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= 044097
(439 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3TTL|A Chain A, Crystal Structure Of Apo-Spue
pdb|3TTL|B Chain B, Crystal Structure Of Apo-Spue
Length = 340
Score = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 47/165 (28%), Positives = 74/165 (44%), Gaps = 26/165 (15%)
Query: 226 EIDPRGKIWAAPYRWGTMAIGYKKSKFQN-HNLAPIEDWKDPWWPELAGR-----ISMVN 279
E+ G +A PY WGT IGY +K + PI+ W + PE + ++ ++
Sbjct: 96 EVSDPGNQYAVPYLWGTNGIGYNVAKVKEVLGDQPIDSWAILFEPENMKKLAKCGVAFMD 155
Query: 280 SPREVIVAGGKI--------------AVQQNLALLANQVRLFDSTHYLKAFGIGDVWVAV 325
S E++ A ++ L + V F S+ Y+ G++ VA
Sbjct: 156 SGDEMLPAALNYLGLDPNTHDPKDYKKAEEVLTKVRPYVSYFHSSKYISDLANGNICVAF 215
Query: 326 GWSSDVLPAVKRMS------NVAVVVPKSGASLWADLWAIPAASR 364
G+S DV A R ++ V+PK GA+LW DL AIPA ++
Sbjct: 216 GYSGDVFQAAARAEEAGKGIDIQYVIPKEGANLWFDLMAIPADAK 260
>pdb|1A99|A Chain A, Putrescine Receptor (Potf) From E. Coli
pdb|1A99|B Chain B, Putrescine Receptor (Potf) From E. Coli
pdb|1A99|C Chain C, Putrescine Receptor (Potf) From E. Coli
pdb|1A99|D Chain D, Putrescine Receptor (Potf) From E. Coli
Length = 344
Score = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 49/165 (29%), Positives = 73/165 (44%), Gaps = 29/165 (17%)
Query: 228 DPRGKIWAAPYRWGTMAIGYKKSKFQN--HNLAPIEDWKDPWWPELAGR-----ISMVNS 280
DP K +A PY W T IGY K + AP++ W PE + +S +++
Sbjct: 98 DPDNK-FAMPYMWATTGIGYNVDKVKAVLGENAPVDSWDLILKPENLEKLKSCGVSFLDA 156
Query: 281 PREVIV--------------AGGKIAVQQNLAL-LANQVRLFDSTHYLKAFGIGDVWVAV 325
P EV A +L L L +R F S+ Y+ GD+ VA+
Sbjct: 157 PEEVFATVLNYLGKDPNSTKADDYTGPATDLLLKLRPNIRYFHSSQYINDLANGDICVAI 216
Query: 326 GWSSDVLPAVKRMS------NVAVVVPKSGASLWADLWAIPAASR 364
GW+ DV A R NV+ +PK GA + D++A+PA ++
Sbjct: 217 GWAGDVWQASNRAKEAKNGVNVSFSIPKEGAMAFFDVFAMPADAK 261
>pdb|3TTN|A Chain A, Crystal Structures Of Polyamine Receptors Spud And Spue
From Pseudomonas Aeruginosa
pdb|3TTN|B Chain B, Crystal Structures Of Polyamine Receptors Spud And Spue
From Pseudomonas Aeruginosa
Length = 340
Score = 62.8 bits (151), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 47/165 (28%), Positives = 72/165 (43%), Gaps = 26/165 (15%)
Query: 226 EIDPRGKIWAAPYRWGTMAIGYKKSKFQN-HNLAPIEDWKDPWWPELAGR-----ISMVN 279
E+ G +A PY WGT IGY +K + PI+ W + PE + ++ +
Sbjct: 96 EVSDPGNQYAVPYLWGTNGIGYNVAKVKEVLGDQPIDSWAILFEPENXKKLAKCGVAFXD 155
Query: 280 SPREVIVAGGKI--------------AVQQNLALLANQVRLFDSTHYLKAFGIGDVWVAV 325
S E + A ++ L + V F S+ Y+ G++ VA
Sbjct: 156 SGDEXLPAALNYLGLDPNTHDPKDYKKAEEVLTKVRPYVSYFHSSKYISDLANGNICVAF 215
