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= psy1178
(144 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3U28|A Chain A, Crystal Structure Of A Cbf5-Nop10-Gar1 Complex From
Saccharomyces Cerevisiae
pdb|3UAI|A Chain A, Structure Of The Shq1-Cbf5-Nop10-Gar1 Complex From
Saccharomyces Cerevisiae
Length = 400
Score = 210 bits (534), Expect = 3e-55, Method: Compositional matrix adjust.
Identities = 94/142 (66%), Positives = 123/142 (86%)
Query: 1 MIELRRNRSGIQSEEDGLVTLHDIKDAMYLYDQHKDESLLRRVIRPLEGLLVGHKRIILK 60
M ELRR RSG SE D +VTLHD+ DA ++YD +DES LR +I+PLE LLVG+KRI++K
Sbjct: 213 MQELRRVRSGALSENDNMVTLHDVMDAQWVYDNTRDESYLRSIIQPLETLLVGYKRIVVK 272
Query: 61 DSAVNAVCYGAQIMLPGVLRYEDGIEMDEEIVIVSTKGEAVALALAQMTTSTMATCDHGV 120
DSAVNAVCYGA++M+PG+LRYE+GIE+ +EIV+++TKGEA+A+A+AQM+T +A+CDHGV
Sbjct: 273 DSAVNAVCYGAKLMIPGLLRYEEGIELYDEIVLITTKGEAIAVAIAQMSTVDLASCDHGV 332
Query: 121 VAKIKRVIMDRDTYPRKWGLGP 142
VA +KR IM+RD YPR+WGLGP
Sbjct: 333 VASVKRCIMERDLYPRRWGLGP 354
>pdb|3ZV0|C Chain C, Structure Of The Shq1p-Cbf5p Complex
pdb|3ZV0|D Chain D, Structure Of The Shq1p-Cbf5p Complex
Length = 195
Score = 158 bits (400), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 68/97 (70%), Positives = 90/97 (92%)
Query: 46 PLEGLLVGHKRIILKDSAVNAVCYGAQIMLPGVLRYEDGIEMDEEIVIVSTKGEAVALAL 105
PLE LLVG+KRI++KDSAVNAVCYGA++M+PG+LRYE+GIE+ +EIV+++TKGEA+A+A+
Sbjct: 67 PLETLLVGYKRIVVKDSAVNAVCYGAKLMIPGLLRYEEGIELYDEIVLITTKGEAIAVAI 126
Query: 106 AQMTTSTMATCDHGVVAKIKRVIMDRDTYPRKWGLGP 142
AQM+T +A+CDHGVVA +KR IM+RD YPR+WGLGP
Sbjct: 127 AQMSTVDLASCDHGVVASVKRCIMERDLYPRRWGLGP 163
>pdb|2APO|A Chain A, Crystal Structure Of The Methanococcus Jannaschii Cbf5
Nop10 Complex
Length = 357
Score = 114 bits (286), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 60/138 (43%), Positives = 86/138 (62%), Gaps = 1/138 (0%)
Query: 1 MIELRRNRSGIQSEEDGLVTLHDIKDAMYLYDQHKDESLLRRVIRPLEGLLVGHKRIILK 60
M ELRR +SG E+D V L D+ DA + + DE LRRVI+P+E L K++++K
Sbjct: 217 MQELRRTKSGCFEEKDA-VYLQDLLDAYVFWKEDGDEEELRRVIKPMEYGLRHLKKVVVK 275
Query: 61 DSAVNAVCYGAQIMLPGVLRYEDGIEMDEEIVIVSTKGEAVALALAQMTTSTMATCDHGV 120
DSAV+A+C+GA + + G+ + GI E +++ + KGEAVA+ A M T + D GV
Sbjct: 276 DSAVDAICHGADVYVRGIAKLSKGIGKGETVLVETLKGEAVAVGKALMNTKEILNADKGV 335
Query: 121 VAKIKRVIMDRDTYPRKW 138
++RV MDR TYPR W
Sbjct: 336 AVDVERVYMDRGTYPRMW 353
>pdb|2AUS|C Chain C, Crystal Structure Of The Archaeal Box HACA SRNP NOP10-Cbf5
Complex
pdb|2AUS|A Chain A, Crystal Structure Of The Archaeal Box HACA SRNP NOP10-Cbf5
Complex
Length = 334
Score = 105 bits (263), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 53/138 (38%), Positives = 83/138 (60%)
Query: 1 MIELRRNRSGIQSEEDGLVTLHDIKDAMYLYDQHKDESLLRRVIRPLEGLLVGHKRIILK 60
M ELRR RSG E++ LVTLHD+ D + + + E +R+ I+P+E + +I +K
