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= 002549
(909 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 = 35.0 bits (79), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 25/119 (21%), Positives = 49/119 (41%), Gaps = 9/119 (7%)
Query: 173 LLNEVRRSGLRPDIITYNTIISAC---------SRESNLEEAMKVYGDLEAHNCQPDLWT 223
L +E RR+G++ YN ++ C S L ++ + P+ T
Sbjct: 48 LYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEAT 107
Query: 224 YNAMISVYGRCGLFEKAEQLFKELESKGFFPDAVTYNSLLYAFAREGNVEKVKEISENM 282
+ + E A + K++++ G P +Y L+ F R+G+ +K E+ +M
Sbjct: 108 FTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM 166
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 30/144 (20%), Positives = 58/144 (40%), Gaps = 26/144 (18%)
Query: 751 LDAFARSGNIFEVKKIYHGMKAAGYFPTMYLYRVMSGLFCKGKRVRDVEAMVSEMKEAGF 810
LD ++ G++ E ++Y + G + Y Y V+ L+ V ++ E+
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVL--LY--------VCSLAEAATESSP 82
Query: 811 KPDLSIWNSMLKLYTGIEDFKKTIQVYQEIQEADLQPDEDSFNTLIIMYCRDCRPEEGLS 870
P LS G + FK+ I + P+E +F + PE
Sbjct: 83 NPGLS---------RGFDIFKQMIV-------DKVVPNEATFTNGARLAVAKDDPEMAFD 126
Query: 871 LMHEMRKLGLEPKLDTYKSLISAF 894
++ +M+ G++P+L +Y + F
Sbjct: 127 MVKQMKAFGIQPRLRSYGPALFGF 150
Score = 30.4 bits (67), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 27/131 (20%), Positives = 58/131 (44%), Gaps = 17/131 (12%)
Query: 196 CSRESNLEEAMKVYGDLEAHNCQPDLWTYNAMISVYGRCGLFEKAEQ------------L 243
CS++ ++ EA+++Y + + Q + YN ++ V C L E A + +
Sbjct: 36 CSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYV---CSLAEAATESSPNPGLSRGFDI 92
Query: 244 FKELESKGFFPDAVTY-NSLLYAFAREGNVEKVKEISENMLKMGFGKDEMTYNTIIHMYG 302
FK++ P+ T+ N A A++ + E ++ + M G +Y + +
Sbjct: 93 FKQMIVDKVVPNEATFTNGARLAVAKD-DPEMAFDMVKQMKAFGIQPRLRSYGPALFGFC 151
Query: 303 KQGQHDVALQL 313
++G D A ++
Sbjct: 152 RKGDADKAYEV 162
>pdb|3EDT|B Chain B, Crystal Structure Of The Mutated S328n Hklc2 Tpr Domain
pdb|3EDT|D Chain D, Crystal Structure Of The Mutated S328n Hklc2 Tpr Domain
pdb|3EDT|F Chain F, Crystal Structure Of The Mutated S328n Hklc2 Tpr Domain
pdb|3EDT|H Chain H, Crystal Structure Of The Mutated S328n Hklc2 Tpr Domain
Length = 283
Score = 34.7 bits (78), Expect = 0.27, Method: Composition-based stats.
Identities = 40/156 (25%), Positives = 68/156 (43%), Gaps = 22/156 (14%)
Query: 184 PDIITYNTIISACSRESN--------LEEAMKVYGDLEAHNCQPDLWTYNAMISVYGRCG 235
PD+ T I++ R+ N L +A+ + + T N + +YG+ G
Sbjct: 40 PDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRG 99
Query: 236 LFEKAEQLFK---ELESK---GFFPD-AVTYNSLLYAFAREGNVEKVKEISENMLKM--- 285
+++AE L K E+ K F PD A N+L +G E+V+ L++
Sbjct: 100 KYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYAT 159
Query: 286 GFGKDE----MTYNTIIHMYGKQGQHDVALQLYRDM 317
G D+ T N + Y KQG++ A LY+++
Sbjct: 160 RLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEI 195
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 34.7 bits (78), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 66/155 (42%), Gaps = 20/155 (12%)
Query: 113 TVQVYNAMMGIYARNGRFQKVQELLDLMRKRGCEPDLVSFNTLINARLRSGAMVPNLGVD 172
T+ +YNA+M +AR G F+++ +L +++ G PDL+S+ + R +
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIE-R 222
Query: 173 LLNEVRRSGLRPDIITYNTIISACSRESNLEEAMKVYGDLE-AHNCQPDLWTYNAMISVY 231
L ++ + GL+ + ++S R + L+ KV P + T + VY
Sbjct: 223 CLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVY 282
Query: 232 GRCG----------------LFEKAEQLFKELESK 250
+ G LFEK QL EL S+
Sbjct: 283 AKDGRVSYPKLHLPLKTLQCLFEK--QLHMELASR 315
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 23/94 (24%), Positives = 46/94 (48%), Gaps = 2/94 (2%)
Query: 360 TLRTYSALICGYAKAGNRLEAEKTFYCMRRSGIRPDHLAYSVMLDIFLRFNETNKAMMLY 419
TL Y+A++ G+A+ G E + ++ +G+ PD L+Y+ L R ++ +
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERC 223
Query: 420 QEMVSNGFTPDQALYEIMIGVLGRENKGEEIRKV 453
E +S QAL+ ++ L E++ ++ V
Sbjct: 224 LEQMSQEGLKLQALFTAVL--LSEEDRATVLKAV 255
Score = 29.6 bits (65), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 37/67 (55%), Gaps = 5/67 (7%)
Query: 224 YNAMISVYGRCGLFEKAEQLFKELESKGFFPDAVTYNSLLYAFARE----GNVEK-VKEI 278
YNA++ + R G F++ + ++ G PD ++Y + L R+ G +E+ ++++
Sbjct: 168 YNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQM 227
Query: 279 SENMLKM 285
S+ LK+
Sbjct: 228 SQEGLKL 234
>pdb|3CEQ|A Chain A, The Tpr Domain Of Human Kinesin Light Chain 2 (Hklc2)
pdb|3CEQ|B Chain B, The Tpr Domain Of Human Kinesin Light Chain 2 (Hklc2)
Length = 283
Score = 32.3 bits (72), Expect = 1.1, Method: Composition-based stats.
