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= 022739
(293 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 = 414 bits (1065), Expect = e-116, Method: Compositional matrix adjust.
Identities = 199/234 (85%), Positives = 210/234 (89%)
Query: 1 MGINPIMMSAGELESGNAGEPAKLIRQRYREAADIIKKGKMCCLMINDLDAGAGRMGGTT 60
MGINPIMMSAGELESGNAGEPAKLIRQRYREAA+II+KG MCCL INDLDAGAGRMGGTT
Sbjct: 60 MGINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTT 119
Query: 61 QYTVNNQMVNATLMNIADNPTCVQLPGMYNKEENPRVPIIVTGNDFSTLYAPLIRDGRME 120
QYTVNNQMVNATLMNIADNPT VQLPGMYNK+EN RVPIIVTGNDFSTLYAPLIRDGRME
Sbjct: 120 QYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRME 179
Query: 121 KFYWAPTREDRIGVCKGIFRNDNVADDDIVKLVDTFPGQSIDFFGALRARVYDDEVRKWX 180
KFYWAPTREDRIGVC GIFR DNV +D+VK+VD FPGQSIDFFGALRARVYDDEVRKW
Sbjct: 180 KFYWAPTREDRIGVCTGIFRTDNVPAEDVVKIVDNFPGQSIDFFGALRARVYDDEVRKWV 239
Query: 181 XXXXXXXXXKSLVNSKEAAPTFEQPRMTMEKLLEYGNMIVQEQENVKRVQLADK 234
L+NS + PTFEQP+MT+EKLLEYGNM+VQEQENVKRVQLADK
Sbjct: 240 SGTGIEKIGDKLLNSFDGPPTFEQPKMTIEKLLEYGNMLVQEQENVKRVQLADK 293
>pdb|3THG|A Chain A, Crystal Structure Of The Creosote Rubisco Activase
C-Domain
Length = 107
Score = 169 bits (427), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 81/102 (79%), Positives = 86/102 (84%)
Query: 127 TREDRIGVCKGIFRNDNVADDDIVKLVDTFPGQSIDFFGALRARVYDDEVRKWXXXXXXX 186
TREDRIGVCKGIFR DNVADDDIVKLVDTFPGQSIDFFGALRARVYDDEVRKW
Sbjct: 6 TREDRIGVCKGIFRTDNVADDDIVKLVDTFPGQSIDFFGALRARVYDDEVRKWVSEVGVD 65
Query: 187 XXXKSLVNSKEAAPTFEQPRMTMEKLLEYGNMIVQEQENVKR 228
K LVNSKE P+FEQP+MT++KLL YG M+VQEQENVKR
Sbjct: 66 TIGKKLVNSKEGPPSFEQPKMTIDKLLGYGGMLVQEQENVKR 107
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 34/146 (23%), Positives = 58/146 (39%), Gaps = 27/146 (18%)
Query: 2 GINPIMMSAGELESGNAGEPAKLIRQRYREAADIIKKGKMCCLMINDLDA----GAGRMG 57
G+N I + EL + GE + +RQ ++ A K C + +++DA + R
Sbjct: 69 GLNFISVKGPELLNMYVGESERAVRQVFQRA----KNSAPCVIFFDEVDALCPRRSDRET 124
Query: 58 GTTQYTVNNQMVNATLMNIADNPTCVQLPGMYNKEENPRVPIIVTGNDFSTLYAPLIRDG 117
G + VN + M E +V I+ N + ++R G
Sbjct: 125 GASVRVVNQLLTE-----------------MDGLEARQQVFIMAATNRPDIIDPAILRPG 167
Query: 118 RMEK--FYWAPTREDRIGVCKGIFRN 141
R++K F P DR+ + K I +N
Sbjct: 168 RLDKTLFVGLPPPADRLAILKTITKN 193
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 31.6 bits (70), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 37/147 (25%), Positives = 62/147 (42%), Gaps = 19/147 (12%)
Query: 6 IMMSAGELESGNAGEPAKLIRQRYREAADIIKKGKMCCLMINDLDA-GAGRMGGTTQYTV 64
+ ++A +L GE AKL+R +A + K+ + I++LDA G R
Sbjct: 244 LKLAAPQLVQMYIGEGAKLVR----DAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDR 299
Query: 65 NNQMVNATLMNIADNPTCVQLPGMYNKEENPRVPIIVTGNDFSTLYAPLIRDGRMEKF-- 122
Q L+N QL G + + RV ++ N L L+R GR+++
Sbjct: 300 EVQRTMLELLN--------QLDGFSSDD---RVKVLAATNRVDVLDPALLRSGRLDRKIE 348
Query: 123 YWAPTREDRIGVCKGIFRNDNVADDDI 149
+ P+ + R + + I DDDI
Sbjct: 349 FPLPSEDSRAQILQ-IHSRKMTTDDDI 374
>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 = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 31/140 (22%), Positives = 56/140 (40%), Gaps = 20/140 (14%)
