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= 012418
(464 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3T15|A Chain A, Structure Of Green-Type Rubisco Activase From Tobacco
pdb|3ZW6|A Chain A, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|B Chain B, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|C Chain C, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|D Chain D, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|E Chain E, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|F Chain F, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco
Length = 293
Score = 530 bits (1364), Expect = e-151, Method: Compositional matrix adjust.
Identities = 252/293 (86%), Positives = 269/293 (91%), Gaps = 11/293 (3%)
Query: 124 SLDNTLDGLYIAPAFMDKVVVHITKNFLNLPNVKVPLILGIWGGKGQGKSFQCELVFAKM 183
+LDN LDG YIAPAFMDK+VVHITKNFL LPN+KVPLILGIWGGKGQGKSFQCELVF KM
Sbjct: 1 NLDNKLDGFYIAPAFMDKLVVHITKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKM 60
Query: 184 GIN-----------GNAGEPAKLIRQRYREAADIIKKGKMCCLFINDLDAGAGRMGGTTQ 232
GIN GNAGEPAKLIRQRYREAA+II+KG MCCLFINDLDAGAGRMGGTTQ
Sbjct: 61 GINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQ 120
Query: 233 YTVNNQMVNATLMNIADNPTNVQLPGMYNQEENPRVPIIVTGNDFSTLYAPLIRDGRMEK 292
YTVNNQMVNATLMNIADNPTNVQLPGMYN++EN RVPIIVTGNDFSTLYAPLIRDGRMEK
Sbjct: 121 YTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEK 180
Query: 293 FYWAPTREDRIGVCSGIFRTDNVPKEDIVKLVDTFPGQSIDFFGALRARVYDDEVRKWIS 352
FYWAPTREDRIGVC+GIFRTDNVP ED+VK+VD FPGQSIDFFGALRARVYDDEVRKW+S
Sbjct: 181 FYWAPTREDRIGVCTGIFRTDNVPAEDVVKIVDNFPGQSIDFFGALRARVYDDEVRKWVS 240
Query: 353 EVGIERIGKRLVNSKEGPPTFEQPKMTLDKLLEYGRMLVQEQENVKRVQLADK 405
GIE+IG +L+NS +GPPTFEQPKMT++KLLEYG MLVQEQENVKRVQLADK
Sbjct: 241 GTGIEKIGDKLLNSFDGPPTFEQPKMTIEKLLEYGNMLVQEQENVKRVQLADK 293
>pdb|3THG|A Chain A, Crystal Structure Of The Creosote Rubisco Activase
C-Domain
Length = 107
Score = 188 bits (477), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 89/102 (87%), Positives = 96/102 (94%)
Query: 298 TREDRIGVCSGIFRTDNVPKEDIVKLVDTFPGQSIDFFGALRARVYDDEVRKWISEVGIE 357
TREDRIGVC GIFRTDNV +DIVKLVDTFPGQSIDFFGALRARVYDDEVRKW+SEVG++
Sbjct: 6 TREDRIGVCKGIFRTDNVADDDIVKLVDTFPGQSIDFFGALRARVYDDEVRKWVSEVGVD 65
Query: 358 RIGKRLVNSKEGPPTFEQPKMTLDKLLEYGRMLVQEQENVKR 399
IGK+LVNSKEGPP+FEQPKMT+DKLL YG MLVQEQENVKR
Sbjct: 66 TIGKKLVNSKEGPPSFEQPKMTIDKLLGYGGMLVQEQENVKR 107
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 49/194 (25%), Positives = 87/194 (44%), Gaps = 31/194 (15%)
Query: 156 VKVPLILGIWGGKGQGKSFQCELVFAKMGIN-----------GNAGEPAKLIRQRYREAA 204
+K P + ++G G GK+ + V A +G N GE A++IR+ + A
Sbjct: 212 IKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGESARIIREMFAYA- 270
Query: 205 DIIKKGKMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNQEE 264
K+ + C +F++++DA GR ++ T ++ + TLM + Q+ G N +
Sbjct: 271 ---KEHEPCIIFMDEVDAIGGRR--FSEGTSADREIQRTLMELL-----TQMDGFDNLGQ 320
Query: 265 NPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTRED--RIGV----CSGIFRTDNVPKE 318
II+ N TL L+R GR+++ P + R+ + + + +T E
Sbjct: 321 ---TKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFDFE 377
Query: 319 DIVKLVDTFPGQSI 332
VK+ D F G I
Sbjct: 378 AAVKMSDGFNGADI 391
