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= 038622
(587 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 31/130 (23%), Positives = 54/130 (41%), Gaps = 11/130 (8%)
Query: 137 KVGHVKQALEVMDMMLQEGFDPDVFTYNSLISGLCKLGE----------VEEAVEILNQM 186
K G V +AL + D + G + YN L+ +C L E + +I QM
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLLY-VCSLAEAATESSPNPGLSRGFDIFKQM 96
Query: 187 ILRDCSPNTITYNTLISTLCKENQVEEATELARVLTSKGILPDVCTFNSLIQGLCLTSNF 246
I+ PN T+ ++ E A ++ + + + GI P + ++ + G C +
Sbjct: 97 IVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDA 156
Query: 247 DVAMELFQEM 256
D A E+ M
Sbjct: 157 DKAYEVDAHM 166
Score = 38.1 bits (87), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 36/68 (52%)
Query: 357 LMDQMIMEGLKPDKFTYNSLLTYYCRAGDIKRAADIVQNMTSNGCEPDIVTYGTLIGGLC 416
+ QMI++ + P++ T+ + D + A D+V+ M + G +P + +YG + G C
Sbjct: 92 IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFC 151
Query: 417 KAGRVEVA 424
+ G + A
Sbjct: 152 RKGDADKA 159
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 32/180 (17%), Positives = 73/180 (40%), Gaps = 11/180 (6%)
Query: 102 KEGRIEDALSFIQEMVSEGFNPDQFTYNTLVNGLCKVGH----------VKQALEVMDMM 151
K+G + +AL E G Q+ YN L+ +C + + + ++ M
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLLY-VCSLAEAATESSPNPGLSRGFDIFKQM 96
Query: 152 LQEGFDPDVFTYNSLISGLCKLGEVEEAVEILNQMILRDCSPNTITYNTLISTLCKENQV 211
+ + P+ T+ + + E A +++ QM P +Y + C++
Sbjct: 97 IVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDA 156
Query: 212 EEATELARVLTSKGILPDVCTFNSLIQGLCLTSNFDVAMELFQEMKTKGCQPDEFTYNML 271
++A E+ + ++P+ +L++ T N D + Q ++ Q + T++M+
Sbjct: 157 DKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMI 216
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 37.0 bits (84), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 29/126 (23%), Positives = 50/126 (39%), Gaps = 11/126 (8%)
Query: 137 KVGHVKQALEVMDMMLQEGFDPDVFTYNSLISGLCKLGE----------VEEAVEILNQM 186
K G V +AL + D + G + YN L+ +C L E + +I Q
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLLY-VCSLAEAATESSPNPGLSRGFDIFKQX 96
Query: 187 ILRDCSPNTITYNTLISTLCKENQVEEATELARVLTSKGILPDVCTFNSLIQGLCLTSNF 246
I+ PN T+ ++ E A + + + GI P + ++ + G C +
Sbjct: 97 IVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDA 156
Query: 247 DVAMEL 252
D A E+
Sbjct: 157 DKAYEV 162
Score = 32.7 bits (73), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 33/68 (48%)
Query: 357 LMDQMIMEGLKPDKFTYNSLLTYYCRAGDIKRAADIVQNMTSNGCEPDIVTYGTLIGGLC 416
+ Q I++ + P++ T+ + D + A D V+ + G +P + +YG + G C
Sbjct: 92 IFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFC 151
Query: 417 KAGRVEVA 424
+ G + A
Sbjct: 152 RKGDADKA 159
>pdb|2JBR|A Chain A, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumanni
pdb|2JBR|B Chain B, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumanni
pdb|2JBR|C Chain C, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumanni
pdb|2JBR|D Chain D, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumanni
pdb|2JBS|A Chain A, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumannii
pdb|2JBS|B Chain B, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumannii
pdb|2JBS|C Chain C, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumannii
pdb|2JBS|D Chain D, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumannii
pdb|2JBT|A Chain A, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumannii
pdb|2JBT|B Chain B, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumannii
pdb|2JBT|C Chain C, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumannii
pdb|2JBT|D Chain D, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumannii
Length = 422
Score = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 1/75 (1%)
Query: 10 DMVSRGIKPDVSTFNILIKALCKAHQIRPAILMME-EMPGYGLAPDERTFTTLMQGLIEE 68
+ ++ IK S L+ ++I A MME + G+GL PD + F T +
