y V +SSS ++T+ AI S PA + ++ + IK G Y E++ I RN + L+
Sbjct: 2 TTYNAVVSKSSSDGKTFKTIADAIASAPAGSTPFV-ILIKNGVYNERLTITRNN--LHLK 58
Query: 90 GEGSGVTKITYDDHQX----------XXXXXXXXXXXXNVVAKGITFEVEGRDLGTLQAG 139
GE I + A+ +T + D QA
Sbjct: 59 GESRNGAVIAAATAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRND-FDFPANQAK 117
Query: 140 NDI-------TQALAARIY--GDKSAFYDCRFLGVQDTLWDVQGRHFFKSCYIEGAIDFI 190
+D TQA+A + GD++ F D +G Q TL+ GR FF C I G +DFI
Sbjct: 118 SDSDSSKIKDTQAVALYVTKSGDRAYFKDVSLVGYQATLYVSGGRSFFSDCRISGTVDFI 177
Query: 191 FGNGQSVYEDCS-VNSTAGLLIGGRGSGYITAQSRGSANDPGGFVFRGGEVTGTGQAYLG 249
FG+G +++ +C V+ + G SGY+TA S + N G V V +
Sbjct: 178 FGDGTALFNNCDLVSRYRADVKSGNVSGYLTAPST-NINQKYGLVITNSRVIRESDSVPA 236
Query: 250 RAYG 253
++YG
Sbjct: 237 KSYG 240
>pdb|3UW0|A Chain A, Pectin Methylesterase From Yersinia Enterocolitica
Length = 364
Score = 64.7 bits (156), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 77/337 (22%), Positives = 138/337 (40%), Gaps = 64/337 (18%)
Query: 8 LIVFTLLSTISFRAARADQDCKGSNVAYTVTVDQSSSQYRTVQSAIDSIPAENNQWIKVH 67
LI F +L T++ A V+ ++ ++ +A+ S P ++ +I +
Sbjct: 17 LISFAVLGTVNAAQYNA-----------VVSTTPQGDEFSSINAALKSAPKDDTPFI-IF 64
Query: 68 IKAGTYKEKVKIQRNKPCILLEGEGSGVTKITYD----------DHQXXXXXXXXXXXXX 117
+K G Y E++++ R+ + L+GE T I + +
Sbjct: 65 LKNGVYTERLEVARSH--VTLKGENRDGTVIGANTAAGMLNPQGEKWGTSGSSTVLVNAP 122
Query: 118 NVVAKGIT------FEVEGRDLGTLQAGNDITQALAARIY--GDKSAFYDCRFLGVQDTL 169
N A+ +T F + T TQA+A + DK+ F + G QDTL
Sbjct: 123 NFTAENLTIRNDFDFPANKKKADTDPTKLKDTQAVALLLAENSDKARFKAVKLEGYQDTL 182
Query: 170 WDVQG-RHFFKSCYIEGAIDFIFGNGQSVYEDCSVNSTAGLLIGGRGSGYITAQSRGSAN 228
+ G R +F C I G +DFIFG+G +V+++C++ + I GYITA S + +
Sbjct: 183 YSKTGSRSYFSDCEISGHVDFIFGSGITVFDNCNIVARDRSDI-EPPYGYITAPSTLTTS 241
Query: 229 DPGGFVFRGGEVT-----GTGQAYLGRAYGPYS--------------RVIFYNAWLSSVV 269
P G +F +T LGR + P + + +F N + +
Sbjct: 242 -PYGLIFINSRLTKEPGVPANSFALGRPWHPTTTFADGRYADPAAIGQSVFINTTMDDHI 300
Query: 270 TPPGWNAWNLQGQEGNFM--------YAEVNCKGPGS 298
GW+ + + ++G + + E N +GPG+
Sbjct: 301 Y--GWDKMSGKDKQGEKIWFYPQDSRFFEANSQGPGA 335
>pdb|3GRH|A Chain A, Crystal Structure Of Escherichia Coli Ybhc
Length = 422
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 36/79 (45%), Gaps = 14/79 (17%)
Query: 135 TLQAGNDITQALAARIYGDKSAFYDCRFLGVQDTLW------------DVQGRHFFKSCY 182
++ AGN A+A R GD+ + LG Q+T + + Q R + Y
Sbjct: 217 SVDAGNH--PAVALRTDGDQVQINNVNILGRQNTFFVTNSGVQNRLETNRQPRTLVTNSY 274
Query: 183 IEGAIDFIFGNGQSVYEDC 201
IEG +D + G G V+++
Sbjct: 275 IEGDVDIVSGRGAVVFDNT 293
>pdb|1UTJ|A Chain A, Trypsin Specificity As Elucidated By Lie Calculations,
X-Ray Structures And Association Constant Measurements