Sbjct: 197 MAELRRTRSGPFKEDETLVTLHDLVDYYHFWKEDGIEEYIRKAIQPMEKAVEHLPKIWIK 256
Query: 61 DSAVNAVCYGAQIMLPGVLRYEDGIEMDEEIVIVSTKGEAVALALAQMTTSTMATCDHGV 120
DSAV AV +GA + +PG+++ GI+ + + I++ K E VAL A M+T M G+
Sbjct: 257 DSAVAAVAHGANLTVPGIVKLNAGIKKGDLVAIMTLKDELVALGKAMMSTQEMIERSKGI 316
Query: 121 VAKIKRVIMDRDTYPRKW 138
+++V M RD YP+ W
Sbjct: 317 AVDVEKVFMPRDWYPKLW 334
>pdb|3MQK|A Chain A, Cbf5-Nop10-Gar1 Complex Binding With 17mer Rna Containing
Aca Trinucleotide
Length = 328
Score = 105 bits (261), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 52/138 (37%), Positives = 81/138 (58%)
Query: 1 MIELRRNRSGIQSEEDGLVTLHDIKDAMYLYDQHKDESLLRRVIRPLEGLLVGHKRIILK 60
M ELRR RSG E++ L+TLHD+ D Y + + E R+ I+P+E + ++ +K
Sbjct: 190 MSELRRTRSGPFKEDETLITLHDLVDYYYFWKEDGIEEYFRKAIQPMEKAVEHLPKVWIK 249
Query: 61 DSAVNAVCYGAQIMLPGVLRYEDGIEMDEEIVIVSTKGEAVALALAQMTTSTMATCDHGV 120
DSAV AV +GA + +PG+ + GI+ + + I++ K E VAL A MT+ M G+
Sbjct: 250 DSAVAAVTHGADLAVPGIAKLHAGIKRGDLVAIMTLKDELVALGKAMMTSQEMLEKTKGI 309
Query: 121 VAKIKRVIMDRDTYPRKW 138
+++V M RD YP+ W
Sbjct: 310 AVDVEKVFMPRDWYPKLW 327
>pdb|3HJW|A Chain A, Structure Of A Functional Ribonucleoprotein Pseudouridine
Synthase Bound To A Substrate Rna
pdb|3HJY|A Chain A, Structure Of A Functional Ribonucleoprotein Pseudouridine
Synthase Bound To A Substrate Rna
Length = 327
Score = 105 bits (261), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 52/138 (37%), Positives = 81/138 (58%)
Query: 1 MIELRRNRSGIQSEEDGLVTLHDIKDAMYLYDQHKDESLLRRVIRPLEGLLVGHKRIILK 60
M ELRR RSG E++ L+TLHD+ D Y + + E R+ I+P+E + ++ +K
Sbjct: 190 MSELRRTRSGPFKEDETLITLHDLVDYYYFWKEDGIEEYFRKAIQPMEKAVEHLPKVWIK 249
Query: 61 DSAVNAVCYGAQIMLPGVLRYEDGIEMDEEIVIVSTKGEAVALALAQMTTSTMATCDHGV 120
DSAV AV +GA + +PG+ + GI+ + + I++ K E VAL A MT+ M G+
Sbjct: 250 DSAVAAVTHGADLAVPGIAKLHAGIKRGDLVAIMTLKDELVALGKAMMTSQEMLEKTKGI 309
Query: 121 VAKIKRVIMDRDTYPRKW 138
+++V M RD YP+ W
Sbjct: 310 AVDVEKVFMPRDWYPKLW 327
>pdb|2RFK|A Chain A, Substrate Rna Positioning In The Archaeal HACA
Ribonucleoprotein Complex
Length = 334
Score = 104 bits (260), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 52/138 (37%), Positives = 81/138 (58%)
Query: 1 MIELRRNRSGIQSEEDGLVTLHDIKDAMYLYDQHKDESLLRRVIRPLEGLLVGHKRIILK 60
M ELRR RSG E++ L+TLHD+ D Y + + E R+ I+P+E + ++ +K
Sbjct: 193 MSELRRTRSGPFKEDETLITLHDLVDYYYFWKEDGIEEYFRKAIQPMEKAVEHLPKVWIK 252
Query: 61 DSAVNAVCYGAQIMLPGVLRYEDGIEMDEEIVIVSTKGEAVALALAQMTTSTMATCDHGV 120
DSAV AV +GA + +PG+ + GI+ + + I++ K E VAL A MT+ M G+
Sbjct: 253 DSAVAAVTHGADLAVPGIAKLHAGIKRGDLVAIMTLKDELVALGKAMMTSQEMLEKTKGI 312
Query: 121 VAKIKRVIMDRDTYPRKW 138
+++V M RD YP+ W
Sbjct: 313 AVDVEKVFMPRDWYPKLW 330
>pdb|3LWO|A Chain A, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
5BRU
