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= 048794
(967 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 = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 31/127 (24%), Positives = 50/127 (39%), Gaps = 9/127 (7%)
Query: 234 VDALCKVGNVEEAFSILDLMRGEGILPNLHTYNTL--ICGLLRLDR-------VEEALEV 284
+D K G+V EA + D R G+ + + YN L +C L + ++
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 285 FNNMEILGVQPTAYTYILFIDYYGKSADPGKALETFEKMKIRGIVPNVVSCNASLYSLAE 344
F M + V P T+ DP A + ++MK GI P + S +L+
Sbjct: 93 FKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCR 152
Query: 345 TGRIGEA 351
G +A
Sbjct: 153 KGDADKA 159
Score = 37.0 bits (84), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 32/141 (22%), Positives = 59/141 (41%), Gaps = 23/141 (16%)
Query: 690 LDGYGKSGRVEELLKLYEEMSFRGCKPNTISHNIV--ISGLVKSNS-------IDKAMDL 740
LD K G V E L+LY+E G + + +N++ + L ++ + + + D+
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 741 FYNLVSGGFSPTPCTYGPLIDGLSKSGRLEEAK-------KLFEEMLDYGCKPNCVIYNI 793
F ++ P T+ + RL AK + ++M +G +P Y
Sbjct: 93 FKQMIVDKVVPNEATF-------TNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGP 145
Query: 794 LINGFGKTGDVETACELFKQM 814
+ GF + GD + A E+ M
Sbjct: 146 ALFGFCRKGDADKAYEVDAHM 166
Score = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 38/194 (19%), Positives = 87/194 (44%), Gaps = 11/194 (5%)
Query: 278 VEEALEVFNNMEILGVQPTAYTY--ILFIDYYGKSA-----DPG--KALETFEKMKIRGI 328
V EAL +++ GVQ + Y Y +L++ ++A +PG + + F++M + +
Sbjct: 42 VLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKV 101
Query: 329 VPNVVS-CNASLYSLAETGRIGEAKTIFNGLKNSGFAPDSVTYNMMMKCYSKVGQVDEAV 387
VPN + N + ++A+ A + +K G P +Y + + + G D+A
Sbjct: 102 VPNEATFTNGARLAVAKDD-PEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAY 160
Query: 388 TLLSEMVENGCEPDVIVMNTLIDTLYKADRVDEAWEMFCRMKDMKLAPTVVTYNTLLSGL 447
+ + MVE+ P+ + L+ D+ ++ R++D+ + T++ +
Sbjct: 161 EVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWF 220
Query: 448 GKEGQVQKAIELFE 461
E + ++ ++
Sbjct: 221 KSEVATKTGVKKWD 234
Score = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 34/151 (22%), Positives = 60/151 (39%), Gaps = 9/151 (5%)
Query: 70 EALAVYKRVVSEGIKPSLKTYSALM---------VAAGKRRNIKTVMNLLEEMERLGLRP 120
EAL +Y G++ S Y+ L+ + + ++ ++M + P
Sbjct: 44 EALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVP 103
Query: 121 NVYTFTICIRILGRAGKIDEAYRILKRMDDEGCGPDVVTYTVLIDALCTAGRLDQAKEIF 180
N TFT R+ + A+ ++K+M G P + +Y + C G D+A E+
Sbjct: 104 NEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVD 163
Query: 181 LKMKASSHQPDQVTYITLLDKFSDCGNIEVV 211
M S P++ LL D N + V
Sbjct: 164 AHMVESEVVPEEPELAALLKVSMDTKNADKV 194
Score = 29.6 bits (65), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 869 GRSGRIEEALSLFDEMKKRGISPDLYTYNSLI 900
+ G + EAL L+DE ++ G+ Y YN L+
Sbjct: 37 SKKGDVLEALRLYDEARRNGVQLSQYHYNVLL 68
>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 = 35.0 bits (79), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 29/127 (22%), Positives = 48/127 (37%), Gaps = 9/127 (7%)
Query: 234 VDALCKVGNVEEAFSILDLMRGEGILPNLHTYNTL--ICGLLRLDR-------VEEALEV 284
+D K G+V EA + D R G+ + + YN L +C L + ++
Sbjct: 33 LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 285 FNNMEILGVQPTAYTYILFIDYYGKSADPGKALETFEKMKIRGIVPNVVSCNASLYSLAE 344
F + V P T+ DP A + ++ K GI P + S +L+
Sbjct: 93 FKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCR 152
Query: 345 TGRIGEA 351
G +A
Sbjct: 153 KGDADKA 159
Score = 34.7 bits (78), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 32/137 (23%), Positives = 55/137 (40%), Gaps = 23/137 (16%)
Query: 690 LDGYGKSGRVEELLKLYEEMSFRGCKPNTISHNIV--ISGLVKSNS-------IDKAMDL 740
LD K G V E L+LY+E G + + +N++ + L ++ + + + D+
Sbjct: 33 LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 741 FYNLVSGGFSPTPCTYGPLIDGLSKSGRLEEAKKLFEEMLD-------YGCKPNCVIYNI 793
F + P T+ + RL AK E D +G +P Y
