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= 019699
(337 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ANX|A Chain A, Crystal Structure Of TriamineAGMATINE
AMINOPROPYLTRANSFERASE (SPEE) From Thermus Thermophilus,
Complexed With Mta
pdb|3ANX|B Chain B, Crystal Structure Of TriamineAGMATINE
AMINOPROPYLTRANSFERASE (SPEE) From Thermus Thermophilus,
Complexed With Mta
Length = 314
Score = 227 bits (578), Expect = 9e-60, Method: Compositional matrix adjust.
Identities = 123/291 (42%), Positives = 183/291 (62%), Gaps = 9/291 (3%)
Query: 46 LNSILHTGETRYQDIALLDTKPFGKALVIDGKLQSAEVDEFIYHESLVHPALLHHPNPKT 105
+ ++ +G+T +QD L ++K FGK L++D +QS E DE+IYHE+LVHPA+L HP PK
Sbjct: 21 MERVIASGKTPFQDYFLFESKGFGKVLILDKDVQSTERDEYIYHETLVHPAMLTHPEPKR 80
Query: 106 IFIMGGGEGSTAREILRHKTVEKVVMCDIDEEVVEFCKSYLVV-NKEAFSDPRLELVIND 164
+ I+GGGEG+T RE+L+H TVEK VM DID E+VE K ++ ++ AF DPR LVI+D
Sbjct: 81 VLIVGGGEGATLREVLKHPTVEKAVMVDIDGELVEVAKRHMPEWHQGAFDDPRAVLVIDD 140
Query: 165 ARAELESRKESYDVIIGDLADPI-EGGPCYKLYTKSFYEFVVKPRLNPEGIFVTQAGPAG 223
ARA LE +E YDV+I DL DP+ E P LYT FY +VK LNP G+ QAG
Sbjct: 141 ARAYLERTEERYDVVIIDLTDPVGEDNPARLLYTVEFYR-LVKAHLNPGGVMGMQAG-MI 198
Query: 224 IFSHTEVFSCIYNTLRQVFKYVVPYSAHIPSFADTWGWIMASDS--PFTLSAEELDMKVK 281
+ +H V ++ T+R+ F+YV Y HIP F +G+++ASD+ P S ++ +++
Sbjct: 199 LLTHHRVHPVVHRTVREAFRYVRSYKNHIPGFFLNFGFLLASDAFDPAAFSEGVIEARIR 258
Query: 282 -KNIKGENRYLDGKTISSSSTLSKAVRKSLDNETQVYTEGSARFIYGYGSA 331
+N+ R+L + + L K + ++L+ ET V T+ + ++ G A
Sbjct: 259 ERNLA--LRHLTAPYLEAMFVLPKDLLEALEKETMVSTDQNPFYVTPEGEA 307
>pdb|1UIR|A Chain A, Crystal Structure Of Polyamine Aminopropyltransfease From
Thermus Thermophilus
pdb|1UIR|B Chain B, Crystal Structure Of Polyamine Aminopropyltransfease From
Thermus Thermophilus
Length = 314
Score = 225 bits (573), Expect = 3e-59, Method: Compositional matrix adjust.
Identities = 122/291 (41%), Positives = 182/291 (62%), Gaps = 9/291 (3%)
Query: 46 LNSILHTGETRYQDIALLDTKPFGKALVIDGKLQSAEVDEFIYHESLVHPALLHHPNPKT 105
+ ++ +G+T +QD L ++K FGK L++D +QS E DE+IYHE+LVHPA+L HP PK
Sbjct: 21 MERVIASGKTPFQDYFLFESKGFGKVLILDKDVQSTERDEYIYHETLVHPAMLTHPEPKR 80
Query: 106 IFIMGGGEGSTAREILRHKTVEKVVMCDIDEEVVEFCKSYLVV-NKEAFSDPRLELVIND 164
+ I+GGGEG+T RE+L+H TVEK VM DID E+VE K ++ ++ AF DPR LVI+D
Sbjct: 81 VLIVGGGEGATLREVLKHPTVEKAVMVDIDGELVEVAKRHMPEWHQGAFDDPRAVLVIDD 140
Query: 165 ARAELESRKESYDVIIGDLADPI-EGGPCYKLYTKSFYEFVVKPRLNPEGIFVTQAGPAG 223
ARA LE +E YDV+I DL DP+ E P LYT FY +VK LNP G+ Q G
Sbjct: 141 ARAYLERTEERYDVVIIDLTDPVGEDNPARLLYTVEFYR-LVKAHLNPGGVMGMQTG-MI 198
Query: 224 IFSHTEVFSCIYNTLRQVFKYVVPYSAHIPSFADTWGWIMASDS--PFTLSAEELDMKVK 281
+ +H V ++ T+R+ F+YV Y HIP F +G+++ASD+ P S ++ +++
Sbjct: 199 LLTHHRVHPVVHRTVREAFRYVRSYKNHIPGFFLNFGFLLASDAFDPAAFSEGVIEARIR 258
Query: 282 -KNIKGENRYLDGKTISSSSTLSKAVRKSLDNETQVYTEGSARFIYGYGSA 331
+N+ R+L + + L K + ++L+ ET V T+ + ++ G A
Sbjct: 259 ERNLA--LRHLTAPYLEAMFVLPKDLLEALEKETMVSTDQNPFYVTPEGEA 307
>pdb|3O4F|A Chain A, Crystal Structure Of Spermidine Synthase From E. Coli
pdb|3O4F|B Chain B, Crystal Structure Of Spermidine Synthase From E. Coli
pdb|3O4F|C Chain C, Crystal Structure Of Spermidine Synthase From E. Coli
pdb|3O4F|D Chain D, Crystal Structure Of Spermidine Synthase From E. Coli
pdb|3O4F|E Chain E, Crystal Structure Of Spermidine Synthase From E. Coli
pdb|3O4F|F Chain F, Crystal Structure Of Spermidine Synthase From E. Coli
pdb|3O4F|G Chain G, Crystal Structure Of Spermidine Synthase From E. Coli
pdb|3O4F|H Chain H, Crystal Structure Of Spermidine Synthase From E. Coli
Length = 294
Score = 166 bits (421), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 95/251 (37%), Positives = 141/251 (56%), Gaps = 10/251 (3%)
Query: 28 KSCWYEEEIEENLRWSFALNSILHTGETRYQDIALLDTKPFGKALVIDGKLQSAEVDEFI 87
K W+E + + FA++++L+ +T +QD+ + + FG+ + +DG +Q+ E DEFI
Sbjct: 10 KKQWHET-LHDQFGQYFAVDNVLYHEKTDHQDLIIFENAAFGRVMALDGVVQTTERDEFI 68
Query: 88 YHESLVHPALLHHPNPKTIFIMGGGEGSTAREILRHKTVEKVVMCDIDEEVVEFCKSYLV 147
YHE + H LL H + K + I+GGG+G+ RE+ RHK VE + M +ID VV FC+ YL
Sbjct: 69 YHEMMTHVPLLAHGHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLP 128
Query: 148 -VNKEAFSDPRLELVINDARAELESRKESYDVIIGDLADPIEGGPCYKLYTKSFYEFVVK 206