pdb|1UTK|A Chain A, Trypsin Specificity As Elucidated By Lie Calculations,
X-Ray Structures And Association Constant Measurements
pdb|1UTL|M Chain M, Trypsin Specificity As Elucidated By Lie Calculations,
X-Ray Structures And Association Constant Measurements
pdb|1UTM|A Chain A, Trypsin Specificity As Elucidated By Lie Calculations,
X-Ray Structures And Association Constant Measurements
Length = 242
Score = 31.6 bits (70), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 36/78 (46%), Gaps = 8/78 (10%)
Query: 198 YEDCSVNSTAGLLIGGR-GSGYITAQSRGSANDPGGFVFRGGEVTGT-----GQAYLGRA 251
Y DC+ NS G++ +GY+ D GG V GE+ G G A G
Sbjct: 164 YSDCN-NSYPGMITNAMFCAGYLEGGKDSCQGDSGGPVVCNGELQGVVSWGYGCAEPGNP 222
Query: 252 YGPYSRVIFYNAWLSSVV 269
G Y++V +N WL+S +
Sbjct: 223 -GVYAKVCIFNDWLTSTM 239
>pdb|2ZPS|A Chain A, Crystal Structure Of Anionic Trypsin Isoform 3 From Chum
Salmon
Length = 222
Score = 31.6 bits (70), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 36/78 (46%), Gaps = 8/78 (10%)
Query: 198 YEDCSVNSTAGLLIGGR-GSGYITAQSRGSANDPGGFVFRGGEVTGT-----GQAYLGRA 251
Y DC+ NS G++ +GY+ D GG V GE+ G G A G
Sbjct: 144 YSDCN-NSYPGMITNAMFCAGYLEGGKDSCQGDSGGPVVCNGELQGVVSWGYGCAEPGNP 202
Query: 252 YGPYSRVIFYNAWLSSVV 269
G Y++V +N WL+S +
Sbjct: 203 -GVYAKVCIFNNWLTSTM 219
>pdb|1MBQ|A Chain A, Anionic Trypsin From Pacific Chum Salmon
Length = 220
Score = 31.6 bits (70), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 36/78 (46%), Gaps = 8/78 (10%)
Query: 198 YEDCSVNSTAGLLIGGR-GSGYITAQSRGSANDPGGFVFRGGEVTGT-----GQAYLGRA 251
Y DC+ NS G++ +GY+ D GG V GE+ G G A G
Sbjct: 144 YSDCN-NSYPGMITNAMFCAGYLEGGKDSCQGDSGGPVVCNGELQGVVSWGYGCAEPGNP 202
Query: 252 YGPYSRVIFYNAWLSSVV 269
G Y++V +N WL+S +
Sbjct: 203 -GVYAKVCIFNDWLTSTM 219
>pdb|1BIT|A Chain A, The Crystal Structure Of Anionic Salmon Trypsin In A
Second Crystal Form
Length = 237
Score = 31.6 bits (70), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 36/78 (46%), Gaps = 8/78 (10%)
Query: 198 YEDCSVNSTAGLLIGGR-GSGYITAQSRGSANDPGGFVFRGGEVTGT-----GQAYLGRA 251
Y DC+ NS G++ +GY+ D GG V GE+ G G A G
Sbjct: 159 YSDCN-NSYPGMITNAMFCAGYLEGGKDSCQGDSGGPVVCNGELQGVVSWGYGCAEPGNP 217
Query: 252 YGPYSRVIFYNAWLSSVV 269
G Y++V +N WL+S +
Sbjct: 218 -GVYAKVCIFNDWLTSTM 234
>pdb|1HJ8|A Chain A, 1.00 Aa Trypsin From Atlantic Salmon
Length = 222
Score = 31.6 bits (70), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 36/78 (46%), Gaps = 8/78 (10%)
Query: 198 YEDCSVNSTAGLLIGGR-GSGYITAQSRGSANDPGGFVFRGGEVTGT-----GQAYLGRA 251
Y DC+ NS G++ +GY+ D GG V GE+ G G A G
Sbjct: 144 YSDCN-NSYPGMITNAMFCAGYLEGGKDSCQGDSGGPVVCNGELQGVVSWGYGCAEPGNP 202
Query: 252 YGPYSRVIFYNAWLSSVV 269
G Y++V +N WL+S +
