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= 015839
(399 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XPI|A Chain A, Crystal Structure Of The Catalytic Domain Of E. Coli
Pseudouridine Synthase Rluc
pdb|1XPI|B Chain B, Crystal Structure Of The Catalytic Domain Of E. Coli
Pseudouridine Synthase Rluc
Length = 231
Score = 82.8 bits (203), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 55/173 (31%), Positives = 83/173 (47%), Gaps = 6/173 (3%)
Query: 144 ILQKEPDVLTVCKPPSVPVHPCGQYRKNTVVGILQAEHDLAPLFPVHRLDRLVSGLLILA 203
IL ++ +L + KP VH + G+ + L VHRLDR SG+L++A
Sbjct: 7 ILYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARFLELVHRLDRDTSGVLLVA 66
Query: 204 RNASKADLFRQQIEAGKVIKRYIARVNGVFPEGEQVVDVNINYNASAGRSTAESGDSLGD 263
+ S +Q+ + K Y+A V G + + V + N +SG+ +
Sbjct: 67 KKRSALRSLHEQLREKGMQKDYLALVRGQWQSHVKSVQAPLLKN------ILQSGERIVR 120
Query: 264 TPLKGKAACTKFTRISTNGTHSIVLCEPITGRTHQIRVHLQYTGYPIANDMLY 316
+GK + T+F ++V C P+TGRTHQIRVH QY G+PIA D Y
Sbjct: 121 VSQEGKPSETRFKVEERYAFATLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRY 173
>pdb|1V9K|A Chain A, The Crystal Structure Of The Catalytic Domain Of
Pseudouridine Synthase Rluc From Escherichia Coli
pdb|1V9K|B Chain B, The Crystal Structure Of The Catalytic Domain Of
Pseudouridine Synthase Rluc From Escherichia Coli
Length = 228
Score = 80.1 bits (196), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 54/173 (31%), Positives = 81/173 (46%), Gaps = 6/173 (3%)
Query: 144 ILQKEPDVLTVCKPPSVPVHPCGQYRKNTVVGILQAEHDLAPLFPVHRLDRLVSGLLILA 203
I ++ +L + KP VH + G+ + L VHRLDR SG+L++A
Sbjct: 4 IXYEDDHILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARFLELVHRLDRDTSGVLLVA 63
Query: 204 RNASKADLFRQQIEAGKVIKRYIARVNGVFPEGEQVVDVNINYNASAGRSTAESGDSLGD 263
+ S +Q+ K Y+A V G + + V + N +SG+ +
Sbjct: 64 KKRSALRSLHEQLREKGXQKDYLALVRGQWQSHVKSVQAPLLKN------ILQSGERIVR 117
Query: 264 TPLKGKAACTKFTRISTNGTHSIVLCEPITGRTHQIRVHLQYTGYPIANDMLY 316
+GK + T+F ++V C P+TGRTHQIRVH QY G+PIA D Y
Sbjct: 118 VSQEGKPSETRFKVEERYAFATLVRCSPVTGRTHQIRVHTQYAGHPIAFDDRY 170
>pdb|2I82|A Chain A, Crystal Structure Of Pseudouridine Synthase Rlua: Indirect
Sequence Readout Through Protein-induced Rna Structure
pdb|2I82|B Chain B, Crystal Structure Of Pseudouridine Synthase Rlua: Indirect
Sequence Readout Through Protein-induced Rna Structure
pdb|2I82|C Chain C, Crystal Structure Of Pseudouridine Synthase Rlua: Indirect
Sequence Readout Through Protein-induced Rna Structure
pdb|2I82|D Chain D, Crystal Structure Of Pseudouridine Synthase Rlua: Indirect
Sequence Readout Through Protein-induced Rna Structure
Length = 217
Score = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 53/189 (28%), Positives = 87/189 (46%), Gaps = 18/189 (9%)
Query: 133 HEPPVMAWDVSILQKEPDVLTVCKPPSVPVHPCGQYRKNTVVGILQAEHDLAPLFPVHRL 192
