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= 019694
(337 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 = 501 bits (1289), Expect = e-142, Method: Compositional matrix adjust.
Identities = 240/278 (86%), Positives = 252/278 (90%)
Query: 1 MDKLVVHITKNFMSLPNIKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESG 60
MDKLVVHITKNF+ LPNIKVPLILGIWGGKGQGKSFQCELVF KMGINPIMMSAGELESG
Sbjct: 16 MDKLVVHITKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESG 75
Query: 61 NAGEPAKLIRQRYREAADIIKKGKMCCLMINDLDAGAGRMGGTTQYTVNNQMVNATLMNI 120
NAGEPAKLIRQRYREAA+II+KG MCCL INDLDAGAGRMGGTTQYTVNNQMVNATLMNI
Sbjct: 76 NAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNI 135
Query: 121 ADNPTCVQLPGMYNKEENPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTREDRIGVCK 180
ADNPT VQLPGMYNK+EN RVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTREDRIGVC
Sbjct: 136 ADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTREDRIGVCT 195
Query: 181 GIFRNDNVADDDIVKLVDTFPGQSIDFFGALRARVYDDEVRKWXXXXXXXXXXKSLVNSK 240
GIFR DNV +D+VK+VD FPGQSIDFFGALRARVYDDEVRKW L+NS
Sbjct: 196 GIFRTDNVPAEDVVKIVDNFPGQSIDFFGALRARVYDDEVRKWVSGTGIEKIGDKLLNSF 255
Query: 241 EAAPTFEQPRMTMEKLLEYGNMIVQEQENVKRVQLADK 278
+ PTFEQP+MT+EKLLEYGNM+VQEQENVKRVQLADK
Sbjct: 256 DGPPTFEQPKMTIEKLLEYGNMLVQEQENVKRVQLADK 293
>pdb|3THG|A Chain A, Crystal Structure Of The Creosote Rubisco Activase
C-Domain
Length = 107
Score = 168 bits (426), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 81/102 (79%), Positives = 86/102 (84%)
Query: 171 TREDRIGVCKGIFRNDNVADDDIVKLVDTFPGQSIDFFGALRARVYDDEVRKWXXXXXXX 230
TREDRIGVCKGIFR DNVADDDIVKLVDTFPGQSIDFFGALRARVYDDEVRKW
Sbjct: 6 TREDRIGVCKGIFRTDNVADDDIVKLVDTFPGQSIDFFGALRARVYDDEVRKWVSEVGVD 65
Query: 231 XXXKSLVNSKEAAPTFEQPRMTMEKLLEYGNMIVQEQENVKR 272
K LVNSKE P+FEQP+MT++KLL YG M+VQEQENVKR
Sbjct: 66 TIGKKLVNSKEGPPSFEQPKMTIDKLLGYGGMLVQEQENVKR 107
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 48.1 bits (113), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 42/153 (27%), Positives = 73/153 (47%), Gaps = 14/153 (9%)
Query: 18 IKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAA 77
IK P + ++G G GK+ + V A +G N I A + GE A++IR+ + A
Sbjct: 212 IKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGESARIIREMFAYA- 270
Query: 78 DIIKKGKMCCLMINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTCVQLPGMYNKEE 137
K+ + C + ++++DA GR ++ T ++ + TLM + Q+ G N +
Sbjct: 271 ---KEHEPCIIFMDEVDAIGGRR--FSEGTSADREIQRTLMEL-----LTQMDGFDNLGQ 320
Query: 138 NPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAP 170
II+ N TL L+R GR+++ P
Sbjct: 321 ---TKIIMATNRPDTLDPALLRPGRLDRKVEIP 350
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 44/179 (24%), Positives = 74/179 (41%), Gaps = 19/179 (10%)
Query: 18 IKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAA 77
I+ P ++G G GK+ A+ + ++A +L GE AKL+ R+A
Sbjct: 212 IRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQMYIGEGAKLV----RDAF 267
Query: 78 DIIKKGKMCCLMINDLDA-GAGRMGGTTQYTVNNQMVNATLMNIADNPTCVQLPGMYNKE 136
+ K+ + I++LDA G R Q L+N QL G + +
Sbjct: 268 ALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLN--------QLDGFSSDD 319
Query: 137 ENPRVPIIVTGNDFSTLYAPLIRDGRMEKF--YWAPTREDRIGVCKGIFRNDNVADDDI 193
RV ++ N L L+R GR+++ + P+ + R + + I DDDI
Sbjct: 320 ---RVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQ-IHSRKMTTDDDI 374
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 39/162 (24%), Positives = 68/162 (41%), Gaps = 19/162 (11%)
Query: 26 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAADIIKKGKM 85
+ G G GK+ + V + G+N I + EL + GE + +RQ ++ A K