N ++ DPR +LVI+D + +++DVII D DPI GP L+T +FYE K
Sbjct: 129 NHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVIISDCTDPI--GPGESLFTSAFYE-GCK 185
Query: 207 PRLNPEGIFVTQAGPAGIFSHTEVFSCIYNTLRQVFKYVVPYSAHIPSFAD---TWGWIM 263
LNP GIFV Q G + + S + L F V Y A IP++ T+ W
Sbjct: 186 RCLNPGGIFVAQNGVCFLQQEEAIDS--HRKLSHYFSDVGFYQAAIPTYYGGIMTFAWAT 243
Query: 264 ASDSPFTLSAE 274
+D+ LS E
Sbjct: 244 DNDALRHLSTE 254
>pdb|1XJ5|A Chain A, X-Ray Structure Of Spermidine Synthase From Arabidopsis
Thaliana Gene At1g23820
pdb|1XJ5|B Chain B, X-Ray Structure Of Spermidine Synthase From Arabidopsis
Thaliana Gene At1g23820
pdb|1XJ5|C Chain C, X-Ray Structure Of Spermidine Synthase From Arabidopsis
Thaliana Gene At1g23820
pdb|1XJ5|D Chain D, X-Ray Structure Of Spermidine Synthase From Arabidopsis
Thaliana Gene At1g23820
pdb|2Q41|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Spermidine Synthase From Arabidopsis Thaliana Gene
At1g23820
pdb|2Q41|D Chain D, Ensemble Refinement Of The Protein Crystal Structure Of
Spermidine Synthase From Arabidopsis Thaliana Gene
At1g23820
pdb|2Q41|B Chain B, Ensemble Refinement Of The Protein Crystal Structure Of
Spermidine Synthase From Arabidopsis Thaliana Gene
At1g23820
pdb|2Q41|C Chain C, Ensemble Refinement Of The Protein Crystal Structure Of
Spermidine Synthase From Arabidopsis Thaliana Gene
At1g23820
Length = 334
Score = 145 bits (366), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 77/215 (35%), Positives = 124/215 (57%), Gaps = 7/215 (3%)
Query: 43 SFALNSILHTGETRYQDIALLDTKPFGKALVIDGKLQSAEVDEFIYHESLVHPALLHHPN 102
S + +L G++ YQD+ + + +GK LV+DG +Q E DE Y E + H L PN
Sbjct: 61 SLKVEKVLFQGKSDYQDVIVFQSATYGKVLVLDGVIQLTERDECAYQEXITHLPLCSIPN 120
Query: 103 PKTIFIMGGGEGSTAREILRHKTVEKVVMCDIDEEVVEFCKSYLVVNKEAFSDPRLELVI 162
PK + ++GGG+G RE+ RH ++E++ C+ID+ VV+ K + + DPR+ LVI
Sbjct: 121 PKKVLVIGGGDGGVLREVARHASIEQIDXCEIDKXVVDVSKQFFPDVAIGYEDPRVNLVI 180
Query: 163 NDARAELESRKE-SYDVIIGDLADPIEGGPCYKLYTKSFYEFVVKPRLNPEGIFVTQAGP 221
D A L++ E SYD +I D +DPI GP +L+ K F++ V + L P G+ TQA
Sbjct: 181 GDGVAFLKNAAEGSYDAVIVDSSDPI--GPAKELFEKPFFQSVAR-ALRPGGVVCTQA-- 235
Query: 222 AGIFSHTEVFSCIYNTLRQVFKYVVPYS-AHIPSF 255
++ H ++ I + R++FK V Y+ +P++
Sbjct: 236 ESLWLHXDIIEDIVSNCREIFKGSVNYAWTSVPTY 270
>pdb|2O05|A Chain A, Human Spermidine Synthase
pdb|2O05|B Chain B, Human Spermidine Synthase
pdb|2O06|A Chain A, Human Spermidine Synthase
pdb|2O06|B Chain B, Human Spermidine Synthase
pdb|2O07|A Chain A, Human Spermidine Synthase
pdb|2O07|B Chain B, Human Spermidine Synthase
pdb|2O0L|A Chain A, Human Spermidine Synthase
pdb|2O0L|B Chain B, Human Spermidine Synthase
Length = 304
Score = 145 bits (365), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 85/306 (27%), Positives = 158/306 (51%), Gaps = 9/306 (2%)
Query: 11 SQANGADAKNVALTGYRKSCWYEE--EIEENLRWSFALNSILHTGETRYQDIALLDTKPF 68
S G D + + W+ E + S + +LH +RYQDI + +K +
Sbjct: 2 SMEPGPDGPAASGPAAIREGWFRETCSLWPGQALSLQVEQLLHHRRSRYQDILVFRSKTY 61
Query: 69 GKALVIDGKLQSAEVDEFIYHESLVHPALLHHPNPKTIFIMGGGEGSTAREILRHKTVEK 128
G LV+DG +Q E DEF Y E + + L HPNP+ + I+GGG+G RE+++H +VE
Sbjct: 62 GNVLVLDGVIQCTERDEFSYQEMIANLPLCSHPNPRKVLIIGGGDGGVLREVVKHPSVES 121
Query: 129 VVMCDIDEEVVEFCKSYLVVNKEAFSDPRLELVINDARAELESRKESYDVIIGDLADPIE 188
VV C+IDE+V++ K +L +S +L L + D ++ ++++DVII D +DP+
Sbjct: 122 VVQCEIDEDVIQVSKKFLPGMAIGYSSSKLTLHVGDGFEFMKQNQDAFDVIITDSSDPM- 180
Query: 189 GGPCYKLYTKSFYEFVVKPRLNPEGIFVTQAGPAGIFSHTEVFSCIYNTLRQVFKYVVPY 248
GP L+ +S+Y+ ++K L +G+ Q + H ++ + + +F V
Sbjct: 181 -GPAESLFKESYYQ-LMKTALKEDGVLCCQGECQWL--HLDLIKEMRQFCQSLFPVVAYA 236
Query: 249 SAHIPSF-ADTWGWIMASDSPFTLSAEELDMKVKKNI-KGENRYLDGKTISSSSTLSKAV 306
IP++ + G+++ S +P T E + ++ + + + +Y + ++ L +
Sbjct: 237 YCTIPTYPSGQIGFMLCSKNPSTNFQEPVQPLTQQQVAQMQLKYYNSDVHRAAFVLPEFA 296
Query: 307 RKSLDN 312
RK+L++
Sbjct: 297 RKALND 302
>pdb|3RW9|A Chain A, Crystal Structure Of Human Spermidine Synthase In Complex
With Decarboxylated S-Adenosylhomocysteine
pdb|3RW9|B Chain B, Crystal Structure Of Human Spermidine Synthase In Complex
With Decarboxylated S-Adenosylhomocysteine
Length = 304
Score = 144 bits (364), Expect = 6e-35, Method: Compositional matrix adjust.