Query: 326 GWSSDVLPAVKRMS------NVAVVVPKSGASLWADLWAIPAASR 364
G+S DV A R ++ V+PK GA+LW DL AIPA ++
Sbjct: 216 GYSGDVFQAAARAEEAGKGIDIQYVIPKEGANLWFDLXAIPADAK 260
>pdb|4GL0|A Chain A, Putative SpermidinePUTRESCINE ABC TRANSPORTER FROM
LISTERIA Monocytogenes
Length = 333
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 58/203 (28%), Positives = 90/203 (44%), Gaps = 34/203 (16%)
Query: 234 WAAPYRWGTMAIGYKKSKFQNHNLAPIEDWKDPWWPELAGRISMVNSPREVIVAG----G 289
++ PY WGT+ I Y K F + N + W + PEL +I +++ REV G G
Sbjct: 108 YSXPYFWGTLGIIYNKEXFPDKNF---DTWNALFDPELKNQILLIDGAREVXGLGLNSLG 164
Query: 290 KIAVQQNLA-LLANQVRLFDSTHYLKAFGIGD----------VWVAVGWSSDVLPAVKRM 338
N A L A + +L T +KA +GD VAV +S + +
Sbjct: 165 YSLNDTNKAHLQAARDKLETXTPNVKAI-VGDEIKLLXADNEAGVAVTFSGEAAEXLSEN 223
Query: 339 SNVAVVVPKSGASLWADLWAIPAASRLETKQIGGQVRGPSPLIHQWIEFCLQTARALPFK 398
++ V+PK G++LW D IP + K + G H++I F L+ A
Sbjct: 224 EDLEYVIPKDGSNLWFDNXVIPKTA----KNVDGA--------HKFINFXLKPENA-AIN 270
Query: 399 QEVIPGASPSALESTLVKLPEEL 421
E + A+P+A L LP+E+
Sbjct: 271 AEYVGYATPNAKAVEL--LPKEI 291
>pdb|3TTM|A Chain A, Crystal Structure Of Spud In Complex With Putrescine
pdb|3TTM|B Chain B, Crystal Structure Of Spud In Complex With Putrescine
Length = 346
Score = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 62/226 (27%), Positives = 93/226 (41%), Gaps = 36/226 (15%)
Query: 226 EIDPRGKIWAAPYRWGTMAIGYKKSKFQN--HNLAPIEDWKDPWWPELAGR-----ISMV 278
E+ G A PY WGT+ IGY K + + AP++ W + PE + +S +
Sbjct: 99 EVSDPGNEHAIPYMWGTIGIGYNPDKVKAAFGDNAPVDSWDLVFKPENIQKLKQCGVSFL 158
Query: 279 NSPREVIVA-----GGKIAVQQNLALLANQ---------VRLFDSTHYLKAFGIGDVWVA 324
+SP E++ A G K L A + V F S+ Y+ G++ VA
Sbjct: 159 DSPTEILPAALHYLGYKPDTDNPKELKAAEELFLKIRPYVTYFHSSKYISDLANGNICVA 218
Query: 325 VGWSSDVLPAVKRMS------NVAVVVPKSGASLWADLWAIPAASRLETKQIG--GQVRG 376
+G+S D+ A R V +PK GA + D+ AIP + + +
Sbjct: 219 IGYSGDIYQAKSRAEEAKNKVTVKYNIPKEGAGSFFDMVAIPKDAENTEGALAFVNFLMK 278
Query: 377 PSPL--IHQWIEFCLQTARALPFKQEVI---PGASPSALESTLVKL 417
P + I ++F A A P E I PG PS E + KL
Sbjct: 279 PEIMAEITDVVQFPNGNAAATPLVSEAIRNDPGIYPS--EEVMKKL 322
>pdb|3TTK|A Chain A, Crystal Structure Of Apo-Spud
pdb|3TTK|B Chain B, Crystal Structure Of Apo-Spud
pdb|3TTK|C Chain C, Crystal Structure Of Apo-Spud
Length = 345
Score = 59.3 bits (142), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 62/226 (27%), Positives = 93/226 (41%), Gaps = 36/226 (15%)
Query: 226 EIDPRGKIWAAPYRWGTMAIGYKKSKFQN--HNLAPIEDWKDPWWPELAGR-----ISMV 278
E+ G A PY WGT+ IGY K + + AP++ W + PE + +S +
Sbjct: 99 EVSDPGNEHAIPYMWGTIGIGYNPDKVKAAFGDNAPVDSWDLVFKPENIQKLKQCGVSFL 158