Identities = 39/156 (25%), Positives = 68/156 (43%), Gaps = 22/156 (14%)
Query: 184 PDIITYNTIISACSRESN--------LEEAMKVYGDLEAHNCQPDLWTYNAMISVYGRCG 235
PD+ T I++ R+ N L +A+ + + T N + +YG+ G
Sbjct: 40 PDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRG 99
Query: 236 LFEKAEQLFK---ELESK---GFFPD-AVTYNSLLYAFAREGNVEKVKEISENMLKM--- 285
+++AE L K E+ K F PD A ++L +G E+V+ L++
Sbjct: 100 KYKEAEPLCKRALEIREKVLGKFHPDVAKQLSNLALLCQNQGKAEEVEYYYRRALEIYAT 159
Query: 286 GFGKDE----MTYNTIIHMYGKQGQHDVALQLYRDM 317
G D+ T N + Y KQG++ A LY+++
Sbjct: 160 RLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEI 195
>pdb|1ND7|A Chain A, Conformational Flexibility Underlies Ubiquitin Ligation
Mediated By The Wwp1 Hect Domain E3 Ligase
Length = 374
Score = 30.0 bits (66), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 39/86 (45%), Gaps = 18/86 (20%)
Query: 380 AEKTFYCMR---RSGIRPDHLAYSVMLDIFL-------RFNETNKAMMLYQEMVSNGFT- 428
A K YC++ S I PDHL+Y + F+ +F +T ++ Y+ M+S T
Sbjct: 91 AGKNNYCLQINPASTINPDHLSYFCFIGRFIAMALFHGKFIDTGFSLPFYKRMLSKKLTI 150
Query: 429 -----PDQALYEIMIGVLGRENKGEE 449
D Y +I + R+N EE
Sbjct: 151 KDLESIDTEFYNSLIWI--RDNNIEE 174
>pdb|3H0L|B Chain B, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|E Chain E, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|H Chain H, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|K Chain K, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|N Chain N, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|Q Chain Q, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|T Chain T, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0L|W Chain W, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|B Chain B, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|E Chain E, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|H Chain H, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|K Chain K, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|N Chain N, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|Q Chain Q, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|T Chain T, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0M|W Chain W, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|B Chain B, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|E Chain E, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|H Chain H, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|K Chain K, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|N Chain N, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|Q Chain Q, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|T Chain T, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
pdb|3H0R|W Chain W, Structure Of Trna-Dependent Amidotransferase Gatcab From
Aquifex Aeolicus
Length = 478
Score = 30.0 bits (66), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 35/68 (51%), Gaps = 1/68 (1%)
Query: 387 MRRSGIRPDHLAYSVMLDIFLRFNETNKAMMLYQEMVSNGFTPDQALYEIMIGVLGRENK 446
+ S ++P+HLA V L I + T + +EMV G TP Q + E + + EN+
Sbjct: 362 IEESPVKPEHLAELVKL-IKEKVISTKIGKEVIKEMVETGKTPSQIVEEKGLKQITDENQ 420
Query: 447 GEEIRKVV 454
+E+ K +
Sbjct: 421 IKELVKKI 428
>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 = 29.6 bits (65), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 24/115 (20%), Positives = 44/115 (38%), Gaps = 9/115 (7%)
Query: 173 LLNEVRRSGLRPDIITYNTIISAC---------SRESNLEEAMKVYGDLEAHNCQPDLWT 223
L +E RR+G++ YN ++ C S L ++ P+ T
Sbjct: 48 LYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQXIVDKVVPNEAT 107
Query: 224 YNAMISVYGRCGLFEKAEQLFKELESKGFFPDAVTYNSLLYAFAREGNVEKVKEI 278
+ + E A K+ ++ G P +Y L+ F R+G+ +K E+
Sbjct: 108 FTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDADKAYEV 162
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 0.135 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,118,227
Number of Sequences: 62578
Number of extensions: 1014328
Number of successful extensions: 3024
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 2998
Number of HSP's gapped (non-prelim): 30
length of query: 909
length of database: 14,973,337
effective HSP length: 108
effective length of query: 801
effective length of database: 8,214,913
effective search space: 6580145313
effective search space used: 6580145313
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)