Sbjct: 203 -GVYAKVCIFNDWLTSTM 219
>pdb|2ZPQ|A Chain A, Crystal Structure Of Anionic Trypsin Isoform 1 From Chum
Salmon
pdb|2ZPQ|B Chain B, Crystal Structure Of Anionic Trypsin Isoform 1 From Chum
Salmon
Length = 222
Score = 31.6 bits (70), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 36/78 (46%), Gaps = 8/78 (10%)
Query: 198 YEDCSVNSTAGLLIGGR-GSGYITAQSRGSANDPGGFVFRGGEVTGT-----GQAYLGRA 251
Y DC+ NS G++ +GY+ D GG V GE+ G G A G
Sbjct: 144 YSDCN-NSYPGMITNAMFCAGYLEGGKDSCQGDSGGPVVCNGELQGVVSWGYGCAEPGNP 202
Query: 252 YGPYSRVIFYNAWLSSVV 269
G Y++V +N WL+S +
Sbjct: 203 -GVYAKVCIFNDWLTSTM 219
>pdb|1BZX|E Chain E, The Crystal Structure Of Anionic Salmon Trypsin In Complex
With Bovine Pancreatic Trypsin Inhibitor
pdb|2STA|E Chain E, Anionic Salmon Trypsin In Complex With Squash Seed
Inhibitor (Cucurbita Maxima Trypsin Inhibitor I)
pdb|2STB|E Chain E, Anionic Salmon Trypsin In Complex With Squash Seed
Inhibitor (cucurbita Pepo Trypsin Inhibitor Ii)
Length = 222
Score = 31.6 bits (70), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 36/78 (46%), Gaps = 8/78 (10%)
Query: 198 YEDCSVNSTAGLLIGGR-GSGYITAQSRGSANDPGGFVFRGGEVTGT-----GQAYLGRA 251
Y DC+ NS G++ +GY+ D GG V GE+ G G A G
Sbjct: 144 YSDCN-NSYPGMITNAMFCAGYLEGGKDSCQGDSGGPVVCNGELQGVVSWGYGCAEPGNP 202
Query: 252 YGPYSRVIFYNAWLSSVV 269
G Y++V +N WL+S +
Sbjct: 203 -GVYAKVCIFNDWLTSTM 219
>pdb|2ZPR|A Chain A, Crystal Structure Of Anionic Trypsin Isoform 2 From Chum
Salmon
pdb|2ZPR|B Chain B, Crystal Structure Of Anionic Trypsin Isoform 2 From Chum
Salmon
Length = 222
Score = 31.2 bits (69), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 36/78 (46%), Gaps = 8/78 (10%)
Query: 198 YEDCSVNSTAGLLIGGR-GSGYITAQSRGSANDPGGFVFRGGEVTGT-----GQAYLGRA 251
Y DC+ NS G++ +GY+ D GG V GE+ G G A G
Sbjct: 144 YSDCN-NSYPGMITNAMFCAGYLEGGKDSCQGDSGGPVVCNGELQGVVSWGYGCAEPGNP 202
Query: 252 YGPYSRVIFYNAWLSSVV 269
G Y++V +N WL+S +
Sbjct: 203 -GVYAKVCIFNDWLTSTM 219
>pdb|3DRF|A Chain A, Lactococcal Oppa Complexed With An Endogenous Peptide In
The Closed Conformation
pdb|3DRG|A Chain A, Lactococcal Oppa Complexed With Bradykinin In The Closed
Conformation
pdb|3DRH|A Chain A, Crystal Structure Of Lactococcal Oppa Co-Crystallized With
Leu- Enkephalin In An Open Conformation
pdb|3DRI|A Chain A, Crystal Structure Of Lactococcal Oppa Co-Crystallized With
An Octamer Peptide In An Open Conformation
pdb|3DRJ|A Chain A, Crystal Structure Of Lactococcal Oppa Co-Crystallized With
Pth-Related Peptide In An Open Conformation
pdb|3DRK|A Chain A, Crystal Structure Of Lactococcal Oppa Co-Crystallized With
Neuropeptide S In An Open Conformation