Sbjct: 49 LAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRA----KNSAP 104
Query: 86 CCLMINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTCVQLPGMYNKEENPRVPIIV 145
C + +++DA R + + ++VN L M E +V I+
Sbjct: 105 CVIFFDEVDALCPRR-SDRETGASVRVVNQLLTE------------MDGLEARQQVFIMA 151
Query: 146 TGNDFSTLYAPLIRDGRMEK--FYWAPTREDRIGVCKGIFRN 185
N + ++R GR++K F P DR+ + K I +N
Sbjct: 152 ATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITKN 193
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 42/168 (25%), Positives = 73/168 (43%), Gaps = 16/168 (9%)
Query: 10 KNFMSLPNIKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLI 69
+ F+ L KVP + G G GK+ + V + + + M+ E G A +
Sbjct: 29 ERFLQL-GAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLGAARV 87
Query: 70 RQRYREAADIIKKGKMCCLMINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTCVQL 129
R ++EA + C + I+++DA G+ TT +N TL N V++
Sbjct: 88 RSLFKEA----RARAPCIVYIDEIDA-VGKKRSTTMSGFSNTEEEQTL-----NQLLVEM 137
Query: 130 PGMYNKEENPRVPIIVTGNDFSTLYAPLIRDGRMEK--FYWAPTREDR 175
GM + V ++ + N L L+R GR+++ F PT ++R
Sbjct: 138 DGMGTTDH---VIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQER 182
>pdb|2BWJ|A Chain A, Structure Of Adenylate Kinase 5
pdb|2BWJ|B Chain B, Structure Of Adenylate Kinase 5
pdb|2BWJ|C Chain C, Structure Of Adenylate Kinase 5
pdb|2BWJ|D Chain D, Structure Of Adenylate Kinase 5
pdb|2BWJ|E Chain E, Structure Of Adenylate Kinase 5
pdb|2BWJ|F Chain F, Structure Of Adenylate Kinase 5
Length = 199
Score = 35.0 bits (79), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 38/79 (48%), Gaps = 6/79 (7%)
Query: 23 ILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGEL---ESGNAGEPAKLIRQRYREAADI 79
I+ I GG G GK QCE + K G +S GEL E + E +KLIR E D+
Sbjct: 14 IIFIIGGPGSGKGTQCEKLVEKYGFT--HLSTGELLREELASESERSKLIRD-IMERGDL 70
Query: 80 IKKGKMCCLMINDLDAGAG 98
+ G + L+ + A G
Sbjct: 71 VPSGIVLELLKEAMVASLG 89
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 34.3 bits (77), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 36/151 (23%), Positives = 69/151 (45%), Gaps = 20/151 (13%)
Query: 18 IKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAA 77
IK P + ++G G GK+ + V + + + EL G+ +L RQ ++ A
Sbjct: 213 IKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQKYLGDGPRLCRQIFKVAG 272
Query: 78 DIIKKGKMCCLMINDLDAGAGRMGGTTQYTVNN---QMVNATLMNIADNPTCVQLPGMYN 134
+ + I+++DA GT +Y N+ + + T++ + + QL G +
Sbjct: 273 E----NAPSIVFIDEIDAI-----GTKRYDSNSGGEREIQRTMLELLN-----QLDGFDD 318
Query: 135 KEENPRVPIIVTGNDFSTLYAPLIRDGRMEK 165
+ + V +I+ N TL LIR GR+++
Sbjct: 319 RGD---VKVIMATNKIETLDPALIRPGRIDR 346
>pdb|3CF0|A Chain A, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|B Chain B, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|C Chain C, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|D Chain D, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|E Chain E, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|F Chain F, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|G Chain G, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|H Chain H, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|I Chain I, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|J Chain J, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|K Chain K, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|L Chain L, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|M Chain M, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|N Chain N, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
Length = 301
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 40/188 (21%), Positives = 77/188 (40%), Gaps = 24/188 (12%)