Identities = 84/302 (27%), Positives = 157/302 (51%), Gaps = 9/302 (2%)
Query: 15 GADAKNVALTGYRKSCWYEE--EIEENLRWSFALNSILHTGETRYQDIALLDTKPFGKAL 72
G D + + W+ E + S + +LH +RYQDI + +K +G L
Sbjct: 6 GPDGPAASGPAAIREGWFRETCSLWPGQALSLQVEQLLHHRRSRYQDILVFRSKTYGNVL 65
Query: 73 VIDGKLQSAEVDEFIYHESLVHPALLHHPNPKTIFIMGGGEGSTAREILRHKTVEKVVMC 132
V+DG +Q E DEF Y E + + L HPNP+ + I+GGG+G RE+++H +VE VV C
Sbjct: 66 VLDGVIQCTERDEFSYQEMIANLPLCSHPNPRKVLIIGGGDGGVLREVVKHPSVESVVQC 125
Query: 133 DIDEEVVEFCKSYLVVNKEAFSDPRLELVINDARAELESRKESYDVIIGDLADPIEGGPC 192
+IDE+V++ K +L +S +L L + D ++ ++++DVII D +DP+ GP
Sbjct: 126 EIDEDVIQVSKKFLPGMAIGYSSSKLTLHVGDGFEFMKQNQDAFDVIITDSSDPM--GPA 183
Query: 193 YKLYTKSFYEFVVKPRLNPEGIFVTQAGPAGIFSHTEVFSCIYNTLRQVFKYVVPYSAHI 252
L+ +S+Y+ ++K L +G+ Q + H ++ + + +F V I
Sbjct: 184 ESLFKESYYQ-LMKTALKEDGVLCCQGECQWL--HLDLIKEMRQFCQSLFPVVAYAYCTI 240
Query: 253 PSF-ADTWGWIMASDSPFTLSAEELDMKVKKNI-KGENRYLDGKTISSSSTLSKAVRKSL 310
P++ + G+++ S +P T E + ++ + + + +Y + ++ L + RK+L
Sbjct: 241 PTYPSGQIGFMLCSKNPSTNFQEPVQPLTQQQVAQMQLKYYNSDVHRAAFVLPEFARKAL 300
Query: 311 DN 312
++
Sbjct: 301 ND 302
>pdb|1IY9|A Chain A, Crystal Structure Of Spermidine Synthase
pdb|1IY9|B Chain B, Crystal Structure Of Spermidine Synthase
pdb|1IY9|C Chain C, Crystal Structure Of Spermidine Synthase
pdb|1IY9|D Chain D, Crystal Structure Of Spermidine Synthase
Length = 275
Score = 144 bits (363), Expect = 6e-35, Method: Compositional matrix adjust.
Identities = 81/247 (32%), Positives = 141/247 (57%), Gaps = 6/247 (2%)
Query: 30 CWYEEEIEENLRWSFALNSILHTGETRYQDIALLDTKPFGKALVIDGKLQSAEVDEFIYH 89
WY E+ +N + +N LHT +T +Q + +++T+ FG L +DG + ++E DEF+YH
Sbjct: 3 LWYTEKQTKNFGITMKVNKTLHTEQTEFQHLEMVETEEFGNMLFLDGMVMTSEKDEFVYH 62
Query: 90 ESLVHPALLHHPNPKTIFIMGGGEGSTAREILRHKTVEKVVMCDIDEEVVEFCKSYLVVN 149
E + H L HPNP+ + ++GGG+G REIL+H +V+K + DID +V+E+ K +L
Sbjct: 63 EMVAHVPLFTHPNPEHVLVVGGGDGGVIREILKHPSVKKATLVDIDGKVIEYSKKFLPSI 122
Query: 150 KEAFSDPRLELVINDARAELESRKESYDVIIGDLADPIEGGPCYKLYTKSFYEFVVKPRL 209
DPR+++ ++D + + YDVI+ D +P+ GP L+TK FY + K L
Sbjct: 123 AGKLDDPRVDVQVDDGFMHIAKSENQYDVIMVDSTEPV--GPAVNLFTKGFYAGIAK-AL 179
Query: 210 NPEGIFVTQAGPAGIFSHTEVFSCIYNTLRQVFKYVVPYSAHIPSF-ADTWGWIMASDSP 268
+GIFV Q + E+ + + ++++F Y+A+IP++ + W + + S
Sbjct: 180 KEDGIFVAQTD--NPWFTPELITNVQRDVKEIFPITKLYTANIPTYPSGLWTFTIGSKKY 237
Query: 269 FTLSAEE 275
L+ E+
Sbjct: 238 DPLAVED 244
>pdb|1MJF|A Chain A, Putative Spermidine Synthetase From Pyrococcus Furiosus
Pfu- 132382
pdb|1MJF|B Chain B, Putative Spermidine Synthetase From Pyrococcus Furiosus
Pfu- 132382
Length = 281
Score = 142 bits (359), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 93/276 (33%), Positives = 152/276 (55%), Gaps = 21/276 (7%)
Query: 43 SFALNSILHTGETRYQDIALLDTKPFGKALVIDGKLQSAEVDEFIYHESLVHPALLHHPN 102
+F + ++ ++YQ I + +T+ FG+ L +DG +Q + E YHE LVHPA+L HP
Sbjct: 16 AFKIKKKIYEKLSKYQKIEVYETEGFGRLLALDGTVQLVTLGERSYHEPLVHPAMLAHPK 75
Query: 103 PKTIFIMGGGEGSTAREILRHKTVEKVVMCDIDEEVVEFCKSYLVVNK---EAFSDPRLE 159
PK + ++GGG+G T RE+L+H V++V+M +IDE+V+ K + ++ EA + + E
Sbjct: 76 PKRVLVIGGGDGGTVREVLQH-DVDEVIMVEIDEDVIMVSKDLIKIDNGLLEAMLNGKHE 134
Query: 160 ---LVINDARAELESRKESYDVIIGDLADPIEGGPCYKLYTKSFYEFVVKPRLNPEGIFV 216
L I D E +DVII D DP+ GP L+++ FY +V NP GI+V
Sbjct: 135 KAKLTIGDG-FEFIKNNRGFDVIIADSTDPV--GPAKVLFSEEFYRYVYDALNNP-GIYV 190
Query: 217 TQAGPAGIFSHTEVFSCIYNTLRQVFKYVVPYSAHIPSFADTWGWIMA--SDSPFTLSAE 274
TQAG +F+ E+ S Y +++VF V YS + +A W +++ D FT
Sbjct: 191 TQAGSVYLFT-DELISA-YKEMKKVFDRVYYYSFPVIGYASPWAFLVGVKGDIDFT---- 244
Query: 275 ELDMKVKKNIKGENRYLDGKTISSSSTLSKAVRKSL 310
++D + K ++ E Y D + + K +R++L
Sbjct: 245 KIDRERAKKLQLE--YYDPLMHETLFQMPKYIRETL 278
>pdb|1JQ3|A Chain A, Crystal Structure Of Spermidine Synthase In Complex With
Transition State Analogue Adodato
pdb|1JQ3|B Chain B, Crystal Structure Of Spermidine Synthase In Complex With
Transition State Analogue Adodato
pdb|1JQ3|C Chain C, Crystal Structure Of Spermidine Synthase In Complex With
Transition State Analogue Adodato
pdb|1JQ3|D Chain D, Crystal Structure Of Spermidine Synthase In Complex With
Transition State Analogue Adodato
pdb|1INL|A Chain A, Crystal Structure Of Spermidine Synthase From Thermotoga
