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= 046719
(808 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 = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 34/130 (26%), Positives = 56/130 (43%), Gaps = 11/130 (8%)
Query: 316 FDGYSKCGDGEGVMALYEELSGRGFRINSYTCSILLNALCK--EGKVEIAE--------E 365
D SK GD + LY+E G +++ Y ++LL +C E E + +
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLL-YVCSLAEAATESSPNPGLSRGFD 91
Query: 366 IVGKEIENGLVPDEVMFNTIVSGYCRTGDLNRAMLAIQQMENHGLAPNCITFNTLIDKFC 425
I + I + +VP+E F D A ++QM+ G+ P ++ + FC
Sbjct: 92 IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFC 151
Query: 426 ELGEMDKAEE 435
G+ DKA E
Sbjct: 152 RKGDADKAYE 161
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 31/121 (25%), Positives = 56/121 (46%), Gaps = 12/121 (9%)
Query: 117 EALQLYASTKADGTRLSLDSINVLL------ECLVRCNQ---YDRALDLFDEIVCMGFRP 167
EAL+LY + +G +LS NVLL E + R D+F +++ P
Sbjct: 44 EALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVP 103
Query: 168 DKFTYGKAVQAAVKIGDLKRACEIFDGMEKSRTRPNVFVYNVLISGFCKEKKIRDAEKLF 227
++ T+ + AV D + A ++ M+ +P + Y + GFC++ DA+K +
Sbjct: 104 NEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKG---DADKAY 160
Query: 228 D 228
+
Sbjct: 161 E 161
Score = 35.8 bits (81), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 25/122 (20%), Positives = 48/122 (39%), Gaps = 9/122 (7%)
Query: 526 IDGSCTMGRIKDAFKFFDEMVKREMGPTLVTFNALINGLCKKGRVMEAE---------DM 576
+D G + +A + +DE + + + +N L+ E+ D+
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 577 LPQITSSGLNPDVITYNXXXXXXXXXXXXQKCLELYENMKKLGIKPSLRTYHPLLSGCIR 636
Q+ + P+ T+ + ++ + MK GI+P LR+Y P L G R
Sbjct: 93 FKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCR 152
Query: 637 EG 638
+G
Sbjct: 153 KG 154
Score = 33.5 bits (75), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 27/123 (21%), Positives = 50/123 (40%), Gaps = 10/123 (8%)
Query: 607 KCLELYENMKKLGIKPSLRTYHPLLSGCI----------REGIVAVEKLFNEMLQINLVP 656
+ L LY+ ++ G++ S Y+ LL C G+ +F +M+ +VP
Sbjct: 44 EALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVP 103
Query: 657 DLLVYNALIHCYAEHGDVQKALVLHSEMVDQGIRPDKMTYNSLIFGHLREGKLSEVKELV 716
+ + D + A + +M GI+P +Y +FG R+G + E+
Sbjct: 104 NEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVD 163
Query: 717 NDM 719
M
Sbjct: 164 AHM 166
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 33/130 (25%), Positives = 55/130 (42%), Gaps = 11/130 (8%)
Query: 316 FDGYSKCGDGEGVMALYEELSGRGFRINSYTCSILLNALCK--EGKVEIAE--------E 365
D SK GD + LY+E G +++ Y ++LL +C E E + +
Sbjct: 33 LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLL-YVCSLAEAATESSPNPGLSRGFD 91
Query: 366 IVGKEIENGLVPDEVMFNTIVSGYCRTGDLNRAMLAIQQMENHGLAPNCITFNTLIDKFC 425
I + I + +VP+E F D A ++Q + G+ P ++ + FC
Sbjct: 92 IFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFC 151
Query: 426 ELGEMDKAEE 435
G+ DKA E
Sbjct: 152 RKGDADKAYE 161
Score = 36.6 bits (83), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 32/124 (25%), Positives = 57/124 (45%), Gaps = 18/124 (14%)
Query: 117 EALQLYASTKADGTRLSLDSINVLL------ECLVRCNQ---YDRALDLFDEIVCMGFRP 167
EAL+LY + +G +LS NVLL E + R D+F + + P
Sbjct: 44 EALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQXIVDKVVP 103
Query: 168 DKFTYGKAVQAAVKIGDLKRACEIFDGMEKSRT---RPNVFVYNVLISGFCKEKKIRDAE 224
++ T+ + AV D + A FD +++ + +P + Y + GFC++ DA+
Sbjct: 104 NEATFTNGARLAVAKDDPEXA---FDXVKQXKAFGIQPRLRSYGPALFGFCRKG---DAD 157
Query: 225 KLFD 228
K ++
Sbjct: 158 KAYE 161
Score = 32.7 bits (73), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 24/122 (19%), Positives = 45/122 (36%), Gaps = 9/122 (7%)
Query: 526 IDGSCTMGRIKDAFKFFDEMVKREMGPTLVTFNALINGLCKKGRVMEAE---------DM 576
+D G + +A + +DE + + + +N L+ E+ D+
Sbjct: 33 LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 577 LPQITSSGLNPDVITYNXXXXXXXXXXXXQKCLELYENMKKLGIKPSLRTYHPLLSGCIR 636
Q + P+ T+ + + + K GI+P LR+Y P L G R
Sbjct: 93 FKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCR 152
Query: 637 EG 638
+G
Sbjct: 153 KG 154