Sbjct: 209 NWYAQAIKSSGSKMLKLVNVFIPEYRISKAKDMMEGKSAGFGLYPDSKIFYTPYRPYFAS 268
Query: 69 GNLDGALRIREQMVE 83
G +L I E+M+E
Sbjct: 269 GFSAVSLGIAERMIE 283
>pdb|3T3C|A Chain A, Structure Of Hiv Pr Resistant Patient Derived Mutant
(Comprising 22 Mutations) In Complex With Drv
pdb|3T3C|B Chain B, Structure Of Hiv Pr Resistant Patient Derived Mutant
(Comprising 22 Mutations) In Complex With Drv
Length = 99
Score = 31.2 bits (69), Expect = 1.6, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 30/51 (58%), Gaps = 3/51 (5%)
Query: 517 LAEGLVSLGKEETLVELIDMVMDKAKFSDRETSMVRGFLKIRKFQDALATF 567
L E L+ G ++T++E ID+ K+S + + + GF+K+R++ L F
Sbjct: 19 LIEVLLDTGADDTVIEDIDL---PGKWSPKMIAGIGGFVKVRQYDQILIEF 66
>pdb|2P3D|A Chain A, Crystal Structure Of The Multi-Drug Resistant Mutant
Subtype F Hiv Protease Complexed With Tl-3 Inhibitor
pdb|2P3D|B Chain B, Crystal Structure Of The Multi-Drug Resistant Mutant
Subtype F Hiv Protease Complexed With Tl-3 Inhibitor
Length = 99
Score = 31.2 bits (69), Expect = 1.6, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 30/48 (62%), Gaps = 3/48 (6%)
Query: 517 LAEGLVSLGKEETLVELIDMVMDKAKFSDRETSMVRGFLKIRKFQDAL 564
L E L+ G ++T++E I++ K+ + +RGF+K+++++D L
Sbjct: 19 LREALLDTGADDTVLEDINL---SGKWKPKIIGGIRGFVKVKQYEDIL 63
>pdb|4DIV|S Chain S, The Structure Of A 1.8 Mda Viral Genome Injection Device
Suggests Alternative Infection Mechanisms
pdb|4DIV|T Chain T, The Structure Of A 1.8 Mda Viral Genome Injection Device
Suggests Alternative Infection Mechanisms
pdb|4DIV|U Chain U, The Structure Of A 1.8 Mda Viral Genome Injection Device
Suggests Alternative Infection Mechanisms
pdb|4DIV|V Chain V, The Structure Of A 1.8 Mda Viral Genome Injection Device
Suggests Alternative Infection Mechanisms
pdb|4DIV|W Chain W, The Structure Of A 1.8 Mda Viral Genome Injection Device
Suggests Alternative Infection Mechanisms
pdb|4DIV|X Chain X, The Structure Of A 1.8 Mda Viral Genome Injection Device
Suggests Alternative Infection Mechanisms
Length = 253
Score = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 36/77 (46%), Gaps = 3/77 (3%)
Query: 9 ADMVSRGIKPDVSTFNILIKALCKAHQIRPAILMMEEMPGYGLAPDERTFTTLMQGLIEE 68
AD V+ +S+F +L K +I+ + E+ Y + PD+ +F L +GL+
Sbjct: 124 ADNVAGDTNSIISSFTVLCSDPFKHGKIQSVKNKVIEVLPYPVKPDKLSFKLLTEGLLA- 182
Query: 69 GNLDGALRIREQMVEHG 85
DG R++ + G
Sbjct: 183 --TDGNYRLKSSQAKKG 197
>pdb|1LHP|A Chain A, Crystal Structure Of Pyridoxal Kinase From Sheep Brain
pdb|1LHP|B Chain B, Crystal Structure Of Pyridoxal Kinase From Sheep Brain
pdb|1LHR|A Chain A, Crystal Structure Of Pyridoxal Kinase Complexed With Atp
pdb|1LHR|B Chain B, Crystal Structure Of Pyridoxal Kinase Complexed With Atp
pdb|1RFT|A Chain A, Crystal Structure Of Pyridoxal Kinase Complexed With Amp-
Pcp And Pyridoxamine
pdb|1RFU|A Chain A, Crystal Structure Of Pyridoxal Kinase Complexed With Adp
And Plp
pdb|1RFU|B Chain B, Crystal Structure Of Pyridoxal Kinase Complexed With Adp
And Plp
pdb|1RFU|C Chain C, Crystal Structure Of Pyridoxal Kinase Complexed With Adp
And Plp
pdb|1RFU|D Chain D, Crystal Structure Of Pyridoxal Kinase Complexed With Adp
And Plp
pdb|1RFU|E Chain E, Crystal Structure Of Pyridoxal Kinase Complexed With Adp
And Plp
pdb|1RFU|F Chain F, Crystal Structure Of Pyridoxal Kinase Complexed With Adp
And Plp
pdb|1RFU|G Chain G, Crystal Structure Of Pyridoxal Kinase Complexed With Adp
And Plp
pdb|1RFU|H Chain H, Crystal Structure Of Pyridoxal Kinase Complexed With Adp
And Plp
pdb|1RFV|A Chain A, Crystal Structure Of Pyridoxal Kinase Complexed With Adp
pdb|1RFV|B Chain B, Crystal Structure Of Pyridoxal Kinase Complexed With Adp
pdb|1YGJ|A Chain A, Crystal Structure Of Pyridoxal Kinase In Complex With
Roscovitine And Derivatives
pdb|1YGK|A Chain A, Crystal Structure Of Pyridoxal Kinase In Complex With
Roscovitine And Derivatives