Maritima
pdb|1INL|B Chain B, Crystal Structure Of Spermidine Synthase From Thermotoga
Maritima
pdb|1INL|C Chain C, Crystal Structure Of Spermidine Synthase From Thermotoga
Maritima
pdb|1INL|D Chain D, Crystal Structure Of Spermidine Synthase From Thermotoga
Maritima
Length = 296
Score = 140 bits (352), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 85/286 (29%), Positives = 139/286 (48%), Gaps = 8/286 (2%)
Query: 27 RKSCWY-EEEIEENLRWSFALNSILHTGETRYQDIALLDTKPFGKALVIDGKLQSAEVDE 85
R+ WY E N+ +N ++++G++ Q I + + G +DG + E DE
Sbjct: 14 RQHLWYFEYYTGNNVGLFMKMNRVIYSGQSDIQRIDIFENPDLGVVFALDGITMTTEKDE 73
Query: 86 FIYHESLVHPALLHHPNPKTIFIMGGGEGSTAREILRHKTVEKVVMCDIDEEVVEFCKSY 145
F+YHE L H + HPNPK + I+GGG+G T RE+L+H +VEK ++C++D V+E + Y
Sbjct: 74 FMYHEMLAHVPMFLHPNPKKVLIIGGGDGGTLREVLKHDSVEKAILCEVDGLVIEAARKY 133
Query: 146 LVVNKEAFSDPRLELVINDARAELESRKESYDVIIGDLADPIEGGPCYKLYTKSFYEFVV 205
L F DPR E+VI + + K +DVII D DP G + L+T+ FY+
Sbjct: 134 LKQTSCGFDDPRAEIVIANGAEYVRKFKNEFDVIIIDSTDPTAGQGGH-LFTEEFYQ-AC 191
Query: 206 KPRLNPEGIFVTQAGPAGIFSHTEVFSCIYNTLRQVFKYVVPYSAHIPSF-ADTWGWIMA 264
L +G+F + F F Y + +VF Y + ++ + W + A
Sbjct: 192 YDALKEDGVFSAETEDP--FYDIGWFKLAYRRISKVFPITRVYLGFMTTYPSGMWSYTFA 249
Query: 265 SDSPFTLSAEELDMKVKKNIKGENRYLDGKTISSSSTLSKAVRKSL 310
S ++ D + + E +Y + + +S L V+K L
Sbjct: 250 SKG--IDPIKDFDPEKVRKFNKELKYYNEEVHVASFALPNFVKKEL 293
>pdb|2B2C|A Chain A, Cloning, Expression, Characterisation And Three-
Dimensional Structure Determination Of The
Caenorhabditis Elegans Spermidine Synthase
pdb|2B2C|B Chain B, Cloning, Expression, Characterisation And Three-
Dimensional Structure Determination Of The
Caenorhabditis Elegans Spermidine Synthase
Length = 314
Score = 130 bits (327), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 73/204 (35%), Positives = 122/204 (59%), Gaps = 5/204 (2%)
Query: 42 WSFALNSILHTGETRYQDIALLDTKPFGKALVIDGKLQSAEVDEFIYHESLVHPALLHHP 101
+S + +L +++YQD+ + ++ +G LV+DG +Q+ E DEF Y E L H + HP
Sbjct: 48 FSLQVKKVLFHEKSKYQDVLVFESTTYGNVLVLDGIVQATERDEFSYQEMLAHLPMFAHP 107
Query: 102 NPKTIFIMGGGEGSTAREILRHKTVEKVVMCDIDEEVVEFCKSYLVVNKEAFSDPRLELV 161
+PK + I+GGG+G RE+L+H++VEKV MC+IDE V++ K +L FS P+L+L
Sbjct: 108 DPKRVLIIGGGDGGILREVLKHESVEKVTMCEIDEMVIDVAKKFLPGMSCGFSHPKLDLF 167
Query: 162 INDARAELESRKESYDVIIGDLADPIEGGPCYKLYTKSFYEFVVKPRLNPEGIFVTQAGP 221
D L++ K +DVII D +DP+ GP L+ +S+YE +++ L +GI +Q
Sbjct: 168 CGDGFEFLKNHKNEFDVIITDSSDPV--GPAESLFGQSYYE-LLRDALKEDGILSSQG-- 222
Query: 222 AGIFSHTEVFSCIYNTLRQVFKYV 245
++ H + + + R++F V
Sbjct: 223 ESVWLHLPLIAHLVAFNRKIFPAV 246
>pdb|3BWB|A Chain A, Crystal Structure Of The Apo Form Of Spermidine Synthase
From Trypanosoma Cruzi At 2.5 A Resolution
pdb|3BWB|B Chain B, Crystal Structure Of The Apo Form Of Spermidine Synthase
From Trypanosoma Cruzi At 2.5 A Resolution
pdb|3BWC|A Chain A, Crystal Structure Of Spermidine Synthase From Trypanosoma
Cruzi In Complex With Sam At 2.3 A Resolution
pdb|3BWC|B Chain B, Crystal Structure Of Spermidine Synthase From Trypanosoma
Cruzi In Complex With Sam At 2.3 A Resolution
Length = 304
Score = 128 bits (321), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 77/235 (32%), Positives = 125/235 (53%), Gaps = 18/235 (7%)
Query: 31 WYEEEIEENLRW-----SFALNSILHTGETRYQDIALLDTKP---FGKALVIDGKLQSAE 82
W+ EE N +W S + +L+ T++Q + + ++ P +G +DG +Q +
Sbjct: 19 WFREE---NDQWPGQAXSLRVEKVLYDAPTKFQHLTIFESDPKGPWGTVXALDGCIQVTD 75
Query: 83 VDEFIYHESLVHPALLHHPNPKTIFIMGGGEGSTAREILRHKTVEKVVMCDIDEEVVEFC 142
DEF+YHE L H +L HP P+ + I+GGG+G RE+LRH TVE + DID EV E
Sbjct: 76 YDEFVYHEVLGHTSLCSHPKPERVLIIGGGDGGVLREVLRHGTVEHCDLVDIDGEVXEQS 135
Query: 143 KSYLVVNKEAFSDPRLELVINDARAEL-ESRKESYDVIIGDLADPIEGGPCYKLYTKSFY 201
K + + +DPR + + D A + ++ +YDV+I D DP GP KL+ ++FY
Sbjct: 136 KQHFPQISRSLADPRATVRVGDGLAFVRQTPDNTYDVVIIDTTDP--AGPASKLFGEAFY 193
Query: 202 EFVVKPRLNPEGIFVTQAGPAGIFSHTEVFSCIYNTLRQVFKYVVPYS-AHIPSF 255
+ V++ L P+GI Q I+ E+ +R+ V Y+ H+P++
Sbjct: 194 KDVLR-ILKPDGICCNQG--ESIWLDLELIEKXSRFIRETGFASVQYALXHVPTY 245
>pdb|2HTE|A Chain A, The Crystal Structure Of Spermidine Synthase From P.
Falciparum In Complex With 5'-Methylthioadenosine
pdb|2HTE|B Chain B, The Crystal Structure Of Spermidine Synthase From P.