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 33.9 bits (76), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 44/195 (22%), Positives = 78/195 (40%), Gaps = 33/195 (16%)
Query: 156 VKVPLILGIWGGKGQGKSF-------QCELVFAKMG----INGNAGEPAKLIRQRYREAA 204
++ P ++G G GK+ Q F K+ + GE AKL+R +A
Sbjct: 212 IRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQMYIGEGAKLVR----DAF 267
Query: 205 DIIKKGKMCCLFINDLDA-GAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNQE 263
+ K+ +FI++LDA G R Q L+N QL G + +
Sbjct: 268 ALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLN--------QLDGFSSDD 319
Query: 264 ENPRVPIIVTGNDFSTLYAPLIRDGRMEK--FYWAPTREDRIGVCSGIFRT----DNVPK 317
RV ++ N L L+R GR+++ + P+ + R + R D++
Sbjct: 320 ---RVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDINW 376
Query: 318 EDIVKLVDTFPGQSI 332
+++ + D F G +
Sbjct: 377 QELARSTDEFNGAQL 391
>pdb|2JEO|A Chain A, Crystal Structure Of Human Uridine-Cytidine Kinase 1
pdb|2UVQ|A Chain A, Crystal Structure Of Human Uridine-Cytidine Kinase 1 In
Complex With Adp
Length = 245
Score = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 29/113 (25%), Positives = 52/113 (46%), Gaps = 13/113 (11%)
Query: 159 PLILGIWGGKGQGKSFQCELVFAKMGINGNAGEPAKLIRQRYREAADIIKKGKMCCLFIN 218
P ++G+ GG GKS CE + +G N + QR R+ I+ + + +
Sbjct: 25 PFLIGVSGGTASGKSTVCEKIMELLGQNE--------VEQRQRKVV-ILSQDRFYKVLTA 75
Query: 219 DLDAGA--GRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNQEENPRVP 269
+ A A G+ +N +++ TL NI + T V++P Y+ + R+P
Sbjct: 76 EQKAKALKGQYNFDHPDAFDNDLMHRTLKNIVEGKT-VEVP-TYDFVTHSRLP 126
>pdb|1ZIX|A Chain A, Crystal Structure Analysis Of The Dienelactone Hydrolase
Mutant (E36d, R105h, C123s, G211d, K234n)- 1.8 A
Length = 236
Score = 33.5 bits (75), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 31/70 (44%), Gaps = 4/70 (5%)
Query: 101 MESGTHYAVMSSYDYISQGLRQYSLDNTLDGLYIAPAFMDKVV----VHITKNFLNLPNV 156
+E+ HYA Y GL YSL L L A ++D+ V V + K +P V
Sbjct: 100 LEAAIHYARHQPYSNGKVGLVGYSLGGALAFLVAAKGYVDRAVGYYGVGLEKQLNKVPEV 159
Query: 157 KVPLILGIWG 166
K P + + G
Sbjct: 160 KHPALFHMGG 169
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 32.3 bits (72), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 36/150 (24%), Positives = 70/150 (46%), Gaps = 25/150 (16%)
Query: 164 IWGGKGQGKSFQCELVF-----AKMGINGNA------GEPAKLIRQRYREAADIIKKGKM 212
++G G GK+ + V A + +NG+ GE +++R +R A ++
Sbjct: 211 LYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKYLGEGPRMVRDVFRLA----RENAP 266
Query: 213 CCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNQEENPRVPIIV 272
+FI+++D+ A + T +++ V L+ + Q+ G ++Q N V +I+
Sbjct: 267 SIIFIDEVDSIATKRFDAQ--TGSDREVQRILIELL-----TQMDG-FDQSTN--VKVIM 316
Query: 273 TGNDFSTLYAPLIRDGRMEKFYWAPTREDR 302
N TL L+R GR+++ P+ DR
Sbjct: 317 ATNRADTLDPALLRPGRLDRKIEFPSLRDR 346
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 46/197 (23%), Positives = 88/197 (44%), Gaps = 37/197 (18%)
Query: 156 VKVPLILGIWGGKGQGKSF-------QCELVFAKMG----INGNAGEPAKLIRQRYREAA 204
+K P + ++G G GK+ Q F ++ I G+ +L RQ ++ A
Sbjct: 213 IKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQKYLGDGPRLCRQIFKVAG 272
Query: 205 DIIKKGKMCCLFINDLDAGAGRMGGTTQYTVNN---QMVNATLMNIADNPTNVQLPGMYN 261
+ +FI+++DA GT +Y N+ + + T++ + + QL G +
Sbjct: 273 E----NAPSIVFIDEIDAI-----GTKRYDSNSGGEREIQRTMLELLN-----QLDGFDD 318