Query: 26 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAADIIKKGKM 85
+G G GK+ + + + N I + EL + GE +R+ + +A ++
Sbjct: 54 FYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKA----RQAAP 109
Query: 86 CCLMINDLD--AGAGRMGGTTQYTVNNQMVNATLMNIADNPTCVQLPGMYNKEENPRVPI 143
C L ++LD A A ++++N L ++ GM K+ V I
Sbjct: 110 CVLFFDELDSIAKARGGNIGDGGGAADRVINQIL---------TEMDGMSTKKN---VFI 157
Query: 144 IVTGNDFSTLYAPLIRDGRMEKFYWAPTRED--RIGVCKGIFRNDNVADDD----IVKLV 197
I N + ++R GR+++ + P ++ R+ + K R VA D + K+
Sbjct: 158 IGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMT 217
Query: 198 DTFPGQSI 205
+ F G +
Sbjct: 218 NGFSGADL 225
>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF1|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF1|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF2|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|D Chain D, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF3|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADP
pdb|3CF3|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADP
pdb|3CF3|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADP
Length = 806
Score = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 40/188 (21%), Positives = 77/188 (40%), Gaps = 24/188 (12%)
Query: 26 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAADIIKKGKM 85
+G G GK+ + + + N I + EL + GE +R+ + +A ++
Sbjct: 516 FYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKA----RQAAP 571
Query: 86 CCLMINDLD--AGAGRMGGTTQYTVNNQMVNATLMNIADNPTCVQLPGMYNKEENPRVPI 143
C L ++LD A A ++++N L ++ GM K+ V I
Sbjct: 572 CVLFFDELDSIAKARGGNIGDGGGAADRVINQIL---------TEMDGMSTKKN---VFI 619
Query: 144 IVTGNDFSTLYAPLIRDGRMEKFYWAPTRED--RIGVCKGIFRNDNVADDD----IVKLV 197
I N + ++R GR+++ + P ++ R+ + K R VA D + K+
Sbjct: 620 IGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMT 679
Query: 198 DTFPGQSI 205
+ F G +
Sbjct: 680 NGFSGADL 687
Score = 31.6 bits (70), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 51/105 (48%), Gaps = 9/105 (8%)
Query: 18 IKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAA 77
+K P + ++G G GK+ V + G +++ E+ S AGE +R+ + EA
Sbjct: 235 VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA- 293
Query: 78 DIIKKGKMCCLMINDLDAGA---GRMGGTTQYTVNNQMVNATLMN 119
+K + I++LDA A + G + + +Q++ TLM+
Sbjct: 294 ---EKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLL--TLMD 333
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 40/188 (21%), Positives = 77/188 (40%), Gaps = 24/188 (12%)
Query: 26 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAADIIKKGKM 85
+G G GK+ + + + N I + EL + GE +R+ + +A ++
Sbjct: 516 FYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKA----RQAAP 571
Query: 86 CCLMINDLD--AGAGRMGGTTQYTVNNQMVNATLMNIADNPTCVQLPGMYNKEENPRVPI 143
C L ++LD A A ++++N L ++ GM K+ V I
Sbjct: 572 CVLFFDELDSIAKARGGNIGDGGGAADRVINQIL---------TEMDGMSTKKN---VFI 619
Query: 144 IVTGNDFSTLYAPLIRDGRMEKFYWAPTRED--RIGVCKGIFRNDNVADDD----IVKLV 197
I N + ++R GR+++ + P ++ R+ + K R VA D + K+
Sbjct: 620 IGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMT 679
Query: 198 DTFPGQSI 205
+ F G +
Sbjct: 680 NGFSGADL 687
Score = 31.6 bits (70), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 51/105 (48%), Gaps = 9/105 (8%)
Query: 18 IKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAA 77
+K P + ++G G GK+ V + G +++ E+ S AGE +R+ + EA
Sbjct: 235 VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA- 293
Query: 78 DIIKKGKMCCLMINDLDAGA---GRMGGTTQYTVNNQMVNATLMN 119
+K + I++LDA A + G + + +Q++ TLM+