Falciparum In Complex With 5'-Methylthioadenosine
pdb|2HTE|C Chain C, The Crystal Structure Of Spermidine Synthase From P.
Falciparum In Complex With 5'-Methylthioadenosine
pdb|2I7C|A Chain A, The Crystal Structure Of Spermidine Synthase From P.
Falciparum In Complex With Adodato
pdb|2I7C|B Chain B, The Crystal Structure Of Spermidine Synthase From P.
Falciparum In Complex With Adodato
pdb|2I7C|C Chain C, The Crystal Structure Of Spermidine Synthase From P.
Falciparum In Complex With Adodato
pdb|3B7P|A Chain A, Crystal Structure Of Spermidine Synthase From Plasmodium
Falciparum In Complex With Spermine
pdb|3B7P|B Chain B, Crystal Structure Of Spermidine Synthase From Plasmodium
Falciparum In Complex With Spermine
pdb|3B7P|C Chain C, Crystal Structure Of Spermidine Synthase From Plasmodium
Falciparum In Complex With Spermine
pdb|3RIE|A Chain A, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Complex With 5'-Methylthioadenosine And
N-(3-Aminopropyl)-Trans-Cyclohexane- 1,4-Diamine
pdb|3RIE|B Chain B, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Complex With 5'-Methylthioadenosine And
N-(3-Aminopropyl)-Trans-Cyclohexane- 1,4-Diamine
pdb|3RIE|C Chain C, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Complex With 5'-Methylthioadenosine And
N-(3-Aminopropyl)-Trans-Cyclohexane- 1,4-Diamine
Length = 283
Score = 117 bits (293), Expect = 9e-27, Method: Compositional matrix adjust.
Identities = 72/214 (33%), Positives = 119/214 (55%), Gaps = 5/214 (2%)
Query: 42 WSFALNSILHTGETRYQDIALLDTKPFGKALVIDGKLQSAEVDEFIYHESLVHPALLHHP 101
+S + IL+ +++YQ++ + ++ +GK LV+DG +Q E DEF YHE + H +
Sbjct: 18 FSLKIKKILYETKSKYQNVLVFESTTYGKVLVLDGVIQLTEKDEFAYHEMMTHVPMTVSK 77
Query: 102 NPKTIFIMGGGEGSTAREILRHKTVEKVVMCDIDEEVVEFCKSYLVVNKEAFSDPRLELV 161
PK + ++GGG+G RE+ ++K+VE + +C+IDE V+E K Y + D R+ +
Sbjct: 78 EPKNVLVVGGGDGGIIRELCKYKSVENIDICEIDETVIEVSKIYFKNISCGYEDKRVNVF 137
Query: 162 INDARAELESRKESYDVIIGDLADPIEGGPCYKLYTKSFYEFVVKPRLNPEGIFVTQAGP 221
I DA LE+ +YDVII D +DPI GP L+ ++FYE + L P G V Q
Sbjct: 138 IEDASKFLENVTNTYDVIIVDSSDPI--GPAETLFNQNFYEKIYNA-LKPNGYCVAQC-- 192
Query: 222 AGIFSHTEVFSCIYNTLRQVFKYVVPYSAHIPSF 255
++ H + +++FK V + IP++
Sbjct: 193 ESLWIHVGTIKNMIGYAKKLFKKVEYANISIPTY 226
>pdb|2PWP|A Chain A, Crystal Structure Of Spermidine Synthase From Plasmodium
Falciparum In Complex With Spermidine
pdb|2PWP|B Chain B, Crystal Structure Of Spermidine Synthase From Plasmodium
Falciparum In Complex With Spermidine
pdb|2PWP|C Chain C, Crystal Structure Of Spermidine Synthase From Plasmodium
Falciparum In Complex With Spermidine
Length = 282
Score = 117 bits (292), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 72/214 (33%), Positives = 119/214 (55%), Gaps = 5/214 (2%)
Query: 42 WSFALNSILHTGETRYQDIALLDTKPFGKALVIDGKLQSAEVDEFIYHESLVHPALLHHP 101
+S + IL+ +++YQ++ + ++ +GK LV+DG +Q E DEF YHE + H +
Sbjct: 17 FSLKIKKILYETKSKYQNVLVFESTTYGKVLVLDGVIQLTEKDEFAYHEMMTHVPMTVSK 76
Query: 102 NPKTIFIMGGGEGSTAREILRHKTVEKVVMCDIDEEVVEFCKSYLVVNKEAFSDPRLELV 161
PK + ++GGG+G RE+ ++K+VE + +C+IDE V+E K Y + D R+ +
Sbjct: 77 EPKNVLVVGGGDGGIIRELCKYKSVENIDICEIDETVIEVSKIYFKNISCGYEDKRVNVF 136
Query: 162 INDARAELESRKESYDVIIGDLADPIEGGPCYKLYTKSFYEFVVKPRLNPEGIFVTQAGP 221
I DA LE+ +YDVII D +DPI GP L+ ++FYE + L P G V Q
Sbjct: 137 IEDASKFLENVTNTYDVIIVDSSDPI--GPAETLFNQNFYEKIYNA-LKPNGYCVAQC-- 191
Query: 222 AGIFSHTEVFSCIYNTLRQVFKYVVPYSAHIPSF 255
++ H + +++FK V + IP++
Sbjct: 192 ESLWIHVGTIKNMIGYAKKLFKKVEYANISIPTY 225
>pdb|2E5W|A Chain A, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3
pdb|2E5W|B Chain B, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3
pdb|2E5W|C Chain C, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3
pdb|2E5W|D Chain D, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3
pdb|2ZSU|A Chain A, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3, P1 Form
pdb|2ZSU|B Chain B, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3, P1 Form
pdb|2ZSU|C Chain C, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3, P1 Form
pdb|2ZSU|D Chain D, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3, P1 Form
pdb|2ZSU|E Chain E, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3, P1 Form
pdb|2ZSU|F Chain F, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3, P1 Form
Length = 280
Score = 116 bits (291), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 84/228 (36%), Positives = 133/228 (58%), Gaps = 12/228 (5%)
Query: 43 SFALNSILHTGETRYQDIALLDTKPFGKALVIDGKLQSAEVDEFIYHESLVHPALLHHPN 102
+F + + ++ YQ I + +T+ FGK L IDG +Q E YHE LVHPA+L HPN
Sbjct: 17 AFKVKRKILEEQSEYQKIEVYETEGFGKLLAIDGTVQLVTEGEKSYHEPLVHPAMLAHPN 76
Query: 103 PKTIFIMGGGEGSTAREILRHKTVEKVVMCDIDEEVVEFCKSYLVVN----KEAFSDP-- 156
P+ + I+GGG+G RE+L+H+ VE+V+M +ID++V+E Y+ ++ ++ SD
Sbjct: 77 PRRVLIIGGGDGGAIREVLKHEEVEEVIMVEIDKKVIEISAKYIGIDGGILEKMLSDKHE 136
Query: 157 RLELVINDARAELESRKESYDVIIGDLADPIEGGPCYKLYTKSFYEFVVKPRLNPEGIFV 216
+ +L+I D +E +DVII D DP+ GP L+++ FY+ + LN GI+V
Sbjct: 137 KGKLIIGDGVKFIEEN-SGFDVIIVDSTDPV--GPAEMLFSEEFYKNAYRA-LNDPGIYV 192
Query: 217 TQAGPAGIFSHTEVFSCIYNTLRQVFKYVVPYSAHIPSFADTWGWIMA 264
TQAG +F T+ F Y +R+VF V YS + +A W +++
Sbjct: 193 TQAGSVYLF--TDEFLTAYRKMRKVFDKVYYYSFPVIGYASPWAFLVG 238
>pdb|2PSS|A Chain A, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Its Apo- Form
pdb|2PSS|B Chain B, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Its Apo- Form
pdb|2PSS|C Chain C, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Its Apo- Form
