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= 000951
(1211 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 = 39.7 bits (91), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 39/165 (23%), Positives = 65/165 (39%), Gaps = 9/165 (5%)
Query: 222 KKGRYKAAFKLIDCMASKGIEADVCTYNMFI---------DDLCRNNRSAKGYLLLKNMR 272
KKG A +L D G++ YN+ + + N ++G+ + K M
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMI 97
Query: 273 KRMITPNEVTYNTLINGFVKEGKIQVASRVFDEMSMLNFSPNSITYNELIDGHCCKGNFK 332
+ PNE T+ V + ++A + +M P +Y + G C KG+
Sbjct: 98 VDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDAD 157
Query: 333 EAFRLLAMMEEMGLRPNEVSYGALLNGFCKHAKFDLARSLLERMR 377
+A+ + A M E + P E ALL D L+R+R
Sbjct: 158 KAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLR 202
Score = 35.0 bits (79), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 37/71 (52%)
Query: 162 LFDDMLDRKICPNVATFNILINVSCVEGKLKKAGYLLRKMEESGYVPNIVTYNTLLNWYC 221
+F M+ K+ PN ATF ++ + + A ++++M+ G P + +Y L +C
Sbjct: 92 IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFC 151
Query: 222 KKGRYKAAFKL 232
+KG A+++
Sbjct: 152 RKGDADKAYEV 162
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 34.3 bits (77), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 40/76 (52%), Gaps = 2/76 (2%)
Query: 318 YNELIDGHCCKGNFKEAFRLLAMMEEMGLRPNEVSYGALLNGFCKHAK-FDLARSLLERM 376
YN ++ G +G FKE +L M+++ GL P+ +SY A L + + LE+M
Sbjct: 168 YNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQM 227
Query: 377 RTNGISISCIAYTSVI 392
G+ + + +T+V+
Sbjct: 228 SQEGLKLQAL-FTAVL 242
>pdb|4DDT|A Chain A, Thermotoga Maritima Reverse Gyrase, C2 Form 2
pdb|4DDU|A Chain A, Thermotoga Maritima Reverse Gyrase, C2 Form 1
pdb|4DDV|A Chain A, Thermotoga Maritima Reverse Gyrase, Triclinic Form
pdb|4DDV|B Chain B, Thermotoga Maritima Reverse Gyrase, Triclinic Form
pdb|4DDW|A Chain A, Thermotoga Maritima Reverse Gyrase, C-centered Orthorhombic
Form
pdb|4DDX|A Chain A, Thermotoga Maritima Reverse Gyrase, Primitive Monoclinic
Form
pdb|4DDX|B Chain B, Thermotoga Maritima Reverse Gyrase, Primitive Monoclinic
Form
Length = 1104
Score = 33.5 bits (75), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 1/79 (1%)
Query: 985 NVLISGLCANGDVMPAFELYEEMKHKGLCPNSTTYSVLIDAISKKENNLVKGEILLKDIQ 1044
N+ + G A+ DV+ EL E + K P TT S L + K + + +L+D+
Sbjct: 786 NLEVEGKIAD-DVVTVVELQEAEEEKNPLPPYTTSSALSEISQKLRLGVQEVMDILQDLF 844
Query: 1045 ERGFISWNWDGSTQHLHEG 1063
E+GFI+++ ST+ EG
Sbjct: 845 EKGFITYHRTDSTRISLEG 863
>pdb|2VWB|A Chain A, Structure Of The Archaeal Kae1-Bud32 Fusion Protein
Mj1130: A Model For The Eukaryotic Ekc-Keops Subcomplex
Involved In Transcription And Telomere Homeostasis.