pdb|3RYA|A Chain A, Lactococcal Oppa Complexed With Slsqlssqs
pdb|3RYB|A Chain A, Lactococcal Oppa Complexed With Slsqslsqs
Length = 590
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 8/23 (34%), Positives = 17/23 (73%)
Query: 257 RVIFYNAWLSSVVTPPGWNAWNL 279
+++ +N+W+ + TPPG N W++
Sbjct: 446 KLMEFNSWVDHMTTPPGANDWDI 468
>pdb|1URJ|A Chain A, Single Stranded Dna-Binding Protein(Icp8) From Herpes
Simplex Virus-1
pdb|1URJ|B Chain B, Single Stranded Dna-Binding Protein(Icp8) From Herpes
Simplex Virus-1
Length = 1136
Score = 30.0 bits (66), Expect = 2.0, Method: Composition-based stats.
Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 2/67 (2%)
Query: 158 YDCRFLGVQDTLWDVQGRHFFKSCYIEGAIDFIFGNGQSVYEDCSV-NSTAGLLIGGRGS 216
+D R V TL ++ RH + GAI +FG S+Y DC V + A R
Sbjct: 504 FDTRHACVHTTLMRLRARHPKFASAARGAIG-VFGTMNSMYSDCDVLGNYAAFSALKRAD 562
Query: 217 GYITAQS 223
G TA++
Sbjct: 563 GSETART 569
>pdb|3S9A|A Chain A, Russell's Viper Venom Serine Proteinase, Rvv-V
(Closed-Form)
pdb|3S9B|A Chain A, Russell's Viper Venom Serine Proteinase, Rvv-V (Open-Form)
pdb|3S9C|A Chain A, Russell's Viper Venom Serine Proteinase, Rvv-V In Complex
With The Fragment (Residues 1533-1546) Of Human Factor V
pdb|3SBK|A Chain A, Russell's Viper Venom Serine Proteinase, Rvv-V
(Ppack-Bound Form)
Length = 234
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 32/68 (47%), Gaps = 14/68 (20%)
Query: 207 AGLLIGGRGSGYITAQSRGSANDPGGFVFRGGEVTGT---GQAYLGRAYGP--YSRVIFY 261
AG+L GGR + + D GG + GE+ G G G+ P Y++V Y
Sbjct: 166 AGILKGGRDTCH---------GDSGGPLICNGEMHGIVAGGSEPCGQHLKPAVYTKVFDY 216
Query: 262 NAWLSSVV 269
N W+ S++
Sbjct: 217 NNWIQSII 224
>pdb|3IUU|A Chain A, Crystal Structure Of Putative Metallopeptidase
(Yp_676511.1) From Mesorhizobium Sp. Bnc1 At 2.13 A
Resolution
Length = 495
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 188 DFIFGNGQSVYEDCSVNSTA--GLLIGGRGSGYITAQSRGSANDPGGFV 234
DF+F G++V E+ +STA G++ GY S + PGG +
Sbjct: 28 DFLFLRGEAVLEEARASSTALSGIVKTAEALGYRCVPSISARARPGGAI 76
>pdb|2UV2|A Chain A, Crystal Structure Of Human Ste20-Like Kinase Bound To
4-(4-(
5-Cyclopropyl-1h-Pyrazol-3-Ylamino)-Quinazolin-2-
Ylamino)- Phenyl)-Acetonitrile
Length = 287
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 3/68 (4%)
Query: 35 YTVTVD-QSSSQYRTVQSAIDSIPAENNQWIKVHIKAGTYKEKVKIQRNKPCILLEGEGS 93
Y V +D +S + + +D+ ENN WI + AG + V ++ +P L E +
Sbjct: 54 YMVEIDILASCDHPNIVKLLDAFYYENNLWILIEFCAGGAVDAVMLELERP--LTESQIQ 111
Query: 94 GVTKITYD 101
V K T D
Sbjct: 112 VVCKQTLD 119
>pdb|2JFL|A Chain A, Crystal Structure Of Human Ste20-Like Kinase (
Diphosphorylated Form) Bound To 5- Amino-3-((4-(
Aminosulfonyl)phenyl)amino)-N-(2,6-