Query: 279 NSPREVIVA-----GGKIAVQQNLALLANQ---------VRLFDSTHYLKAFGIGDVWVA 324
+SP E++ A G K L A + V F S+ Y+ G++ VA
Sbjct: 159 DSPTEILPAALHYLGYKPDTDNPKELKAAEELFLKIRPYVTYFHSSKYISDLANGNICVA 218
Query: 325 VGWSSDVLPAVKRMS------NVAVVVPKSGASLWADLWAIPAASRLETKQIG--GQVRG 376
+G+S D+ A R V +PK GA + D+ AIP + + +
Sbjct: 219 IGYSGDIYQAKSRAEEAKNKVTVKYNIPKEGAGSFFDMVAIPKDAENTEGALAFVNFLMK 278
Query: 377 PSPL--IHQWIEFCLQTARALPFKQEVI---PGASPSALESTLVKL 417
P + I ++F A A P E I PG PS E + KL
Sbjct: 279 PEIMAEITDVVQFPNGNAAATPLVSEAIRNDPGIYPS--EEVMKKL 322
>pdb|1POY|1 Chain 1, SpermidinePUTRESCINE-Binding Protein Complexed With
Spermidine (Dimer Form)
pdb|1POY|2 Chain 2, SpermidinePUTRESCINE-Binding Protein Complexed With
Spermidine (Dimer Form)
pdb|1POY|3 Chain 3, SpermidinePUTRESCINE-Binding Protein Complexed With
Spermidine (Dimer Form)
pdb|1POY|4 Chain 4, SpermidinePUTRESCINE-Binding Protein Complexed With
Spermidine (Dimer Form)
Length = 323
Score = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 41/152 (26%), Positives = 62/152 (40%), Gaps = 18/152 (11%)
Query: 227 IDPRGKIWAAPYRWGTMAIGYKKSKFQNHNLAPIEDWKDPWWPELAGRISMVNSPREVI- 285
DP ++ PY WG AIG + + W D W PE G + + + REV
Sbjct: 94 FDPNND-YSIPYIWGATAIGVNGDAVDPKS---VTSWADLWKPEYKGSLLLTDDAREVFQ 149
Query: 286 VAGGKIAVQQN-------------LALLANQVRLFDSTHYLKAFGIGDVWVAVGWSSDVL 332
+A K+ N L L V F+S + + G+V + + W+
Sbjct: 150 MALRKLGYSGNTTDPKEIEAAYNELKKLMPNVAAFNSDNPANPYMEGEVNLGMIWNGSAF 209
Query: 333 PAVKRMSNVAVVVPKSGASLWADLWAIPAASR 364
A + + + VV PK G W D AIPA ++
Sbjct: 210 VARQAGTPIDVVWPKEGGIFWMDSLAIPANAK 241
>pdb|1POT|A Chain A, Spermidine/putrescine-binding Protein Complexed With
Spermidine (monomer Form)
Length = 325
Score = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 41/152 (26%), Positives = 62/152 (40%), Gaps = 18/152 (11%)
Query: 227 IDPRGKIWAAPYRWGTMAIGYKKSKFQNHNLAPIEDWKDPWWPELAGRISMVNSPREVI- 285
DP ++ PY WG AIG + + W D W PE G + + + REV
Sbjct: 96 FDPNND-YSIPYIWGATAIGVNGDAVDPKS---VTSWADLWKPEYKGSLLLTDDAREVFQ 151
Query: 286 VAGGKIAVQQN-------------LALLANQVRLFDSTHYLKAFGIGDVWVAVGWSSDVL 332
+A K+ N L L V F+S + + G+V + + W+
Sbjct: 152 MALRKLGYSGNTTDPKEIEAAYNELKKLMPNVAAFNSDNPANPYMEGEVNLGMIWNGSAF 211
Query: 333 PAVKRMSNVAVVVPKSGASLWADLWAIPAASR 364
A + + + VV PK G W D AIPA ++
Sbjct: 212 VARQAGTPIDVVWPKEGGIFWMDSLAIPANAK 243
>pdb|4EQB|A Chain A, 1.5 Angstrom Crystal Structure Of SpermidinePUTRESCINE ABC
Transporter Substrate-Binding Protein From Streptococcus
Pneumoniae Strain Canada Mdr_19a In Complex With Calcium
And Hepes.