pdb|3LWP|A Chain A, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
5BRDU
pdb|3LWQ|A Chain A, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
3MU
pdb|3LWR|A Chain A, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
4SU
pdb|3LWV|A Chain A, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
2'- Deoxyuridine
Length = 340
Score = 104 bits (260), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 52/138 (37%), Positives = 81/138 (58%)
Query: 1 MIELRRNRSGIQSEEDGLVTLHDIKDAMYLYDQHKDESLLRRVIRPLEGLLVGHKRIILK 60
M ELRR RSG E++ L+TLHD+ D Y + + E R+ I+P+E + ++ +K
Sbjct: 197 MSELRRTRSGPFKEDETLITLHDLVDYYYFWKEDGIEEYFRKAIQPMEKAVEHLPKVWIK 256
Query: 61 DSAVNAVCYGAQIMLPGVLRYEDGIEMDEEIVIVSTKGEAVALALAQMTTSTMATCDHGV 120
DSAV AV +GA + +PG+ + GI+ + + I++ K E VAL A MT+ M G+
Sbjct: 257 DSAVAAVTHGADLAVPGIAKLHAGIKRGDLVAIMTLKDELVALGKAMMTSQEMLEKTKGI 316
Query: 121 VAKIKRVIMDRDTYPRKW 138
+++V M RD YP+ W
Sbjct: 317 AVDVEKVFMPRDWYPKLW 334
>pdb|2HVY|A Chain A, Crystal Structure Of An HACA BOX RNP FROM PYROCOCCUS
FURIOSUS
pdb|3HAX|A Chain A, Crystal Structure Of A Substrate-Bound Gar1-Minus HACA RNP
FROM Pyrococcus Furiosus
pdb|3HAY|A Chain A, Crystal Structure Of A Substrate-Bound Full HACA RNP FROM
Pyrococcus Furiosus
Length = 346
Score = 104 bits (260), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 52/138 (37%), Positives = 81/138 (58%)
Query: 1 MIELRRNRSGIQSEEDGLVTLHDIKDAMYLYDQHKDESLLRRVIRPLEGLLVGHKRIILK 60
M ELRR RSG E++ L+TLHD+ D Y + + E R+ I+P+E + ++ +K
Sbjct: 197 MSELRRTRSGPFKEDETLITLHDLVDYYYFWKEDGIEEYFRKAIQPMEKAVEHLPKVWIK 256
Query: 61 DSAVNAVCYGAQIMLPGVLRYEDGIEMDEEIVIVSTKGEAVALALAQMTTSTMATCDHGV 120
DSAV AV +GA + +PG+ + GI+ + + I++ K E VAL A MT+ M G+
Sbjct: 257 DSAVAAVTHGADLAVPGIAKLHAGIKRGDLVAIMTLKDELVALGKAMMTSQEMLEKTKGI 316
Query: 121 VAKIKRVIMDRDTYPRKW 138
+++V M RD YP+ W
Sbjct: 317 AVDVEKVFMPRDWYPKLW 334
>pdb|2EY4|A Chain A, Crystal Structure Of A Cbf5-Nop10-Gar1 Complex
pdb|2EY4|B Chain B, Crystal Structure Of A Cbf5-Nop10-Gar1 Complex
Length = 333
Score = 101 bits (252), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 51/136 (37%), Positives = 80/136 (58%)
Query: 1 MIELRRNRSGIQSEEDGLVTLHDIKDAMYLYDQHKDESLLRRVIRPLEGLLVGHKRIILK 60
M ELRR RSG E++ L+TLHD+ D Y + + E R+ I+P+E + ++ +K
Sbjct: 197 MSELRRTRSGPFKEDETLITLHDLVDYYYFWKEDGIEEYFRKAIQPMEKAVEHLPKVWIK 256
Query: 61 DSAVNAVCYGAQIMLPGVLRYEDGIEMDEEIVIVSTKGEAVALALAQMTTSTMATCDHGV 120
DSAV AV +GA + +PG+ + GI+ + + I++ K E VAL A MT+ M G+
Sbjct: 257 DSAVAAVTHGADLAVPGIAKLHAGIKRGDLVAIMTLKDELVALGKAMMTSQEMLEKTKGI 316
Query: 121 VAKIKRVIMDRDTYPR 136
+++V M RD YP+
Sbjct: 317 AVDVEKVFMPRDWYPK 332
>pdb|3D79|A Chain A, Crystal Structure Of Hypothetical Protein Ph0734.1 From
Hyperthermophilic Archaea Pyrococcus Horikoshii Ot3
Length = 179