Difluorophenyl)-1h-1,2, 4-Triazole-1-Carbothioamide
Length = 325
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 3/68 (4%)
Query: 35 YTVTVD-QSSSQYRTVQSAIDSIPAENNQWIKVHIKAGTYKEKVKIQRNKPCILLEGEGS 93
Y V +D +S + + +D+ ENN WI + AG + V ++ +P L E +
Sbjct: 81 YMVEIDILASCDHPNIVKLLDAFYYENNLWILIEFCAGGAVDAVMLELERP--LTESQIQ 138
Query: 94 GVTKITYD 101
V K T D
Sbjct: 139 VVCKQTLD 146
>pdb|2JFM|A Chain A, Crystal Structure Of Human Ste20-Like Kinase (Unliganded
Form)
Length = 325
Score = 28.9 bits (63), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 3/68 (4%)
Query: 35 YTVTVD-QSSSQYRTVQSAIDSIPAENNQWIKVHIKAGTYKEKVKIQRNKPCILLEGEGS 93
Y V +D +S + + +D+ ENN WI + AG + V ++ +P L E +
Sbjct: 81 YMVEIDILASCDHPNIVKLLDAFYYENNLWILIEFCAGGAVDAVMLELERP--LTESQIQ 138
Query: 94 GVTKITYD 101
V K T D
Sbjct: 139 VVCKQTLD 146
>pdb|2J51|A Chain A, Crystal Structure Of Human Ste20-Like Kinase Bound To 5-
Amino-3-((4-(Aminosulfonyl)phenyl)amino)-N-(2,6-
Difluorophenyl)-1h-1,2,4-Triazole-1-Carbothioamide
Length = 325
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 3/68 (4%)
Query: 35 YTVTVD-QSSSQYRTVQSAIDSIPAENNQWIKVHIKAGTYKEKVKIQRNKPCILLEGEGS 93
Y V +D +S + + +D+ ENN WI + AG + V ++ +P L E +
Sbjct: 81 YMVEIDILASCDHPNIVKLLDAFYYENNLWILIEFCAGGAVDAVMLELERP--LTESQIQ 138
Query: 94 GVTKITYD 101
V K T D
Sbjct: 139 VVCKQTLD 146
>pdb|2XWA|A Chain A, Crystal Structure Of Complement Factor D Mutant R202a
pdb|2XWA|B Chain B, Crystal Structure Of Complement Factor D Mutant R202a
Length = 228
Score = 27.7 bits (60), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 5/47 (10%)
Query: 229 DPGGFVFRGGEVTG---TGQAYLGRAYGP--YSRVIFYNAWLSSVVT 270
D GG + GG + G +G A G P Y+RV Y AW+ SV+
Sbjct: 182 DSGGPLVCGGVLEGVVTSGSAVCGNRKKPGIYTRVASYAAWIDSVLA 228
>pdb|3FTO|A Chain A, Crystal Structure Of Oppa In A Open Conformation
Length = 590
Score = 27.7 bits (60), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 8/23 (34%), Positives = 15/23 (65%)
Query: 257 RVIFYNAWLSSVVTPPGWNAWNL 279
++ +N+W+ TPPG N W++
Sbjct: 446 KLXEFNSWVDHXTTPPGANDWDI 468
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 0.135 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,482,040
Number of Sequences: 62578
Number of extensions: 469025
Number of successful extensions: 955
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 932
Number of HSP's gapped (non-prelim): 34
length of query: 335
length of database: 14,973,337
effective HSP length: 99
effective length of query: 236
effective length of database: 8,778,115
effective search space: 2071635140
effective search space used: 2071635140
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: 52 (24.6 bits)