Sbjct: 294 ---EKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLL--TLMD 333
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 36/149 (24%), Positives = 63/149 (42%), Gaps = 22/149 (14%)
Query: 26 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRY---REAADIIKK 82
++G G GK+ V I +S EL GE ++++R+ + RE A I
Sbjct: 187 LYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKYIGEGSRMVRELFVMAREHAPSI-- 244
Query: 83 GKMCCLMINDLDA-GAGRMGGTTQYTVNNQMVNATLMNIADNPTCVQLPGMYNKEENPRV 141
+ ++++D+ G+ R+ G+ Q L+N QL G E + +
Sbjct: 245 -----IFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLN--------QLDGF---ETSKNI 288
Query: 142 PIIVTGNDFSTLYAPLIRDGRMEKFYWAP 170
II+ N L L+R GR+++ P
Sbjct: 289 KIIMATNRLDILDPALLRPGRIDRKIEFP 317
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 32.3 bits (72), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 38/163 (23%), Positives = 71/163 (43%), Gaps = 29/163 (17%)
Query: 10 KNFMSLPNIKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLI 69
+ F +L I P + ++G G GK+ V + I + EL GE A+++
Sbjct: 233 ERFATL-GIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKYVGEGARMV 291
Query: 70 RQRYREAADIIKKGKMCCLMINDLDA-GAGRM----GGTTQYTVNNQMVNATLMNIADNP 124
R+ + ++ + K C + +++DA G R GG + V T++ +
Sbjct: 292 RELF----EMARTKKACIIFFDEIDAVGGARFDDGAGGDNE-------VQRTMLEL---- 336
Query: 125 TCVQLPGMYNKEENPR--VPIIVTGNDFSTLYAPLIRDGRMEK 165
QL G +PR + ++ N +TL L+R GR+++
Sbjct: 337 -ITQLDGF-----DPRGNIKVMFATNRPNTLDPALLRPGRIDR 373
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 32.3 bits (72), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 4/76 (5%)
Query: 26 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAADIIKKGKM 85
++G G GKS+ + V + +S+ +L S GE KL++Q + A ++ K
Sbjct: 65 LYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMA----RENKP 120
Query: 86 CCLMINDLDAGAGRMG 101
+ I+++DA G G
Sbjct: 121 SIIFIDEVDALTGTRG 136
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 32.0 bits (71), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 32/150 (21%), Positives = 66/150 (44%), Gaps = 14/150 (9%)
Query: 26 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAADIIKKGKM 85
++G G GK+ + V I ++ E GE +++R +R A ++
Sbjct: 211 LYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFVHKYLGEGPRMVRDVFRLA----RENAP 266
Query: 86 CCLMINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTCVQLPGMYNKEENPRVPIIV 145
+ I+++D+ A + T +++ V L+ + Q+ G +++ V +I+
Sbjct: 267 SIIFIDEVDSIATKRFDAQ--TGSDREVQRILIEL-----LTQMDGF---DQSTNVKVIM 316
Query: 146 TGNDFSTLYAPLIRDGRMEKFYWAPTREDR 175
N TL L+R GR+++ P+ DR
Sbjct: 317 ATNRADTLDPALLRPGRLDRKIEFPSLRDR 346
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 32.0 bits (71), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 4/76 (5%)
Query: 26 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAADIIKKGKM 85
++G G GKS+ + V + +S+ +L S GE KL++Q + A ++ K
Sbjct: 56 LYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMA----RENKP 111
Query: 86 CCLMINDLDAGAGRMG 101
+ I+ +DA G G
Sbjct: 112 SIIFIDQVDALTGTRG 127
>pdb|1TEV|A Chain A, Crystal Structure Of The Human UmpCMP KINASE IN OPEN
Conformation
Length = 196
Score = 32.0 bits (71), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 21 PLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGEL 57
PL++ + GG G GK QC + K G +SAGEL
Sbjct: 3 PLVVFVLGGPGAGKGTQCARIVEKYGYT--HLSAGEL 37
>pdb|3EIH|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
pdb|3EIH|B Chain B, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
pdb|3EIH|C Chain C, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
Length = 340
