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= 003038
(854 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1QVR|A Chain A, Crystal Structure Analysis Of Clpb
pdb|1QVR|B Chain B, Crystal Structure Analysis Of Clpb
pdb|1QVR|C Chain C, Crystal Structure Analysis Of Clpb
Length = 854
Score = 49.3 bits (116), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 41/69 (59%), Gaps = 2/69 (2%)
Query: 207 LDPI--RNEDVMYVIENLMSKRKRNFVVVGECLASIEGVVRGVIDKIEKGDVPEALRDVK 264
LDP+ R+E++ VI+ L+ + K N V++GE +V G+ +I KGDVPE L+ +
Sbjct: 169 LDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKR 228
Query: 265 CLPLSISSF 273
+ L + S
Sbjct: 229 IVSLQMGSL 237
Score = 38.9 bits (89), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 36/165 (21%), Positives = 68/165 (41%), Gaps = 16/165 (9%)
Query: 618 KKVPWQKDTVYDIANTVLKCRSGTMRRKGKFKDHSEVKEETWLFFQGVDADAKEKIAKEL 677
K+V Q + + +A+ + + R+G KD + + F G K ++AK L
Sbjct: 558 KRVVGQDEAIRAVADAIRRARAG-------LKDPN--RPIGSFLFLGPTGVGKTELAKTL 608
Query: 678 ARLVFGSHNNFVSIALSSFSSTRADSTEDSRNKRSRDEQSCSYIE--RFAEAVSNNPHRV 735
A +F + + I ++ + A S Y E + EAV P+ V
Sbjct: 609 AATLFDTEEAMIRIDMTEYMEKHAVS-----RLIGAPPGYVGYEEGGQLTEAVRRRPYSV 663
Query: 736 FLIEDVEQADYCSQKGFKRAIESGRIVTSSGDEVSLGDAIVILSC 780
L +++E+A + ++ GR+ S G V + ++IL+
Sbjct: 664 ILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTS 708
>pdb|4HSE|A Chain A, Crystal Structure Of Clpb Nbd1 In Complex With Guanidinium
Chloride And Adp
Length = 397
Score = 49.3 bits (116), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 41/69 (59%), Gaps = 2/69 (2%)
Query: 207 LDPI--RNEDVMYVIENLMSKRKRNFVVVGECLASIEGVVRGVIDKIEKGDVPEALRDVK 264
LDP+ R+E++ VI+ L+ + K N V++GE +V G+ +I KGDVPE L+ +
Sbjct: 32 LDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKR 91
Query: 265 CLPLSISSF 273
+ L + S
Sbjct: 92 IVSLQMGSL 100
>pdb|3PXG|A Chain A, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|B Chain B, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|C Chain C, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|D Chain D, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|E Chain E, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|F Chain F, Structure Of Meca121 And Clpc1-485 Complex
Length = 468
Score = 48.9 bits (115), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 42/153 (27%), Positives = 72/153 (47%), Gaps = 10/153 (6%)
Query: 146 SRVMREAGFSSTQVKSNVEQAV-SLEICSQSTPVSSNKSKESNVLVLSQTASATKVSKPR 204
+RV+ G S + + V Q + S E S + +SN +N L A
Sbjct: 121 ARVLNNLGVSLNKARQQVLQLLGSNETGSSAAGTNSN----ANTPTLDSLARDLTAIAKE 176
Query: 205 VSLDPI--RNEDVMYVIENLMSKRKRNFVVVGECLASIEGVVRGVIDKIEKGDVPEALRD 262
SLDP+ R++++ VIE L + K N V++GE + G+ +I +VPE LRD
Sbjct: 177 DSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRD 236
Query: 263 VKCLPLSISSFRHMNRVEVEQRVEEIKNLVRSC 295
+ + L + + R E E R++++ + +R
Sbjct: 237 KRVMTLDMGT---KYRGEFEDRLKKVMDEIRQA 266
>pdb|3PXI|A Chain A, Structure Of Meca108:clpc
pdb|3PXI|B Chain B, Structure Of Meca108:clpc
pdb|3PXI|C Chain C, Structure Of Meca108:clpc
Length = 758
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 42/153 (27%), Positives = 72/153 (47%), Gaps = 10/153 (6%)
Query: 146 SRVMREAGFSSTQVKSNVEQAV-SLEICSQSTPVSSNKSKESNVLVLSQTASATKVSKPR 204
+RV+ G S + + V Q + S E S + +SN +N L A
Sbjct: 121 ARVLNNLGVSLNKARQQVLQLLGSNETGSSAAGTNSN----ANTPTLDSLARDLTAIAKE 176
Query: 205 VSLDPI--RNEDVMYVIENLMSKRKRNFVVVGECLASIEGVVRGVIDKIEKGDVPEALRD 262
SLDP+ R++++ VIE L + K N V++GE + G+ +I +VPE LRD
Sbjct: 177 DSLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRD 236
Query: 263 VKCLPLSISSFRHMNRVEVEQRVEEIKNLVRSC 295
+ + L + + R E E R++++ + +R
Sbjct: 237 KRVMTLDMGT---KYRGEFEDRLKKVMDEIRQA 266
>pdb|1JBK|A Chain A, Crystal Structure Of The First Nucelotide Binding Domain
Of Clpb
Length = 195
Score = 43.9 bits (102), Expect = 4e-04, Method: Composition-based stats.