pdb|2PT6|A Chain A, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Complex With Decarboxylated S-Adenosylmethionine
pdb|2PT6|B Chain B, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Complex With Decarboxylated S-Adenosylmethionine
pdb|2PT6|C Chain C, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Complex With Decarboxylated S-Adenosylmethionine
pdb|2PT9|A Chain A, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Complex With Decarboxylated S-Adenosylmethionine And
The Inhibitor Cis-4- Methylcyclohexylamine (4mcha)
pdb|2PT9|B Chain B, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Complex With Decarboxylated S-Adenosylmethionine And
The Inhibitor Cis-4- Methylcyclohexylamine (4mcha)
pdb|2PT9|C Chain C, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Complex With Decarboxylated S-Adenosylmethionine And
The Inhibitor Cis-4- Methylcyclohexylamine (4mcha)
Length = 321
Score = 116 bits (291), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 72/214 (33%), Positives = 119/214 (55%), Gaps = 5/214 (2%)
Query: 42 WSFALNSILHTGETRYQDIALLDTKPFGKALVIDGKLQSAEVDEFIYHESLVHPALLHHP 101
+S + IL+ +++YQ++ + ++ +GK LV+DG +Q E DEF YHE + H +
Sbjct: 56 FSLKIKKILYETKSKYQNVLVFESTTYGKVLVLDGVIQLTEKDEFAYHEMMTHVPMTVSK 115
Query: 102 NPKTIFIMGGGEGSTAREILRHKTVEKVVMCDIDEEVVEFCKSYLVVNKEAFSDPRLELV 161
PK + ++GGG+G RE+ ++K+VE + +C+IDE V+E K Y + D R+ +
Sbjct: 116 EPKNVLVVGGGDGGIIRELCKYKSVENIDICEIDETVIEVSKIYFKNISCGYEDKRVNVF 175
Query: 162 INDARAELESRKESYDVIIGDLADPIEGGPCYKLYTKSFYEFVVKPRLNPEGIFVTQAGP 221
I DA LE+ +YDVII D +DPI GP L+ ++FYE + L P G V Q
Sbjct: 176 IEDASKFLENVTNTYDVIIVDSSDPI--GPAETLFNQNFYEKIYNA-LKPNGYCVAQC-- 230
Query: 222 AGIFSHTEVFSCIYNTLRQVFKYVVPYSAHIPSF 255
++ H + +++FK V + IP++
Sbjct: 231 ESLWIHVGTIKNMIGYAKKLFKKVEYANISIPTY 264
>pdb|3C6K|A Chain A, Crystal Structure Of Human Spermine Synthase In Complex
With Spermidine And 5-Methylthioadenosine
pdb|3C6K|B Chain B, Crystal Structure Of Human Spermine Synthase In Complex
With Spermidine And 5-Methylthioadenosine
pdb|3C6K|C Chain C, Crystal Structure Of Human Spermine Synthase In Complex
With Spermidine And 5-Methylthioadenosine
pdb|3C6K|D Chain D, Crystal Structure Of Human Spermine Synthase In Complex
With Spermidine And 5-Methylthioadenosine
pdb|3C6M|A Chain A, Crystal Structure Of Human Spermine Synthase In Complex
With Spermine And 5-Methylthioadenosine
pdb|3C6M|B Chain B, Crystal Structure Of Human Spermine Synthase In Complex
With Spermine And 5-Methylthioadenosine
pdb|3C6M|C Chain C, Crystal Structure Of Human Spermine Synthase In Complex
With Spermine And 5-Methylthioadenosine
pdb|3C6M|D Chain D, Crystal Structure Of Human Spermine Synthase In Complex
With Spermine And 5-Methylthioadenosine
Length = 381
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 60/232 (25%), Positives = 107/232 (46%), Gaps = 26/232 (11%)
Query: 44 FALNSILHTGETRYQDIALLDTKPFGKALVIDGKLQSAEVDEFIYHESLVHPALLHHPNP 103
+ ++ +++ ++ YQ+I +L +K FG L++ G + AE D Y +++ +
Sbjct: 149 YDIDEVVYDEDSPYQNIKILHSKQFGNILILSGDVNLAESD-LAYTRAIMGSGKEDYTG- 206
Query: 104 KTIFIMGGGEGSTAREILRHKTVEKVVMCDIDEEVVEFCKSYLVVNKEAFSDPR----LE 159
K + I+GGG+G EI++ K + V M +ID+ V++ CK Y+ D +
Sbjct: 207 KDVLILGGGDGGILCEIVKLKP-KMVTMVEIDQMVIDGCKKYMRKTCGDVLDNLKGDCYQ 265
Query: 160 LVINDA-----RAELESRKESYDVIIGDL-ADPIEGGPCYKLYTKSFYEFVVK---PRLN 210
++I D R E R+ +D +I DL A PI P + T F ++ L
Sbjct: 266 VLIEDCIPVLKRYAKEGRE--FDYVINDLTAVPISTSP-EEDSTWEFLRLILDLSMKVLK 322
Query: 211 PEGIFVTQAGPAGIFSHTEVFSCIYNTLRQVFKYVVPYSAHI---PSFADTW 259
+G + TQ + TE S L +++ V +S I PS+ + W
Sbjct: 323 QDGKYFTQGNCVNL---TEALSLYEEQLGRLY-CPVEFSKEIVCVPSYLELW 370
>pdb|3FTC|A Chain A, Crystal Structure Of A. Aeolicus Ksga At 1.72-Angstrom
Resolution
pdb|3FTD|A Chain A, Crystal Structure Of A. Aeolicus Ksga At 1.44-Angstrom
Resolution
pdb|3FTE|A Chain A, Crystal Structure Of A. Aeolicus Ksga In Complex With Rna
pdb|3FTF|A Chain A, Crystal Structure Of A. Aeolicus Ksga In Complex With Rna
And Sah
Length = 249
Score = 33.1 bits (74), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 35/61 (57%), Gaps = 9/61 (14%)
Query: 105 TIFIMGGGEGSTAREILRHKTVEKVVMCDIDEEVVEFCKSYLVVNKEAFSDPRLELVIND 164
T+ +GGG G+ + +L+H ++K+ + ++D E+VE KS D RLE++ D
Sbjct: 34 TVVEVGGGTGNLTKVLLQH-PLKKLYVIELDREMVENLKS--------IGDERLEVINED 84
Query: 165 A 165
A
Sbjct: 85 A 85
>pdb|3R9X|B Chain B, Crystal Structure Of Era In Complex With Mggdpnp,
Nucleotides 1506- 1542 Of 16s Ribosomal Rna, And Ksga
Length = 248
Score = 33.1 bits (74), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 35/61 (57%), Gaps = 9/61 (14%)
Query: 105 TIFIMGGGEGSTAREILRHKTVEKVVMCDIDEEVVEFCKSYLVVNKEAFSDPRLELVIND 164
T+ +GGG G+ + +L+H ++K+ + ++D E+VE KS D RLE++ D
Sbjct: 33 TVVEVGGGTGNLTKVLLQH-PLKKLYVIELDREMVENLKS--------IGDERLEVINED 83
Query: 165 A 165
A
Sbjct: 84 A 84
>pdb|2EW5|A Chain A, Structure Of Helicobacter Pylori Peptide Deformylase In
Complex With Inhibitor
pdb|2EW6|A Chain A, Structure Of Helicobacter Pylori Peptide Deformylase In
Complex With Inhibitor
pdb|2EW7|A Chain A, Crystal Structure Of Helicobacter Pylori Peptide
Deformylase
Length = 181
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 253 PSFADTWGWIMASDSPFTLSA--EELDMKVKKNIKGENRYLDGKTISSSSTLSKAVRKSL 310
P F +T G +M + ++ EE++ K I+ +NR+ + K + +S L+ A++ +
Sbjct: 80 PKFIETGGSMMYKEGCLSVPGFYEEVERFEKVKIEYQNRFAEVKVLEASELLAVAIQHEI 139
Query: 311 DN 312
D+
Sbjct: 140 DH 141
>pdb|3IJI|A Chain A, Structure Of Dipeptide Epimerase From Bacteroides
Thetaiotaomicron Complexed With L-Ala-D-Glu;
Nonproductive Substrate Binding.