Score = 31.6 bits (70), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 4/76 (5%)
Query: 26 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAADIIKKGKM 85
++G G GKS+ + V + +S+ +L S GE KL++Q + A ++ K
Sbjct: 74 LYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMA----RENKP 129
Query: 86 CCLMINDLDAGAGRMG 101
+ I+ +DA G G
Sbjct: 130 SIIFIDQVDALTGTRG 145
>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 = 31.2 bits (69), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 29/124 (23%), Positives = 53/124 (42%), Gaps = 24/124 (19%)
Query: 21 PLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAADII 80
P ++G+ GG GKS CE + +G N + QR R+ I+
Sbjct: 25 PFLIGVSGGTASGKSTVCEKIMELLGQNE-------------------VEQRQRKVV-IL 64
Query: 81 KKGKMCCLMINDLDAGA--GRMGGTTQYTVNNQMVNATLMNIADNPTCVQLPGMYNKEEN 138
+ + ++ + A A G+ +N +++ TL NI + T V++P Y+ +
Sbjct: 65 SQDRFYKVLTAEQKAKALKGQYNFDHPDAFDNDLMHRTLKNIVEGKT-VEVP-TYDFVTH 122
Query: 139 PRVP 142
R+P
Sbjct: 123 SRLP 126
>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs
pdb|3HU3|B Chain B, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs
Length = 489
Score = 31.2 bits (69), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 51/105 (48%), Gaps = 9/105 (8%)
Query: 18 IKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAA 77
+K P + ++G G GK+ V + G +++ E+ S AGE +R+ + EA
Sbjct: 235 VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA- 293
Query: 78 DIIKKGKMCCLMINDLDAGA---GRMGGTTQYTVNNQMVNATLMN 119
+K + I++LDA A + G + + +Q++ TLM+
Sbjct: 294 ---EKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLL--TLMD 333
>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|B Chain B, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|C Chain C, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|D Chain D, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|E Chain E, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|F Chain F, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
Length = 489
Score = 30.8 bits (68), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 51/105 (48%), Gaps = 9/105 (8%)
Query: 18 IKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAA 77
+K P + ++G G GK+ V + G +++ E+ S AGE +R+ + EA
Sbjct: 235 VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA- 293
Query: 78 DIIKKGKMCCLMINDLDAGA---GRMGGTTQYTVNNQMVNATLMN 119
+K + I++LDA A + G + + +Q++ TLM+
Sbjct: 294 ---EKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLL--TLMD 333
>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain
Of Membrane Fusion Atpase P97
pdb|1S3S|A Chain A, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|B Chain B, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|C Chain C, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|D Chain D, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|E Chain E, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|F Chain F, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
Length = 458
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 51/105 (48%), Gaps = 9/105 (8%)
Query: 18 IKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAA 77
+K P + ++G G GK+ V + G +++ E+ S AGE +R+ + EA
Sbjct: 235 VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA- 293
Query: 78 DIIKKGKMCCLMINDLDAGA---GRMGGTTQYTVNNQMVNATLMN 119
+K + I++LDA A + G + + +Q++ TLM+
Sbjct: 294 ---EKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLL--TLMD 333
>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|B Chain B, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|C Chain C, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|D Chain D, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|E Chain E, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|F Chain F, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