pdb|4EQB|B Chain B, 1.5 Angstrom Crystal Structure Of SpermidinePUTRESCINE ABC
Transporter Substrate-Binding Protein From Streptococcus
Pneumoniae Strain Canada Mdr_19a In Complex With Calcium
And Hepes
Length = 330
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 60/222 (27%), Positives = 93/222 (41%), Gaps = 39/222 (17%)
Query: 227 IDPRGKIWAAPYRWGTMAIGYKKSKFQNHNLAPIEDWKDPWWPELAGRISMVNSPREVIV 286
DP G ++ PY WGT+ I Y ++ AP E W D W E I + + REV+
Sbjct: 100 FDP-GNKFSIPYFWGTLGIVYNETMVDE---AP-EHWDDLWKLEYKNSIMLFDGAREVLG 154
Query: 287 AG----GKIAVQQNLALLANQV-RLFDSTHYLKAFGIGD----------VWVAVGWSSDV 331
G G ++ L V +L+ T +KA + D V + V +S +
Sbjct: 155 LGLNSLGYSLNSKDPQQLEETVDKLYKLTPNIKAI-VADEMKGYMIQNNVAIGVTFSGEA 213
Query: 332 LPAVKRMSNVAVVVPKSGASLWADLWAIPAASRLETKQIGGQVRGPSPLIHQWIEFCLQT 391
+++ N+ VVP ++LW D IP K + Q + +I F L+
Sbjct: 214 SQMLEKNENLRYVVPTEASNLWFDNMVIP-------KTVKNQDSA-----YAFINFMLKP 261
Query: 392 ARALPFKQEVIPGASPSALESTLVKLPEELLKGK---PSVDT 430
AL E + ++P+ L LPEE + K P V+T
Sbjct: 262 ENALQ-NAEYVGYSTPNLPAKEL--LPEETKEDKAFYPDVET 300
>pdb|2V84|A Chain A, Crystal Structure Of The Tp0655 (Tppotd) Lipoprotein Of
Treponema Pallidum
Length = 343
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 49/189 (25%), Positives = 76/189 (40%), Gaps = 37/189 (19%)
Query: 228 DPRGKIWAAPYRWGTMAIGYKKSKFQNHNLAPIEDWKDPWWPELAGRISMVNSPREVIVA 287
DP+ + ++ PY G I K ++ W +LA R+SM++ REV+ A
Sbjct: 118 DPKME-YSVPYYLGAAGIAVNKKAVPSY----ARTWSIFSRKDLAYRMSMMDDMREVMGA 172
Query: 288 -----GGKIAV--QQNLALLA---------NQVRLFDSTHYLKAFGIGDVWVAVGWSSDV 331
G + +Q LA A N V+ FDS Y K+F GD VA G++
Sbjct: 173 ALASLGYNVNTKNEQELAQAAILVTDHWKPNLVK-FDSDGYAKSFASGDFVVAHGFAEAF 231
Query: 332 LPAV--KRMSNVAVVVPKSGAS-LWADLWAIPAASRLETKQIGGQVRGPSPLIHQWIEFC 388
++ +P+ AS ++ D + IP +R L H +I F
Sbjct: 232 FAETPEAMHEHIDFFIPQDVASPVYVDSFCIPKGAR------------NRDLAHAFINFF 279
Query: 389 LQTARALPF 397
L+ A F
Sbjct: 280 LEPAHYAEF 288
>pdb|4EDP|A Chain A, 1.85 Angstrom Resolution Crystal Structure Of An Abc
Transporter From Clostridium Perfringens Atcc 13124
pdb|4EDP|B Chain B, 1.85 Angstrom Resolution Crystal Structure Of An Abc
Transporter From Clostridium Perfringens Atcc 13124
Length = 351
Score = 32.3 bits (72), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 42/168 (25%), Positives = 66/168 (39%), Gaps = 38/168 (22%)
Query: 260 IEDWKDPWWPELAGRISM-----VNSPREVIVAG-----------GKIAVQQNLALLANQ 303