Identities = 27/88 (30%), Positives = 47/88 (53%), Gaps = 4/88 (4%)
Query: 207 LDPI--RNEDVMYVIENLMSKRKRNFVVVGECLASIEGVVRGVIDKIEKGDVPEALRDVK 264
LDP+ R+E++ I+ L + K N V++GE +V G+ +I G+VPE L+ +
Sbjct: 21 LDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRR 80
Query: 265 CLPLSISSF--RHMNRVEVEQRVEEIKN 290
L L + + R E E+R++ + N
Sbjct: 81 VLALDMGALVAGAKYRGEFEERLKGVLN 108
>pdb|2P65|A Chain A, Crystal Structure Of The First Nucleotide Binding Domain
Of Chaperone Clpb1, Putative, (Pv089580) From Plasmodium
Vivax
Length = 187
Score = 41.6 bits (96), Expect = 0.002, Method: Composition-based stats.
Identities = 28/100 (28%), Positives = 54/100 (54%), Gaps = 4/100 (4%)
Query: 207 LDPI--RNEDVMYVIENLMSKRKRNFVVVGECLASIEGVVRGVIDKIEKGDVPEALRDVK 264
LDP+ R+ ++ I+ L + K N +++G+ +V G+ KI +GDVP++L+ K
Sbjct: 21 LDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRK 80
Query: 265 CLPLSISSF--RHMNRVEVEQRVEEIKNLVRSCLGRGIVL 302
+ L +SS R + E+R++ I V+ G+ ++
Sbjct: 81 LVSLDLSSLIAGAKYRGDFEERLKSILKEVQDAEGQVVMF 120
>pdb|4FCT|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|B Chain B, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|D Chain D, Crystal Structure Of The C-Terminal Domain Of Clpb
Length = 308
Score = 38.1 bits (87), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 36/165 (21%), Positives = 67/165 (40%), Gaps = 16/165 (9%)
Query: 618 KKVPWQKDTVYDIANTVLKCRSGTMRRKGKFKDHSEVKEETWLFFQGVDADAKEKIAKEL 677
K+V Q + + +A+ + + R+G KD + + F G K ++AK L
Sbjct: 14 KRVVGQDEAIRAVADAIRRARAG-------LKDPN--RPIGSFLFLGPTGVGKTELAKTL 64
Query: 678 ARLVFGSHNNFVSIALSSFSSTRADSTEDSRNKRSRDEQSCSYIE--RFAEAVSNNPHRV 735
A +F + + I ++ + A S Y E + EAV P+ V
Sbjct: 65 AATLFDTEEAMIRIDMTEYMEKHAVS-----RLIGAPPGYVGYEEGGQLTEAVRRRPYSV 119
Query: 736 FLIEDVEQADYCSQKGFKRAIESGRIVTSSGDEVSLGDAIVILSC 780
L + +E+A + ++ GR+ S G V + ++IL+
Sbjct: 120 ILFDAIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTS 164
>pdb|1KSF|X Chain X, Crystal Structure Of Clpa, An Hsp100 Chaperone And
Regulator Of Clpap Protease: Structural Basis Of
Differences In Function Of The Two Aaa+ Atpase Domains
pdb|1R6B|X Chain X, High Resolution Crystal Structure Of Clpa
Length = 758
Score = 38.1 bits (87), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 36/70 (51%), Gaps = 2/70 (2%)
Query: 206 SLDPI--RNEDVMYVIENLMSKRKRNFVVVGECLASIEGVVRGVIDKIEKGDVPEALRDV 263
+DP+ R +++ I+ L +RK N ++VGE + G+ +I +GDVPE + D
Sbjct: 184 GIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADC 243
Query: 264 KCLPLSISSF 273
L I S
Sbjct: 244 TIYSLDIGSL 253
>pdb|4FCV|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCV|B Chain B, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCV|C Chain C, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|C Chain C, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|F Chain F, Crystal Structure Of The C-Terminal Domain Of Clpb
Length = 311
Score = 33.9 bits (76), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 35/165 (21%), Positives = 65/165 (39%), Gaps = 16/165 (9%)
Query: 618 KKVPWQKDTVYDIANTVLKCRSGTMRRKGKFKDHSEVKEETWLFFQGVDADAKEKIAKEL 677
K+V Q + + +A+ + + R+G KD + + F G K ++AK L
Sbjct: 17 KRVVGQDEAIRAVADAIRRARAG-------LKDPN--RPIGSFLFLGPTGVGKTELAKTL 67
Query: 678 ARLVFGSHNNFVSIALSSFSSTRADSTEDSRNKRSRDEQSCSYIE--RFAEAVSNNPHRV 735
A +F + + I + + A S Y E + EAV P+ V
Sbjct: 68 AATLFDTEEAXIRIDXTEYXEKHAVS-----RLIGAPPGYVGYEEGGQLTEAVRRRPYSV 122
Query: 736 FLIEDVEQADYCSQKGFKRAIESGRIVTSSGDEVSLGDAIVILSC 780
L + +E+A + ++ GR+ S G V + ++I +
Sbjct: 123 ILFDAIEKAHPDVFNILLQXLDDGRLTDSHGRTVDFRNTVIIXTS 167
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 0.130 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,300,350
Number of Sequences: 62578
Number of extensions: 750473
Number of successful extensions: 1677
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1667
Number of HSP's gapped (non-prelim): 12
length of query: 854
length of database: 14,973,337
effective HSP length: 107
effective length of query: 747
effective length of database: 8,277,491
effective search space: 6183285777
effective search space used: 6183285777
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: 56 (26.2 bits)