Query: 262 QEENPRVPIIVTGNDFSTLYAPLIRDGRMEK--FYWAP---TREDRIGV-CSGIFRTDNV 315
+ + V +I+ N TL LIR GR+++ + P T++ +G+ S + +++V
Sbjct: 319 RGD---VKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDV 375
Query: 316 PKEDIVKLVDTFPGQSI 332
E +V D G I
Sbjct: 376 NLETLVTTKDDLSGADI 392
>pdb|1ZI6|A Chain A, Crystal Structure Analysis Of The Dienelactone Hydrolase
(c123s) Mutant- 1.7 A
Length = 236
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 30/70 (42%), Gaps = 4/70 (5%)
Query: 101 MESGTHYAVMSSYDYISQGLRQYSLDNTLDGLYIAPAFMDKVV----VHITKNFLNLPNV 156
+E+ YA Y GL YSL L L A ++D+ V V + K +P V
Sbjct: 100 LEAAIRYARHQPYSNGKVGLVGYSLGGALAFLVAAKGYVDRAVGYYGVGLEKQLNKVPEV 159
Query: 157 KVPLILGIWG 166
K P + + G
Sbjct: 160 KHPALFHMGG 169
>pdb|1ZI9|A Chain A, Crystal Structure Analysis Of The Dienelactone Hydrolase
(e36d, C123s) Mutant- 1.5 A
Length = 236
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 30/70 (42%), Gaps = 4/70 (5%)
Query: 101 MESGTHYAVMSSYDYISQGLRQYSLDNTLDGLYIAPAFMDKVV----VHITKNFLNLPNV 156
+E+ YA Y GL YSL L L A ++D+ V V + K +P V
Sbjct: 100 LEAAIRYARHQPYSNGKVGLVGYSLGGALAFLVAAKGYVDRAVGYYGVGLEKQLNKVPEV 159
Query: 157 KVPLILGIWG 166
K P + + G
Sbjct: 160 KHPALFHMGG 169
>pdb|1ZIC|A Chain A, Crystal Structure Analysis Of The Dienelactone Hydrolase
(c123s, R206a) Mutant- 1.7 A
Length = 236
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 30/70 (42%), Gaps = 4/70 (5%)
Query: 101 MESGTHYAVMSSYDYISQGLRQYSLDNTLDGLYIAPAFMDKVV----VHITKNFLNLPNV 156
+E+ YA Y GL YSL L L A ++D+ V V + K +P V
Sbjct: 100 LEAAIRYARHQPYSNGKVGLVGYSLGGALAFLVAAKGYVDRAVGYYGVGLEKQLNKVPEV 159
Query: 157 KVPLILGIWG 166
K P + + G
Sbjct: 160 KHPALFHMGG 169
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 27/99 (27%), Positives = 41/99 (41%), Gaps = 20/99 (20%)
Query: 199 RYREAADIIKKGKMCCLFINDLDA-----GAGRMGGTTQYTVNNQMVNATLMNIADNPTN 253
R R+ + KK C +FI+++DA GAG GG + Q +N L+
Sbjct: 92 RVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDE---REQTLNQMLVE------- 141
Query: 254 VQLPGMYNQEENPRVPIIVTGNDFSTLYAPLIRDGRMEK 292
M E N + +I N L L+R GR ++
Sbjct: 142 -----MDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDR 175
>pdb|1ZI8|A Chain A, Crystal Structure Analysis Of The Dienelactone Hydrolase
Mutant(E36d, C123s, A134s, S208g, A229v, K234r)- 1.4 A
Length = 236
Score = 28.9 bits (63), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 30/70 (42%), Gaps = 4/70 (5%)
Query: 101 MESGTHYAVMSSYDYISQGLRQYSLDNTLDGLYIAPAFMDKVV----VHITKNFLNLPNV 156
+E+ YA Y GL YSL L L + ++D+ V V + K +P V
Sbjct: 100 LEAAIRYARHQPYSNGKVGLVGYSLGGALAFLVASKGYVDRAVGYYGVGLEKQLNKVPEV 159
Query: 157 KVPLILGIWG 166
K P + + G
Sbjct: 160 KHPALFHMGG 169
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 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,706,714
Number of Sequences: 62578
Number of extensions: 597515
Number of successful extensions: 1207
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 1199
Number of HSP's gapped (non-prelim): 27
length of query: 464
length of database: 14,973,337
effective HSP length: 102
effective length of query: 362
effective length of database: 8,590,381
effective search space: 3109717922
effective search space used: 3109717922
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: 53 (25.0 bits)