+ PP W V + Q D + V PS + G+ ++ + + D VHRL
Sbjct: 4 YNPPQEPWLVILYQD--DHIXVVNKPSGLLSVPGRLEEHKDSVXTRIQRDYPQAESVHRL 61
Query: 193 DRLVSGLLILARNASKADLFRQQIEAGKVIKRYIARVNGVFPEGEQVVDVNI---NYNAS 249
D SG++++A + ++Q + K+Y+ARV G E +VD+ + N
Sbjct: 62 DXATSGVIVVALTKAAERELKRQFREREPKKQYVARVWGHPSPAEGLVDLPLICDWPNRP 121
Query: 250 AGRSTAESGDSLGDTPLKGKAACTKFTRI--STNGTHSIVLCEPITGRTHQIRVHLQYTG 307
+ E+G K A T++ + + + T +VL +PITGR+HQ+RVH G
Sbjct: 122 KQKVCYETG----------KPAQTEYEVVEYAADNTARVVL-KPITGRSHQLRVHXLALG 170
Query: 308 YPIANDMLY 316
+PI D Y
Sbjct: 171 HPILGDRFY 179
>pdb|1V9F|A Chain A, Crystal Structure Of Catalytic Domain Of Pseudouridine
Synthase Rlud From Escherichia Coli
pdb|2IST|A Chain A, Crystal Structure Of Rlud From E. Coli
Length = 325
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 50/189 (26%), Positives = 86/189 (45%), Gaps = 15/189 (7%)
Query: 132 RHEPPVMAWDVSILQKEPDVLTVCKPPSVPVHPCGQYRKNTVVGILQAEH----DLAPLF 187
R EP + D I+ ++ D++ + KP + VHP TV+ L + D+
Sbjct: 75 RFEPQDIPLD--IVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAG 132
Query: 188 PVHRLDRLVSGLLILARNASKADLFRQQIEAGKVIKRYIARVNGVFPEGEQVVDVNINYN 247
VHRLD+ +GL+++A+ + ++ ++ + Y A G G VD I+ +
Sbjct: 133 IVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAG-GTVDEPISRH 191
Query: 248 ASAGRSTAESGDSLGDTPLKGKAACTKFTRISTNGTHSIVLCEPITGRTHQIRVHLQYTG 307
+ A P+ GK A T + + H+ + TGRTHQIRVH+ +
Sbjct: 192 PTKRTHMAVH-------PM-GKPAVTHYRIMEHFRVHTRLRLRLETGRTHQIRVHMAHIT 243
Query: 308 YPIANDMLY 316
+P+ D +Y
Sbjct: 244 HPLVGDPVY 252
>pdb|1QYU|A Chain A, Structure Of The Catalytic Domain Of 23s Rrna
Pseudouridine Synthase Rlud
Length = 349
Score = 51.6 bits (122), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 50/189 (26%), Positives = 83/189 (43%), Gaps = 15/189 (7%)
Query: 132 RHEPPVMAWDVSILQKEPDVLTVCKPPSVPVHPCGQYRKNTVVGILQAEH----DLAPLF 187
R EP + D I+ ++ D++ + KP + VHP TV+ L + D+
Sbjct: 99 RFEPQDIPLD--IVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAG 156
Query: 188 PVHRLDRLVSGLLILARNASKADLFRQQIEAGKVIKRYIARVNGVFPEGEQVVDVNINYN 247
VHRLD+ +GL ++A+ + ++ ++ + Y A G G VD I+ +
Sbjct: 157 IVHRLDKDTTGLXVVAKTVPAQTRLVESLQRREITREYEAVAIGHXTAG-GTVDEPISRH 215
Query: 248 ASAGRSTAESGDSLGDTPLKGKAACTKFTRISTNGTHSIVLCEPITGRTHQIRVHLQYTG 307
+ A P+ GK A T + H+ + TGRTHQIRVH +
Sbjct: 216 PTKRTHXAVH-------PM-GKPAVTHYRIXEHFRVHTRLRLRLETGRTHQIRVHXAHIT 267
Query: 308 YPIANDMLY 316
+P+ D +Y
Sbjct: 268 HPLVGDPVY 276
>pdb|1PRZ|A Chain A, Crystal Structure Of Pseudouridine Synthase Rlud Catalytic
Module
Length = 252
Score = 51.2 bits (121), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 49/189 (25%), Positives = 80/189 (42%), Gaps = 15/189 (7%)
Query: 132 RHEPPVMAWDVSILQKEPDVLTVCKPPSVPVHPCGQYRKNTVVGILQAEHDLAPLFP--- 188
R EP + D I+ ++ D++ + KP + VHP TV+ L + P