I W+D W PEL +I++ N P V +A G+ A ++ AL N
Sbjct: 153 INSWEDLWKPELKNKIAIPDITTTNGPAMVEIAAEKAGVDVKTDNGEAAFKELEALKPNV 212
Query: 304 VRLFD-STHYLKAFGIGDVWVAVGWSSDVLPAVKRMSNVAVVVPKSGASLWADLWAIPAA 362
V+ + S+ F G++ AV K V V+P+SG L + I
Sbjct: 213 VKTYSKSSDLANMFSNGEIVAAVASDFAFGTISKAKPEVINVIPESGTYLNFNTININKN 272
Query: 363 SRLETKQIGGQVRGPSPLIHQWIEFCL------QTARAL---PFKQEV 401
S+ L +++I + L +TA+AL P +EV
Sbjct: 273 SK------------NKDLAYEFINYALSKEVQEKTAKALNESPVNKEV 308
>pdb|1LZK|A Chain A, Bacterial Heroin Esterase Complex With Transition State
Analog Dimethylarsenic Acid
Length = 323
Score = 29.6 bits (65), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 214 KWKVYLRSNDAGEIDPRGKIWAAPYRWGTMAIGYKKSKFQNHNLAPIED 262
WK YL + +G DP I+AAP R T G + L P+ D
Sbjct: 217 SWKYYLGESYSGPEDPDVSIYAAPSR-ATDLTGLPPTYLSTXELDPLRD 264
>pdb|1LZL|A Chain A, Bacterial Heroin Esterase
Length = 323
Score = 29.6 bits (65), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 214 KWKVYLRSNDAGEIDPRGKIWAAPYRWGTMAIGYKKSKFQNHNLAPIED 262
WK YL + +G DP I+AAP R T G + L P+ D
Sbjct: 217 SWKYYLGESYSGPEDPDVSIYAAPSR-ATDLTGLPPTYLSTMELDPLRD 264
>pdb|2XPI|A Chain A, Crystal Structure Of ApcC HETERO-Tetramer Cut9-Hcn1
pdb|2XPI|D Chain D, Crystal Structure Of ApcC HETERO-Tetramer Cut9-Hcn1
Length = 597
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 24/108 (22%), Positives = 48/108 (44%), Gaps = 3/108 (2%)
Query: 318 IGDVWVAVGWSSDVLPAVKRMSNVAVVVPKSGASL--WADLWAIPAASRLETKQIGGQVR 375
+ ++ V SD+ A+ N ++V K+ ++ WA WA + + K +
Sbjct: 478 LNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAID 537
Query: 376 GPSP-LIHQWIEFCLQTARALPFKQEVIPGASPSALESTLVKLPEELL 422
+ L+ + + TA AL + + IPG + + L +L P E++
Sbjct: 538 ALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIM 585
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 0.134 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,431,564
Number of Sequences: 62578
Number of extensions: 487250
Number of successful extensions: 1158
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1134
Number of HSP's gapped (non-prelim): 18
length of query: 439
length of database: 14,973,337
effective HSP length: 102
effective length of query: 337
effective length of database: 8,590,381
effective search space: 2894958397
effective search space used: 2894958397
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: 53 (25.0 bits)