Query: 30 REAADIIKKGKMCCLMINDLD--AGAGRMGGTTQYTVNNQMVNATLMNIADNPTCVQLPG 87
RE D ++ C L ++LD A A ++++N L ++ G
Sbjct: 98 REIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQIL---------TEMDG 148
Query: 88 MYNKEENPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPT--REDRIGVCKGIFRNDNVA 145
M K+ V II N + ++R GR+++ + P + R+ + K R VA
Sbjct: 149 MSTKKN---VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA 205
Query: 146 DDD----IVKLVDTFPGQSI 161
D + K+ + F G +
Sbjct: 206 KDVDLEFLAKMTNGFSGADL 225
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 31/140 (22%), Positives = 56/140 (40%), Gaps = 20/140 (14%)
Query: 30 REAADIIKKGKMCCLMINDLD--AGAGRMGGTTQYTVNNQMVNATLMNIADNPTCVQLPG 87
RE D ++ C L ++LD A A ++++N L ++ G
Sbjct: 560 REIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQIL---------TEMDG 610
Query: 88 MYNKEENPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPT--REDRIGVCKGIFRNDNVA 145
M K+ V II N + ++R GR+++ + P + R+ + K R VA
Sbjct: 611 MSTKKN---VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA 667
Query: 146 DDD----IVKLVDTFPGQSI 161
D + K+ + F G +
Sbjct: 668 KDVDLEFLAKMTNGFSGADL 687
>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 = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 31/140 (22%), Positives = 56/140 (40%), Gaps = 20/140 (14%)
Query: 30 REAADIIKKGKMCCLMINDLD--AGAGRMGGTTQYTVNNQMVNATLMNIADNPTCVQLPG 87
RE D ++ C L ++LD A A ++++N L ++ G
Sbjct: 560 REIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQIL---------TEMDG 610
Query: 88 MYNKEENPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPT--REDRIGVCKGIFRNDNVA 145
M K+ V II N + ++R GR+++ + P + R+ + K R VA
Sbjct: 611 MSTKKN---VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA 667
Query: 146 DDD----IVKLVDTFPGQSI 161
D + K+ + F G +
Sbjct: 668 KDVDLEFLAKMTNGFSGADL 687
>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 = 6.2, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 22/44 (50%)
Query: 73 LMNIADNPTCVQLPGMYNKEENPRVPIIVTGNDFSTLYAPLIRD 116
L+N+AD P N E R+ I+++ N S + L+RD
Sbjct: 136 LVNVADKPDLCDFYFGANLEIGDRLQILISTNGLSPRFGALVRD 179
>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 = 27.3 bits (59), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 11/52 (21%), Positives = 26/52 (50%)
Query: 29 YREAADIIKKGKMCCLMINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNP 80
+++AA + ++G+ C L ++G T Y + +Q + +L ++ P
Sbjct: 28 HKQAATLCRQGRTCALKSGSNESGGSVTSTYTSYRLISQDIGKSLERVSKQP 79
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: 8,638,395
Number of Sequences: 62578
Number of extensions: 354533
Number of successful extensions: 678
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 674
Number of HSP's gapped (non-prelim): 9
length of query: 293
length of database: 14,973,337
effective HSP length: 98
effective length of query: 195
effective length of database: 8,840,693
effective search space: 1723935135
effective search space used: 1723935135
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: 51 (24.3 bits)