Sbjct: 2 RFEPQDIPLD--IVYEDEDIIVINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAG 59
Query: 189 -VHRLDRLVSGLLILARNASKADLFRQQIEAGKVIKRYIARVNGVFPEGEQVVDVNINYN 247
VHRLD+ +GL ++A+ + ++ ++ + Y A G G VD I+ +
Sbjct: 60 IVHRLDKDTTGLXVVAKTVPAQTRLVESLQRREITREYEAVAIGHXTAG-GTVDEPISRH 118
Query: 248 ASAGRSTAESGDSLGDTPLKGKAACTKFTRISTNGTHSIVLCEPITGRTHQIRVHLQYTG 307
+ A GK A T + H+ + TGRTHQIRVH +
Sbjct: 119 PTKRTHXAVHP--------XGKPAVTHYRIXEHFRVHTRLRLRLETGRTHQIRVHXAHIT 170
Query: 308 YPIANDMLY 316
+P+ D +Y
Sbjct: 171 HPLVGDPVY 179
>pdb|2Y4U|A Chain A, Crystal Structure Of Human P58(Ipk) In Space Group P312
Length = 450
Score = 32.7 bits (73), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 2/43 (4%)
Query: 116 VSYTVKSSQKISHFLHRHEPPVMAWDV--SILQKEPDVLTVCK 156
YTV+S ++I H + E PV A V +LQ EPD + K
Sbjct: 291 AEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQXEPDNVNALK 333
>pdb|3IEG|A Chain A, Crystal Structure Of P58(Ipk) Tpr Domain At 2.5 A
pdb|3IEG|B Chain B, Crystal Structure Of P58(Ipk) Tpr Domain At 2.5 A
Length = 359
Score = 32.3 bits (72), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 2/43 (4%)
Query: 116 VSYTVKSSQKISHFLHRHEPPVMAWDV--SILQKEPDVLTVCK 156
YTV+S ++I H + E PV A + +LQ EPD + K
Sbjct: 268 AEYTVRSKERICHCFSKDEKPVEAIRICSEVLQXEPDNVNALK 310
>pdb|2Y4T|A Chain A, Crystal Structure Of The Human Co-Chaperone P58(Ipk)
pdb|2Y4T|B Chain B, Crystal Structure Of The Human Co-Chaperone P58(Ipk)
pdb|2Y4T|C Chain C, Crystal Structure Of The Human Co-Chaperone P58(Ipk)
Length = 450
Score = 32.0 bits (71), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 2/43 (4%)
Query: 116 VSYTVKSSQKISHFLHRHEPPVMAWDV--SILQKEPDVLTVCK 156
YTV+S ++I H + E PV A V +LQ EPD + K
Sbjct: 291 AEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALK 333
>pdb|2YT7|A Chain A, Solution Structure Of The Pdz Domain Of Amyloid Beta A4
Precursor Protein-Binding Family A Member 3
Length = 101
Score = 29.3 bits (64), Expect = 4.0, Method: Composition-based stats.
Identities = 17/41 (41%), Positives = 22/41 (53%)
Query: 252 RSTAESGDSLGDTPLKGKAACTKFTRISTNGTHSIVLCEPI 292
R TA +G SL PL A + T+ T+ T SIV C P+
Sbjct: 61 RLTAINGTSLVGLPLAACQAAVRETKSQTSVTLSIVHCPPV 101
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
0.320 0.135 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,999,898
Number of Sequences: 62578
Number of extensions: 431687
Number of successful extensions: 901
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 885
Number of HSP's gapped (non-prelim): 12
length of query: 399
length of database: 14,973,337
effective HSP length: 101
effective length of query: 298
effective length of database: 8,652,959
effective search space: 2578581782
effective search space used: 2578581782
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: 52 (24.6 bits)