Sbjct: 93 FKQXIVDKVVPNEATF-------TNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGP 145
Query: 794 LINGFGKTGDVETACEL 810
+ GF + GD + A E+
Sbjct: 146 ALFGFCRKGDADKAYEV 162
Score = 29.6 bits (65), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 865 INGLGRSGRIEEALSLFDEMKKRGISPDLYTYNSLI 900
++ + G + EAL L+DE ++ G+ Y YN L+
Sbjct: 33 LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLL 68
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 33.1 bits (74), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 843 LHYFEELKLNGLDADTISYNFMINGLGRSGRIEEALSLFDEMKKRGISPDLYTYNSLILN 902
+H+ + K L D YN ++ G R G +E + + +K G++PDL +Y + +
Sbjct: 152 VHHGQRQKRKLLTLDM--YNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQC 209
Query: 903 LGR----AGMVE 910
+GR AG +E
Sbjct: 210 MGRQDQDAGTIE 221
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 32/132 (24%), Positives = 57/132 (43%), Gaps = 8/132 (6%)
Query: 647 TLEMYNYLIHGLLEVHATEMGLDLFTTMKNAGCAPDISTYNLLLDGYGK----SGRVEEL 702
TL+MYN ++ G A + + + +K+AG PD+ +Y L G+ +G +E
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERC 223
Query: 703 LKLYEEMSFRGCKPNTISHNIVISGLVKSNSIDKAMDLFYNLVSGGFSPTPCTYGPLI-D 761
L E+MS G K + +++S ++ + + P P L+ D
Sbjct: 224 L---EQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRD 280
Query: 762 GLSKSGRLEEAK 773
+K GR+ K
Sbjct: 281 VYAKDGRVSYPK 292
Score = 30.0 bits (66), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 28/125 (22%), Positives = 52/125 (41%), Gaps = 2/125 (1%)
Query: 55 YNGFIHFILQSGFCREALAVYKRVVSEGIKPSLKTYSALMVAAGKR-RNIKTVMNLLEEM 113
YN + + G +E + V V G+ P L +Y+A + G++ ++ T+ LE+M
Sbjct: 168 YNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQM 227
Query: 114 ERLGLRPNVYTFTICIRILGRAGKIDEAYRILKRMD-DEGCGPDVVTYTVLIDALCTAGR 172
+ GL+ + + RA + +++ P V T +L D GR
Sbjct: 228 SQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGR 287
Query: 173 LDQAK 177
+ K
Sbjct: 288 VSYPK 292
>pdb|3APO|A Chain A, Crystal Structure Of Full-Length Erdj5
Length = 780
Score = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 41/189 (21%), Positives = 74/189 (39%), Gaps = 28/189 (14%)
Query: 433 LAPTVVTYNTLLSGLGKEGQVQKAIELFEG---MTDHGCFPNTVTFN-TLLHCLCKNEEV 488
L P + +TLL G K G + I EG M + +P TV FN + +H +
Sbjct: 473 LLPELRKASTLLYGQLKVGTLDCTIH--EGLCNMYNIQAYPTTVVFNQSSIHEYEGHHSA 530
Query: 489 DLAMKMLYEMTPRNCWPDVLTYNTIIYGLVKEQRVKDAIWFFHQMRKWLYPDHI------ 542
+ ++ + ++ RN P V++ + + +QR D +W W +P +
Sbjct: 531 EQILEFIEDL--RN--PSVVSLTPSTFNELVKQRKHDEVWMVDFYSPWSHPSQVLMPEWK 586
Query: 543 TLCTLLPGVVKDGQIEDAFRLAKCSIYQIGTRAERQFWQDLVGGILTVAGPDKSILFAEK 602
+ L G++ G ++ + C+ + E +F+ P KS +
Sbjct: 587 RMARTLTGLINVGSVDCGQYHSFCTQENVQRYPEIRFY------------PQKSSKAYQY 634
Query: 603 LVCNGICRD 611
NG RD
Sbjct: 635 HSYNGWNRD 643
>pdb|3OHP|A Chain A, Crystal Structure Of Hgprt From Vibrio Cholerae
pdb|3OHP|B Chain B, Crystal Structure Of Hgprt From Vibrio Cholerae
pdb|3OHP|C Chain C, Crystal Structure Of Hgprt From Vibrio Cholerae
pdb|3OHP|D Chain D, Crystal Structure Of Hgprt From Vibrio Cholerae
Length = 177
Score = 30.8 bits (68), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 31/59 (52%), Gaps = 8/59 (13%)
Query: 143 RILKRMDDEGCGPDVVTYTVLIDALCTAGRLDQAKEIFLKMKASSHQPDQVTYITLLDK 201
RILK +DD+ G DV+ +ID T L++ KEI + +P + TLLDK
Sbjct: 80 RILKDLDDDIKGKDVLLVEDIID---TGNTLNKVKEIL-----ALREPKSIRICTLLDK 130
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
0.323 0.139 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,554,854
Number of Sequences: 62578
Number of extensions: 1210988
Number of successful extensions: 2548
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 2513
Number of HSP's gapped (non-prelim): 31
length of query: 967
length of database: 14,973,337
effective HSP length: 108
effective length of query: 859
effective length of database: 8,214,913
effective search space: 7056610267
effective search space used: 7056610267
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (26.2 bits)