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 32.7 bits (73), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 28/130 (21%), Positives = 58/130 (44%), Gaps = 6/130 (4%)
Query: 453 NTLIDGYGRMGHFDKCFQILEEMENSGMKPNVVSYGSLINWLCK-DCKLLEAEIVLKDME 511
N ++ G+ R G F + +L ++++G+ P+++SY + + + + D E L+ M
Sbjct: 169 NAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMS 228
Query: 512 NRGVLPNAQIYNMLI---DGSCTMGRIKDAFKFFDEMVKREMGPTLVTFNALINGLCKKG 568
G+ A +L+ D + + + F + ++ P + T L + K G
Sbjct: 229 QEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFS--LPPQLPPPVNTSKLLRDVYAKDG 286
Query: 569 RVMEAEDMLP 578
RV + LP
Sbjct: 287 RVSYPKLHLP 296
Score = 29.3 bits (64), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 24/40 (60%)
Query: 553 TLVTFNALINGLCKKGRVMEAEDMLPQITSSGLNPDVITY 592
TL +NA++ G ++G E +L + +GL PD+++Y
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY 203
>pdb|1ZRM|A Chain A, Crystal Structure Of The Reaction Intermediate Of
L-2-Haloacid Dehalogenase With 2-Chloro-N-Butyrate
pdb|1ZRN|A Chain A, Intermediate Structure Of L-2-haloacid Dehalogenase With
Monochloroacetate
Length = 232
Score = 32.0 bits (71), Expect = 1.6, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 26/46 (56%)
Query: 444 GVSPNVKTNNTLIDGYGRMGHFDKCFQILEEMENSGMKPNVVSYGS 489
G+ + +T +TL D Y R+ F + L E++ G+K ++S GS
Sbjct: 76 GLDLDARTRSTLCDAYLRLAPFSEVPDSLRELKRRGLKLAILSNGS 121
>pdb|1QH9|A Chain A, Enzyme-Product Complex Of L-2-Haloacid Dehalogenase
pdb|1JUD|A Chain A, L-2-haloacid Dehalogenase
Length = 232
Score = 32.0 bits (71), Expect = 1.6, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 26/46 (56%)
Query: 444 GVSPNVKTNNTLIDGYGRMGHFDKCFQILEEMENSGMKPNVVSYGS 489
G+ + +T +TL D Y R+ F + L E++ G+K ++S GS
Sbjct: 76 GLDLDARTRSTLCDAYLRLAPFSEVPDSLRELKRRGLKLAILSNGS 121
>pdb|3B13|A Chain A, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex
With Rac1 (T17n Mutant)
pdb|3B13|C Chain C, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex
With Rac1 (T17n Mutant)
Length = 431
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 26/41 (63%), Gaps = 1/41 (2%)
Query: 275 VMFNSLLGGFCKAKRMEEAKSVCKEMEAHGFDPDGFTYSML 315
++ +++G F K K EEA S+CKE+ A ++ + F Y +L
Sbjct: 88 TLYETIIGYFDKGKMWEEAISLCKEL-AEQYEMEIFDYELL 127
>pdb|2YIN|A Chain A, Structure Of The Complex Between Dock2 And Rac1.
pdb|2YIN|B Chain B, Structure Of The Complex Between Dock2 And Rac1
Length = 436
Score = 31.2 bits (69), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 26/41 (63%), Gaps = 1/41 (2%)
Query: 275 VMFNSLLGGFCKAKRMEEAKSVCKEMEAHGFDPDGFTYSML 315
++ +++G F K K EEA S+CKE+ A ++ + F Y +L
Sbjct: 93 TLYETIIGYFDKGKMWEEAISLCKEL-AEQYEMEIFDYELL 132
>pdb|2QFC|A Chain A, Crystal Structure Of Bacillus Thuringiensis Plcr Complexed
With Papr
pdb|2QFC|B Chain B, Crystal Structure Of Bacillus Thuringiensis Plcr Complexed
With Papr
pdb|3U3W|A Chain A, Crystal Structure Of Bacillus Thuringiensis Plcr In
Complex With The Peptide Papr7 And Dna
pdb|3U3W|B Chain B, Crystal Structure Of Bacillus Thuringiensis Plcr In
Complex With The Peptide Papr7 And Dna
Length = 293
Score = 29.6 bits (65), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 33/50 (66%), Gaps = 1/50 (2%)
Query: 639 IVAVEKLFNEMLQ-INLVPDLLVYNALIHCYAEHGDVQKALVLHSEMVDQ 687
I+ ++KL N+ L I++ +L + NA+ + YAE+G ++K + L +++ Q
Sbjct: 135 ILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQ 184
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
0.321 0.138 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,340,537
Number of Sequences: 62578
Number of extensions: 978828
Number of successful extensions: 2536
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 2492
Number of HSP's gapped (non-prelim): 33
length of query: 808
length of database: 14,973,337
effective HSP length: 107
effective length of query: 701
effective length of database: 8,277,491
effective search space: 5802521191
effective search space used: 5802521191
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)