Length = 489
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 51/105 (48%), Gaps = 9/105 (8%)
Query: 18 IKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAA 77
+K P + ++G G GK+ V + G +++ E+ S AGE +R+ + EA
Sbjct: 235 VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA- 293
Query: 78 DIIKKGKMCCLMINDLDAGA---GRMGGTTQYTVNNQMVNATLMN 119
+K + I++LDA A + G + + +Q++ TLM+
Sbjct: 294 ---EKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLL--TLMD 333
>pdb|2QP9|X Chain X, Crystal Structure Of S.Cerevisiae Vps4
pdb|2QPA|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
pdb|2QPA|B Chain B, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
pdb|2QPA|C Chain C, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
Length = 355
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 4/76 (5%)
Query: 26 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAADIIKKGKM 85
++G G GKS+ + V + +S+ +L S GE KL++Q + A ++ K
Sbjct: 89 LYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMA----RENKP 144
Query: 86 CCLMINDLDAGAGRMG 101
+ I+ +DA G G
Sbjct: 145 SIIFIDQVDALTGTRG 160
>pdb|1Z83|A Chain A, Crystal Structure Of Human Ak1a In Complex With Ap5a
pdb|1Z83|B Chain B, Crystal Structure Of Human Ak1a In Complex With Ap5a
pdb|1Z83|C Chain C, Crystal Structure Of Human Ak1a In Complex With Ap5a
pdb|2C95|A Chain A, Structure Of Adenylate Kinase 1 In Complex With P1,P4-Di
(Adenosine)tetraphosphate
pdb|2C95|B Chain B, Structure Of Adenylate Kinase 1 In Complex With P1,P4-Di
(Adenosine)tetraphosphate
Length = 196
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 35/69 (50%), Gaps = 12/69 (17%)
Query: 23 ILGIWGGKGQGKSFQCELVFAKMGINPIM---MSAGELESGNAGEPAKLIRQRYREAADI 79
I+ + GG G GK QCE + K G + + E+ SG+A R ++ ++I
Sbjct: 11 IIFVVGGPGSGKGTQCEKIVQKYGYTHLSTGDLLRSEVSSGSA---------RGKKLSEI 61
Query: 80 IKKGKMCCL 88
++KG++ L
Sbjct: 62 MEKGQLVPL 70
>pdb|3ADK|A Chain A, Refined Structure Of Porcine Cytosolic Adenylate Kinase
At 2.1 Angstroms Resolution
Length = 195
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%), Gaps = 12/75 (16%)
Query: 17 NIKVPLILGIWGGKGQGKSFQCELVFAKMGINPIM---MSAGELESGNAGEPAKLIRQRY 73
+K I+ + GG G GK QCE + K G + + E+ SG+A R
Sbjct: 5 KLKKSKIIFVVGGPGSGKGTQCEKIVQKYGYTHLSTGDLLRAEVSSGSA---------RG 55
Query: 74 REAADIIKKGKMCCL 88
+ ++I++KG++ L
Sbjct: 56 KMLSEIMEKGQLVPL 70
>pdb|1XRJ|A Chain A, Rapid Structure Determination Of Human Uridine-Cytidine
Kinase 2 Using A Conventional Laboratory X-Ray Source
And A Single Samarium Derivative
pdb|1XRJ|B Chain B, Rapid Structure Determination Of Human Uridine-Cytidine
Kinase 2 Using A Conventional Laboratory X-Ray Source
And A Single Samarium Derivative
Length = 261
Score = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 18/35 (51%)
Query: 16 PNIKVPLILGIWGGKGQGKSFQCELVFAKMGINPI 50
PN P ++G+ GG GKS C + +G N +
Sbjct: 15 PNGGEPFLIGVSGGTASGKSSVCAKIVQLLGQNEV 49
>pdb|1UDW|A Chain A, Crystal Structure Of Human Uridine-cytidine Kinase 2
Complexed With A Feedback-inhibitor, Ctp
pdb|1UDW|B Chain B, Crystal Structure Of Human Uridine-cytidine Kinase 2
Complexed With A Feedback-inhibitor, Ctp
pdb|1UEI|A Chain A, Crystal Structure Of Human Uridine-Cytidine Kinase 2
Complexed With A Feedback-Inhibitor, Utp
pdb|1UEI|B Chain B, Crystal Structure Of Human Uridine-Cytidine Kinase 2
Complexed With A Feedback-Inhibitor, Utp
pdb|1UEJ|A Chain A, Crystal Structure Of Human Uridine-Cytidine Kinase 2