pdb|3IJI|B Chain B, Structure Of Dipeptide Epimerase From Bacteroides
Thetaiotaomicron Complexed With L-Ala-D-Glu;
Nonproductive Substrate Binding.
pdb|3IJL|A Chain A, Structure Of Dipeptide Epimerase From Bacteroides
Thetaiotaomicron Complexed With L-Pro-D-Glu;
Nonproductive Substrate Binding.
pdb|3IJL|B Chain B, Structure Of Dipeptide Epimerase From Bacteroides
Thetaiotaomicron Complexed With L-Pro-D-Glu;
Nonproductive Substrate Binding.
pdb|3IJQ|A Chain A, Structure Of Dipeptide Epimerase From Bacteroides
Thetaiotaomicron Complexed With L-Ala-D-Glu; Productive
Substrate Binding.
pdb|3IJQ|B Chain B, Structure Of Dipeptide Epimerase From Bacteroides
Thetaiotaomicron Complexed With L-Ala-D-Glu; Productive
Substrate Binding
Length = 338
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 34/65 (52%), Gaps = 7/65 (10%)
Query: 136 EEVVEFCKSYLVVNKEAFSDP-RLELV---INDARAELESRKESYDVIIGDLADPIEGGP 191
E V+ F K VN E FSDP +LE + ++ + + K + D+ + DL + G P
Sbjct: 55 ESVMNFLKK---VNLEQFSDPFQLEDILSYVDSLSPKDTAAKAAVDIALHDLVGKLLGAP 111
Query: 192 CYKLY 196
YK++
Sbjct: 112 WYKIW 116
>pdb|1W9R|A Chain A, Solution Structure Of Choline Binding Protein A, Domain
R2, The Major Adhesin Of Streptococcus Pneumoniae
Length = 119
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%)
Query: 128 KVVMCDIDEEVVEFCKSYLVVNKEAFSDPRLELVINDARAELESRK 173
K + +I E VE K+ L + KE +PR E + A+AE+ES+K
Sbjct: 40 KTLELEIAESDVEVKKAELELVKEEAKEPRNEEKVKQAKAEVESKK 85
>pdb|3AFC|A Chain A, Mouse Semaphorin 6a Extracellular Domain
pdb|3AFC|B Chain B, Mouse Semaphorin 6a Extracellular Domain
pdb|3AL8|A Chain A, Plexin A2 SEMAPHORIN 6A COMPLEX
Length = 556
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 25/43 (58%)
Query: 64 DTKPFGKALVIDGKLQSAEVDEFIYHESLVHPALLHHPNPKTI 106
D K AL DGKL SA V +F+ +++++ +L P +T+
Sbjct: 154 DAKHANIALFADGKLYSATVTDFLAIDAVIYRSLGDSPTLRTV 196
>pdb|3OKW|A Chain A, Mouse Semaphorin 6a, Extracellular Domains 1-2
pdb|3OKW|B Chain B, Mouse Semaphorin 6a, Extracellular Domains 1-2
pdb|3OKY|B Chain B, Plexin A2 In Complex With Semaphorin 6a
Length = 565
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 25/43 (58%)
Query: 64 DTKPFGKALVIDGKLQSAEVDEFIYHESLVHPALLHHPNPKTI 106
D K AL DGKL SA V +F+ +++++ +L P +T+
Sbjct: 153 DAKHANIALFADGKLYSATVTDFLAIDAVIYRSLGDSPTLRTV 195
>pdb|2REM|A Chain A, Crystal Structure Of Oxidoreductase Dsba From Xylella
Fastidiosa
pdb|2REM|B Chain B, Crystal Structure Of Oxidoreductase Dsba From Xylella
Fastidiosa
pdb|2REM|C Chain C, Crystal Structure Of Oxidoreductase Dsba From Xylella
Fastidiosa
Length = 193
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 16/32 (50%)
Query: 240 QVFKYVVPYSAHIPSFADTWGWIMASDSPFTL 271
++F Y P+ AH S WG A D FTL
Sbjct: 31 EIFGYTCPHCAHFDSKLQAWGARQAKDVRFTL 62
>pdb|1B1Z|A Chain A, Streptococcal Pyrogenic Exotoxin A1
pdb|1B1Z|B Chain B, Streptococcal Pyrogenic Exotoxin A1
pdb|1B1Z|C Chain C, Streptococcal Pyrogenic Exotoxin A1
pdb|1B1Z|D Chain D, Streptococcal Pyrogenic Exotoxin A1
Length = 219
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 24/44 (54%)
Query: 293 GKTISSSSTLSKAVRKSLDNETQVYTEGSARFIYGYGSALKQNR 336
K + ++ L VRK L + Q+YT G +++ GY + +N+
Sbjct: 134 NKKMVTAQELDYKVRKYLTDNKQLYTNGPSKYETGYIKFIPKNK 177
>pdb|1HA5|A Chain A, Structural Features Of A Zinc-Binding Site In The
Superantigen Streptococcal Pyrogenic Exotoxin A (Spea1):
Implications For Mhc Class Ii Recognition.
pdb|1HA5|B Chain B, Structural Features Of A Zinc-Binding Site In The
Superantigen Streptococcal Pyrogenic Exotoxin A (Spea1):
Implications For Mhc Class Ii Recognition.
pdb|1HA5|C Chain C, Structural Features Of A Zinc-Binding Site In The
Superantigen Streptococcal Pyrogenic Exotoxin A (Spea1):
Implications For Mhc Class Ii Recognition.
