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= 002701
(890 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 = 36.6 bits (83), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 28/118 (23%), Positives = 47/118 (39%), Gaps = 9/118 (7%)
Query: 487 KAFRLYHEMTGKGIAPNSYTFTALISGLCRANKLTEA---------IKWFDEMLERNVMP 537
+A RLY E G+ + Y + L+ A TE+ F +M+ V+P
Sbjct: 44 EALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVP 103
Query: 538 NEVTYNVLIEGYCREGCMVKAFELLDEMAGKGLVADTYTYRSLITGLCSAGRVSEAKE 595
NE T+ + AF+++ +M G+ +Y + G C G +A E
Sbjct: 104 NEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYE 161
Score = 34.3 bits (77), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 28/133 (21%), Positives = 65/133 (48%), Gaps = 16/133 (12%)
Query: 756 LDYLTREGKMEKAVQLHN-AMLDGLLANTVTYNILIHGFCTMGKFEEATK---------- 804
LD +++G + +A++L++ A +G+ + YN+L++ C++ E AT+
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLY-VCSLA--EAATESSPNPGLSRG 89
Query: 805 --LLGGMMDNGILPDCITYSTIIYQYCKRGYLHEALKLWDSMLNKGLKPDPLAYNFLIYG 862
+ M+ + ++P+ T++ + A + M G++P +Y ++G
Sbjct: 90 FDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFG 149
Query: 863 CCIRGEITKAFEL 875
C +G+ KA+E+
Sbjct: 150 FCRKGDADKAYEV 162
Score = 33.9 bits (76), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 34/153 (22%), Positives = 62/153 (40%), Gaps = 14/153 (9%)
Query: 383 AEFLFNEMKQKGL--SPNVVTYSILIDSLCRRGEMDIAVSFLGKMADEGIKATIYPYNSL 440
+E L + K+K + SP + L D ++G++ A+ + G++ + Y YN L
Sbjct: 9 SENLSRKAKKKAIQQSPEALLKQKL-DMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVL 67
Query: 441 ISGHCKLGNLSAAES----------FFEEMIHKGLTPTVITYTSLISGYCNEVKLNKAFR 490
+ C L + S F++MI + P T+T+ + AF
Sbjct: 68 LYV-CSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFD 126
Query: 491 LYHEMTGKGIAPNSYTFTALISGLCRANKLTEA 523
+ +M GI P ++ + G CR +A
Sbjct: 127 MVKQMKAFGIQPRLRSYGPALFGFCRKGDADKA 159
Score = 33.9 bits (76), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 6/84 (7%)
Query: 695 LKEAFRLWDIMIGEGCVPNVVTYTALINGLCKAGYMDKAEL---LCKEMLASGSLPNQIT 751
L F ++ MI + VPN T+T NG A D E+ + K+M A G P +
Sbjct: 86 LSRGFDIFKQMIVDKVVPNEATFT---NGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRS 142
Query: 752 YGCFLDYLTREGKMEKAVQLHNAM 775
YG L R+G +KA ++ M
Sbjct: 143 YGPALFGFCRKGDADKAYEVDAHM 166
Score = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 52/122 (42%), Gaps = 9/122 (7%)
Query: 621 KEGRLKDALGACREMVERGVNMDLVCYSVLI-DGSLKQSDTR--------RYFGLLKEMH 671
K+G + +AL E GV + Y+VL+ SL ++ T R F + K+M
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMI 97
Query: 672 DKGLRPDNVIYTSMIDAKGKAGNLKEAFRLWDIMIGEGCVPNVVTYTALINGLCKAGYMD 731
+ P+ +T+ + + AF + M G P + +Y + G C+ G D
Sbjct: 98 VDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDAD 157
Query: 732 KA 733
KA
Sbjct: 158 KA 159
>pdb|3LCA|A Chain A, Structure Of Tom71 Complexed With Hsp70 Ssa1 C Terminal
Tail Indicating Conformational Plasticity
Length = 533
Score = 33.1 bits (74), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 33/72 (45%), Gaps = 7/72 (9%)
Query: 349 FNLVNKLGPLGVVPNLFVYNALINSLCKERKFNEAEFLFNEMKQKGLS-PNVVTYSILID 407
F L P V P Y L L K+ KF E+E FNE K K + P V T+ I
Sbjct: 329 FQKAQSLNPENVYP----YIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPTFFAEI- 383
Query: 408 SLCRRGEMDIAV 419
L RG+ D A+
Sbjct: 384 -LTDRGDFDTAI 394
>pdb|3FP2|A Chain A, Crystal Structure Of Tom71 Complexed With Hsp82 C-Terminal
Fragment
pdb|3FP3|A Chain A, Crystal Structure Of Tom71
pdb|3FP4|A Chain A, Crystal Structure Of Tom71 Complexed With Ssa1 C-Terminal
Fragment
Length = 537
Score = 33.1 bits (74), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 33/72 (45%), Gaps = 7/72 (9%)
Query: 349 FNLVNKLGPLGVVPNLFVYNALINSLCKERKFNEAEFLFNEMKQKGLS-PNVVTYSILID 407
F L P V P Y L L K+ KF E+E FNE K K + P V T+ I
Sbjct: 333 FQKAQSLNPENVYP----YIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPTFFAEI- 387
Query: 408 SLCRRGEMDIAV 419
L RG+ D A+
Sbjct: 388 -LTDRGDFDTAI 398
>pdb|3KRA|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium
pdb|3KRA|D Chain D, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium
pdb|3KRC|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Ipp
pdb|3KRC|D Chain D, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Ipp
pdb|3KRF|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium, Ipp, And Dmaspp (I)
pdb|3KRF|D Chain D, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium, Ipp, And Dmaspp (I)
pdb|3KRO|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium, Ipp, And Dmaspp (Ii)
pdb|3KRO|D Chain D, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium, Ipp, And Dmaspp (Ii)
pdb|3KRP|A Chain A, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium And Gpp
pdb|3KRP|D Chain D, Mint Heterotetrameric Geranyl Pyrophosphate Synthase In
Complex With Magnesium And Gpp
pdb|3OAB|A Chain A, Mint Deletion Mutant Of Heterotetrameric Geranyl
Pyrophosphate Synthase In Complex With Ligands
pdb|3OAB|D Chain D, Mint Deletion Mutant Of Heterotetrameric Geranyl
Pyrophosphate Synthase In Complex With Ligands
pdb|3OAC|A Chain A, Mint Deletion Mutant Of Heterotetrameric Geranyl
Pyrophosphate Synthase In Complex With Ligands
pdb|3OAC|D Chain D, Mint Deletion Mutant Of Heterotetrameric Geranyl
Pyrophosphate Synthase In Complex With Ligands
Length = 295
Score = 32.7 bits (73), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 28/49 (57%), Gaps = 7/49 (14%)
Query: 555 MVKAFELLDEMAGKGLVADTYTYRSLITGLCSAGRVSEAKEFVDGLHRE 603
+ K+ + L + AGK LVAD TY LI V ++KEF D L+RE
Sbjct: 226 VTKSSKELGKTAGKDLVADKTTYPKLIG-------VEKSKEFADRLNRE 267
>pdb|3R8W|A Chain A, Structure Of 3-Isopropylmalate Dehydrogenase Isoform 2
From Arabidopsis Thaliana At 2.2 Angstrom Resolution
pdb|3R8W|B Chain B, Structure Of 3-Isopropylmalate Dehydrogenase Isoform 2
From Arabidopsis Thaliana At 2.2 Angstrom Resolution
pdb|3R8W|C Chain C, Structure Of 3-Isopropylmalate Dehydrogenase Isoform 2
From Arabidopsis Thaliana At 2.2 Angstrom Resolution
pdb|3R8W|D Chain D, Structure Of 3-Isopropylmalate Dehydrogenase Isoform 2
From Arabidopsis Thaliana At 2.2 Angstrom Resolution
Length = 405
Score = 32.7 bits (73), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 38/80 (47%), Gaps = 14/80 (17%)
Query: 182 EKHLMPEVRTLSGVLNGLVKIRQFGLVLKLFEDVVNVGILPDIYIHSAVMRSLCELKDFV 241
EKHL PE GL++IR LK+F ++ +LP + S + R + E D +
Sbjct: 123 EKHLRPE--------KGLLQIRA---ALKVFANLRPATVLPQLVDASTLKREVAEGVDLM 171
Query: 242 KAKEM---IHFMDSNGSDLN 258
+E+ I+F + G N
Sbjct: 172 VVRELTGGIYFGEPRGIKTN 191
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 39/70 (55%), Gaps = 1/70 (1%)
Query: 363 NLFVYNALINSLCKERKFNEAEFLFNEMKQKGLSPNVVTYSILIDSLCRRGEMDIAVSF- 421
L +YNA++ ++ F E ++ +K GL+P++++Y+ + + R+ + +
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERC 223
Query: 422 LGKMADEGIK 431
L +M+ EG+K
Sbjct: 224 LEQMSQEGLK 233
Score = 30.8 bits (68), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 23/40 (57%)
Query: 786 YNILIHGFCTMGKFEEATKLLGGMMDNGILPDCITYSTII 825
YN ++ G+ G F+E +L + D G+ PD ++Y+ +
Sbjct: 168 YNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL 207
>pdb|2HYP|A Chain A, Crystal Structure Of Rv0805 D66a Mutant
Length = 280
Score = 30.8 bits (68), Expect = 3.2, Method: Composition-based stats.
Identities = 11/26 (42%), Positives = 20/26 (76%)
Query: 666 LLKEMHDKGLRPDNVIYTSMIDAKGK 691
LL++++ GLRPD +++T + AKG+
Sbjct: 46 LLEQLNQSGLRPDAIVFTGDLAAKGE 71
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
0.324 0.140 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,518,149
Number of Sequences: 62578
Number of extensions: 1055447
Number of successful extensions: 2477
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: 2432
Number of HSP's gapped (non-prelim): 37
length of query: 890
length of database: 14,973,337
effective HSP length: 107
effective length of query: 783
effective length of database: 8,277,491
effective search space: 6481275453
effective search space used: 6481275453
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (26.2 bits)