Complexed With A Substrate, Cytidine
pdb|1UEJ|B Chain B, Crystal Structure Of Human Uridine-Cytidine Kinase 2
Complexed With A Substrate, Cytidine
pdb|1UFQ|A Chain A, Crystal Structure Of Ligand-Free Human Uridine-Cytidine
Kinase 2
pdb|1UFQ|B Chain B, Crystal Structure Of Ligand-Free Human Uridine-Cytidine
Kinase 2
pdb|1UFQ|C Chain C, Crystal Structure Of Ligand-Free Human Uridine-Cytidine
Kinase 2
pdb|1UFQ|D Chain D, Crystal Structure Of Ligand-Free Human Uridine-Cytidine
Kinase 2
pdb|1UJ2|A Chain A, Crystal Structure Of Human Uridine-cytidine Kinase 2
Complexed With Products, Cmp And Adp
pdb|1UJ2|B Chain B, Crystal Structure Of Human Uridine-cytidine Kinase 2
Complexed With Products, Cmp And Adp
Length = 252
Score = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 18/35 (51%)
Query: 16 PNIKVPLILGIWGGKGQGKSFQCELVFAKMGINPI 50
PN P ++G+ GG GKS C + +G N +
Sbjct: 17 PNGGEPFLIGVSGGTASGKSSVCAKIVQLLGQNEV 51
>pdb|1UKY|A Chain A, Substrate Specificity And Assembly Of Catalytic Center
Derived From Two Structures Of Ligated Uridylate Kinase
pdb|1UKZ|A Chain A, Substrate Specificity And Assembly Of Catalytic Center
Derived From Two Structures Of Ligated Uridylate Kinase
Length = 203
Score = 28.1 bits (61), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 5/44 (11%)
Query: 23 ILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGEL---ESGNAG 63
++ + GG G GK QCE + + +SAG+L E G AG
Sbjct: 17 VIFVLGGPGAGKGTQCEKLVKDYSF--VHLSAGDLLRAEQGRAG 58
>pdb|1KYQ|A Chain A, Met8p: A Bifunctional Nad-Dependent Dehydrogenase And
Ferrochelatase Involved In Siroheme Synthesis.
pdb|1KYQ|B Chain B, Met8p: A Bifunctional Nad-Dependent Dehydrogenase And
Ferrochelatase Involved In Siroheme Synthesis.
pdb|1KYQ|C Chain C, Met8p: A Bifunctional Nad-Dependent Dehydrogenase And
Ferrochelatase Involved In Siroheme Synthesis
Length = 274
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 22/44 (50%)
Query: 117 LMNIADNPTCVQLPGMYNKEENPRVPIIVTGNDFSTLYAPLIRD 160
L+N+AD P N E R+ I+++ N S + L+RD
Sbjct: 136 LVNVADKPDLCDFYFGANLEIGDRLQILISTNGLSPRFGALVRD 179
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 27.7 bits (60), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 33/74 (44%), Gaps = 9/74 (12%)
Query: 15 LPNIKVPLILGI---------WGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEP 65
LP+++ L G+ +G G GK+ + V A+ +SA L S GE
Sbjct: 133 LPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEG 192
Query: 66 AKLIRQRYREAADI 79
KL+R + A ++
Sbjct: 193 EKLVRALFAVAREL 206
>pdb|2O8S|A Chain A, X-ray Crystal Structure Of Protein Agr_c_984 From
Agrobacterium Tumefaciens. Northeast Structural Genomics
Consortium Target Atr120.
pdb|2O8S|B Chain B, X-ray Crystal Structure Of Protein Agr_c_984 From
Agrobacterium Tumefaciens. Northeast Structural Genomics
Consortium Target Atr120
Length = 323
Score = 27.7 bits (60), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 12/64 (18%), Positives = 30/64 (46%)
Query: 73 YREAADIIKKGKMCCLMINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTCVQLPGM 132
+++AA + ++G+ C L ++G T Y + +Q + +L ++ P +
Sbjct: 28 HKQAATLCRQGRTCALKSGSNESGGSVTSTYTSYRLISQDIGKSLERVSKQPDVARETEY 87
Query: 133 YNKE 136
Y ++
Sbjct: 88 YREK 91
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
0.318 0.135 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,076,790
Number of Sequences: 62578
Number of extensions: 422497
Number of successful extensions: 838
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 821
Number of HSP's gapped (non-prelim): 36
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 (21.7 bits)
S2: 52 (24.6 bits)