pdb|2VWB|B Chain B, Structure Of The Archaeal Kae1-Bud32 Fusion Protein
Mj1130: A Model For The Eukaryotic Ekc-Keops Subcomplex
Involved In Transcription And Telomere Homeostasis
Length = 535
Score = 33.1 bits (74), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 45/94 (47%), Gaps = 8/94 (8%)
Query: 201 MEESGYVPNIVTYNTLLNWYCK-KGRYKAAFKLIDCMASKGIEADVCTYNMFIDDLCRNN 259
++E+ +PN T +NW + KG+ + K+ + + KG EAD+ + D+
Sbjct: 305 LDETKIIPNYRTDMVEVNWIKEIKGKKR---KIPEHLIGKGAEADIKRDSYLDFDVIIKE 361
Query: 260 RSAKGY---LLLKNMRKRMITPNEVTYNTLINGF 290
R KGY L +N+RK T E Y L+ F
Sbjct: 362 RVKKGYRDERLDENIRKSR-TAREARYLALVKDF 394
>pdb|3ENH|A Chain A, Crystal Structure Of Cgi121BUD32KAE1 COMPLEX
pdb|3ENH|B Chain B, Crystal Structure Of Cgi121BUD32KAE1 COMPLEX
pdb|3EN9|A Chain A, Structure Of The Methanococcus Jannaschii Kae1-Bud32
Fusion Protein
pdb|3EN9|B Chain B, Structure Of The Methanococcus Jannaschii Kae1-Bud32
Fusion Protein
Length = 540
Score = 33.1 bits (74), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 45/94 (47%), Gaps = 8/94 (8%)
Query: 201 MEESGYVPNIVTYNTLLNWYCK-KGRYKAAFKLIDCMASKGIEADVCTYNMFIDDLCRNN 259
++E+ +PN T +NW + KG+ + K+ + + KG EAD+ + D+
Sbjct: 310 LDETKIIPNYRTDMVEVNWIKEIKGKKR---KIPEHLIGKGAEADIKRDSYLDFDVIIKE 366
Query: 260 RSAKGY---LLLKNMRKRMITPNEVTYNTLINGF 290
R KGY L +N+RK T E Y L+ F
Sbjct: 367 RVKKGYRDERLDENIRKSR-TAREARYLALVKDF 399
>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 = 32.0 bits (71), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 36/165 (21%), Positives = 60/165 (36%), Gaps = 9/165 (5%)
Query: 222 KKGRYKAAFKLIDCMASKGIEADVCTYNMFI---------DDLCRNNRSAKGYLLLKNMR 272
KKG A +L D G++ YN+ + + N ++G+ + K
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQXI 97
Query: 273 KRMITPNEVTYNTLINGFVKEGKIQVASRVFDEMSMLNFSPNSITYNELIDGHCCKGNFK 332
+ PNE T+ V + + A + P +Y + G C KG+
Sbjct: 98 VDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDAD 157
Query: 333 EAFRLLAMMEEMGLRPNEVSYGALLNGFCKHAKFDLARSLLERMR 377
+A+ + A E + P E ALL D L+R+R
Sbjct: 158 KAYEVDAHXVESEVVPEEPELAALLKVSXDTKNADKVYKTLQRLR 202
Score = 29.6 bits (65), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 34/71 (47%)
Query: 162 LFDDMLDRKICPNVATFNILINVSCVEGKLKKAGYLLRKMEESGYVPNIVTYNTLLNWYC 221
+F + K+ PN ATF ++ + + A +++ + G P + +Y L +C
Sbjct: 92 IFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFC 151
Query: 222 KKGRYKAAFKL 232
+KG 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 = 29.6 bits (65), Expect = 9.5, Method: Composition-based stats.
Identities = 43/160 (26%), Positives = 64/160 (40%), Gaps = 30/160 (18%)
Query: 173 PNVAT-FNILINVSCVEGKLKKAGYLL-------RKMEESGYVPNIVTYNTLLNWYCKKG 224
P+VAT NIL V + K K+A +LL K + T N L Y K+G
Sbjct: 40 PDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRG 99
Query: 225 RYKAAFKLIDCMASKGIEADVCTYNMFIDD----------LCRNNRSA-------KGYLL 267
+YK A + + + +E F D LC+N A + L
Sbjct: 100 KYKEA----EPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALE 155
Query: 268 LKNMRKRMITPNEV-TYNTLINGFVKEGKIQVASRVFDEM 306
+ R PN T N L + ++K+GK Q A ++ E+
Sbjct: 156 IYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEI 195
>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 = 29.6 bits (65), Expect = 9.5, Method: Composition-based stats.
Identities = 43/160 (26%), Positives = 64/160 (40%), Gaps = 30/160 (18%)
Query: 173 PNVAT-FNILINVSCVEGKLKKAGYLL-------RKMEESGYVPNIVTYNTLLNWYCKKG 224
P+VAT NIL V + K K+A +LL K + T N L Y K+G
Sbjct: 40 PDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRG 99
Query: 225 RYKAAFKLIDCMASKGIEADVCTYNMFIDD----------LCRNNRSA-------KGYLL 267
+YK A + + + +E F D LC+N A + L
Sbjct: 100 KYKEA----EPLCKRALEIREKVLGKFHPDVAKQLSNLALLCQNQGKAEEVEYYYRRALE 155
Query: 268 LKNMRKRMITPNEV-TYNTLINGFVKEGKIQVASRVFDEM 306
+ R PN T N L + ++K+GK Q A ++ E+
Sbjct: 156 IYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEI 195
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 0.138 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 33,792,158
Number of Sequences: 62578
Number of extensions: 1364581
Number of successful extensions: 3536
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 3500
Number of HSP's gapped (non-prelim): 42
length of query: 1211
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1101
effective length of database: 8,089,757
effective search space: 8906822457
effective search space used: 8906822457
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 57 (26.6 bits)