pdb|1YHJ|A Chain A, Crystal Structure Of Pyridoxal Kinase In Complex With
Roscovitine And Derivatives
Length = 312
Score = 29.6 bits (65), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 117 VSEGFNPDQFTYNTLVNGLCKVGHVKQALEVMDMMLQEGFDPDVFTYNSLIS 168
V++ P+QF L K+ ++ALEVMDM+ G D V T ++L+S
Sbjct: 143 VADIITPNQFEAELLTGR--KIHSQEEALEVMDMLHSMGPDTVVITSSNLLS 192
>pdb|1KH1|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase
pdb|1KH1|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase
pdb|1KH1|C Chain C, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase
pdb|1KH1|D Chain D, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase
pdb|1KH2|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Atp
pdb|1KH2|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Atp
pdb|1KH2|C Chain C, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Atp
pdb|1KH2|D Chain D, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Atp
pdb|1KOR|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Inhibitors
pdb|1KOR|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Inhibitors
pdb|1KOR|C Chain C, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Inhibitors
pdb|1KOR|D Chain D, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Inhibitors
pdb|1J1Z|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Substrate
pdb|1J1Z|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Substrate
pdb|1J1Z|C Chain C, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Substrate
pdb|1J1Z|D Chain D, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Substrate
pdb|1J20|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Product
pdb|1J20|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Product
pdb|1J20|C Chain C, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Product
pdb|1J20|D Chain D, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Product
pdb|1J21|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Atp And
Citrulline
pdb|1J21|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Atp And
Citrulline
pdb|1J21|C Chain C, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Atp And
Citrulline
pdb|1J21|D Chain D, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Atp And
Citrulline
pdb|1KH3|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Inhibitor
pdb|1KH3|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Inhibitor
pdb|1KH3|C Chain C, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Inhibitor
pdb|1KH3|D Chain D, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Inhibitor
Length = 400
Score = 29.3 bits (64), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 5/60 (8%)
Query: 412 IGGLCKAGRVEVASKLLRSIQMKGIVLTPQAYNPVIQALFRRKRTTEAMRLFREMMEKAD 471
IGG GRV++ ++ +G+ TP L+ +R E++ L RE++ + D
Sbjct: 245 IGGRHGVGRVDIVENRFVGMKSRGVYETPGG-----TILYHARRAVESLTLDREVLHQRD 299
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 29.3 bits (64), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 15/62 (24%), Positives = 32/62 (51%), Gaps = 4/62 (6%)
Query: 128 YNTLVNGLCKVGHVKQALEVMDMMLQEGFDPDVFTYNSLISGLCK----LGEVEEAVEIL 183
YN ++ G + G K+ + V+ M+ G PD+ +Y + + + + G +E +E +
Sbjct: 168 YNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQM 227
Query: 184 NQ 185
+Q
Sbjct: 228 SQ 229
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
0.322 0.138 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,116,287
Number of Sequences: 62578
Number of extensions: 559915
Number of successful extensions: 1302
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1283
Number of HSP's gapped (non-prelim): 24
length of query: 587
length of database: 14,973,337
effective HSP length: 104
effective length of query: 483
effective length of database: 8,465,225
effective search space: 4088703675
effective search space used: 4088703675
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)