pdb|1HA5|D Chain D, Structural Features Of A Zinc-Binding Site In The
Superantigen Streptococcal Pyrogenic Exotoxin A (Spea1):
Implications For Mhc Class Ii Recognition
Length = 218
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 24/44 (54%)
Query: 293 GKTISSSSTLSKAVRKSLDNETQVYTEGSARFIYGYGSALKQNR 336
K + ++ L VRK L + Q+YT G +++ GY + +N+
Sbjct: 134 NKKMVTAQELDYKVRKYLTDNKQLYTNGPSKYETGYIKFIPKNK 177
>pdb|1UUP|A Chain A, Crystal Structure Of A Dimeric Form Of Streptococcal
Pyrogenic Exotoxin A (spea1).
pdb|1UUP|B Chain B, Crystal Structure Of A Dimeric Form Of Streptococcal
Pyrogenic Exotoxin A (spea1).
pdb|1UUP|C Chain C, Crystal Structure Of A Dimeric Form Of Streptococcal
Pyrogenic Exotoxin A (spea1).
pdb|1UUP|D Chain D, Crystal Structure Of A Dimeric Form Of Streptococcal
Pyrogenic Exotoxin A (spea1)
Length = 221
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 24/44 (54%)
Query: 293 GKTISSSSTLSKAVRKSLDNETQVYTEGSARFIYGYGSALKQNR 336
K + ++ L VRK L + Q+YT G +++ GY + +N+
Sbjct: 136 NKKMVTAQELDYKVRKYLTDNKQLYTNGPSKYETGYIKFIPKNK 179
>pdb|1L0X|B Chain B, Tcr Beta Chain Complexed With Streptococcal Superantigen
Spea
pdb|1L0X|D Chain D, Tcr Beta Chain Complexed With Streptococcal Superantigen
Spea
pdb|1L0Y|B Chain B, T Cell Receptor Beta Chain Complexed With Superantigen
Spea Soaked With Zinc
pdb|1L0Y|D Chain D, T Cell Receptor Beta Chain Complexed With Superantigen
Spea Soaked With Zinc
Length = 221
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 24/44 (54%)
Query: 293 GKTISSSSTLSKAVRKSLDNETQVYTEGSARFIYGYGSALKQNR 336
K + ++ L VRK L + Q+YT G +++ GY + +N+
Sbjct: 136 NKKMVTAQELDYKVRKYLTDNKQLYTNGPSKYETGYIKFIPKNK 179
>pdb|2CMG|A Chain A, Crystal Structure Of Spermidine Synthase From Helicobacter
Pylori
pdb|2CMG|B Chain B, Crystal Structure Of Spermidine Synthase From Helicobacter
Pylori
pdb|2CMH|A Chain A, Crystal Structure Of Spermidine Synthase From Helicobacter
Pylori
pdb|2CMH|B Chain B, Crystal Structure Of Spermidine Synthase From Helicobacter
Pylori
pdb|2CMH|C Chain C, Crystal Structure Of Spermidine Synthase From Helicobacter
Pylori
Length = 262
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 51/245 (20%), Positives = 101/245 (41%), Gaps = 40/245 (16%)
Query: 30 CWYEEEIEENLRWSFALNSILHTGETRYQDIALLDTKPFGKALVIDGKLQSAEVDEFIYH 89
W +EI LR + + + L + + + + +K FG+ +++ +L F++
Sbjct: 1 MWITQEITPYLRKEYTIEAKLLDVRSEHNILEIFKSKDFGEIAMLNRQLL---FKNFLHI 57
Query: 90 ES--LVHPALLHHPNPKTIFIMGGGEGSTAREILRHKTVEKVVMCD---IDEEVVEFCKS 144
ES L H K + I+ G + A ++ ++ T V D +D + F
Sbjct: 58 ESELLAHMGGCTKKELKEVLIVDGFDLELAHQLFKYDTHIDFVQADEKILDSFISFFPHF 117
Query: 145 YLVVNKEAFSDPRLELVINDARAELESRKESYDVIIGDLADP----IEGGPCYKLYTKSF 200
+ V N + F+ A+ L+ + YD+I L +P I+G
Sbjct: 118 HEVKNNKNFT---------HAKQLLDLDIKKYDLIFC-LQEPDIHRIDG----------- 156
Query: 201 YEFVVKPRLNPEGIFVTQAGPAGIFSHTEVFSCIYNTLRQVFKYVVPYSAHIPSFADTWG 260
+K L +G+F++ A + H + + + N + VF +P+ A + ++ G
Sbjct: 157 ----LKRMLKEDGVFISVAK-HPLLEHVSMQNALKN-MGGVFSVAMPFVAPLRILSNK-G 209
Query: 261 WIMAS 265
+I AS
Sbjct: 210 YIYAS 214
>pdb|3PWU|A Chain A, An Immmunodominant Ctl Epitope From Rinderpest Virus
Presented By Cattle Mhc Class I Molecule
N01801(Bola-A11)
pdb|3PWV|A Chain A, An Immmunodominant Ctl Epitope From Rinderpest Virus
Presented By Cattle Mhc Class I Molecule N01801
(Bola-A11)
pdb|3PWV|D Chain D, An Immmunodominant Ctl Epitope From Rinderpest Virus
Presented By Cattle Mhc Class I Molecule N01801
(Bola-A11)
Length = 274
Score = 28.5 bits (62), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 35/84 (41%), Gaps = 29/84 (34%)
Query: 30 CW----YEEEIEENLRWSFALNSILHTGETRYQDIALLDTKPFGKALVIDGKLQ------ 79
CW Y EEI +L W H GE + QD+ L++T+P G DG Q
Sbjct: 202 CWALGFYPEEI--SLTWQ-------HEGEDQTQDMELVETRPSG-----DGTFQKWAALV 247
Query: 80 --SAEVDEF---IYHESLVHPALL 98
S E + + HE L P L
Sbjct: 248 VPSGEEQRYTCRVQHEGLQEPLTL 271
>pdb|1GPJ|A Chain A, Glutamyl-Trna Reductase From Methanopyrus Kandleri
Length = 404
Score = 27.7 bits (60), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 26/105 (24%), Positives = 45/105 (42%), Gaps = 22/105 (20%)
Query: 102 NPKTIFIMGGGE-GSTAREILRHKTVEKVVMCD-------------------IDEEVVEF 141
+ KT+ ++G GE G T + L + V V++ + DE V
Sbjct: 166 HDKTVLVVGAGEMGKTVAKSLVDRGVRAVLVANRTYERAVELARDLGGEAVRFDELVDHL 225
Query: 142 CKSYLVVNKEAFSDPRLELVINDARAELESRKESYDVIIGDLADP 186
+S +VV+ A P + ++D R L R ++I D+A+P
Sbjct: 226 ARSDVVVSATAAPHPVIH--VDDVREALRKRDRRSPILIIDIANP 268
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 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,301,354
Number of Sequences: 62578
Number of extensions: 434472
Number of successful extensions: 1131
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 1087
Number of HSP's gapped (non-prelim): 47
length of query: 337
length of database: 14,973,337
effective HSP length: 99
effective length of query: 238
effective length of database: 8,778,115
effective search space: 2089191370
effective search space used: 2089191370
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: 52 (24.6 bits)