Score = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 40/71 (56%), Gaps = 1/71 (1%)
Query: 55 KRIILKDSAVNAVCYGAQIMLPGVLRYEDGIEMDEEIVIVSTK-GEAVALALAQMTTSTM 113
+R+++ + AV + GA +M PG++ ++GI+ + + +V K G +A+ +A M+ M
Sbjct: 95 RRVVVDEGAVPHILNGADVMAPGIVDADEGIKEGDFVFVVEEKYGRPLAIGIALMSGKVM 154
Query: 114 ATCDHGVVAKI 124
+ G K+
Sbjct: 155 KEKNRGKAVKV 165
>pdb|1R3E|A Chain A, Crystal Structure Of Trna Pseudouridine Synthase Trub And
Its Rna Complex: Rna-Protein Recognition Through A
Combination Of Rigid Docking And Induced Fit
Length = 309
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 52/94 (55%), Gaps = 3/94 (3%)
Query: 22 HDIKDAMYLYDQHKDESLLRRVIRPLEGLLVGHKRIILKDSAVNAVCYGAQIMLPGVLRY 81
H I++++ +++ +E + R+I PLE L R+++ + + G+QI L +L+
Sbjct: 199 HTIEESLNVFEAAPEE-IENRII-PLEKCLEWLPRVVVHQESTKMILNGSQIHLE-MLKE 255
Query: 82 EDGIEMDEEIVIVSTKGEAVALALAQMTTSTMAT 115
DG + E + + + +G +ALA A+ +S + T
Sbjct: 256 WDGFKKGEVVRVFNEEGRLLALAEAERNSSFLET 289
>pdb|1ZE1|A Chain A, Conformational Change Of Pseudouridine 55 Synthase Upon
Its Association With Rna Substrate
pdb|1ZE1|B Chain B, Conformational Change Of Pseudouridine 55 Synthase Upon
Its Association With Rna Substrate
pdb|1ZE1|C Chain C, Conformational Change Of Pseudouridine 55 Synthase Upon
Its Association With Rna Substrate
pdb|1ZE1|D Chain D, Conformational Change Of Pseudouridine 55 Synthase Upon
Its Association With Rna Substrate
Length = 309
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 52/94 (55%), Gaps = 3/94 (3%)
Query: 22 HDIKDAMYLYDQHKDESLLRRVIRPLEGLLVGHKRIILKDSAVNAVCYGAQIMLPGVLRY 81
H I++++ +++ +E + R+I PLE L R+++ + + G+QI L +L+
Sbjct: 199 HTIEESLNVFEAAPEE-IENRII-PLEKCLEWLPRVVVHQESTKMILNGSQIHLE-MLKE 255
Query: 82 EDGIEMDEEIVIVSTKGEAVALALAQMTTSTMAT 115
DG + E + + + +G +ALA A+ +S + T
Sbjct: 256 WDGFKKGEVVRVFNEEGRLLALAEAERNSSFLET 289
>pdb|2AB4|A Chain A, Dissecting The Roles Of A Strictly Conserved Tyrosine In
Substrate Recognition And Catalysis By Pseudouridine 55
Synthase
Length = 309
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 52/94 (55%), Gaps = 3/94 (3%)
Query: 22 HDIKDAMYLYDQHKDESLLRRVIRPLEGLLVGHKRIILKDSAVNAVCYGAQIMLPGVLRY 81
H I++++ +++ +E + R+I PLE L R+++ + + G+QI L +L+
Sbjct: 199 HTIEESLNVFEAAPEE-IENRII-PLEKCLEWLPRVVVHQESTKMILNGSQIHLE-MLKE 255
Query: 82 EDGIEMDEEIVIVSTKGEAVALALAQMTTSTMAT 115
DG + E + + + +G +ALA A+ +S + T
Sbjct: 256 WDGFKKGEVVRVFNEEGRLLALAEAERNSSFLET 289
>pdb|1ZE2|A Chain A, Conformational Change Of Pseudouridine 55 Synthase Upon
Its Association With Rna Substrate
pdb|1ZE2|B Chain B, Conformational Change Of Pseudouridine 55 Synthase Upon
Its Association With Rna Substrate
Length = 309
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 52/94 (55%), Gaps = 3/94 (3%)
Query: 22 HDIKDAMYLYDQHKDESLLRRVIRPLEGLLVGHKRIILKDSAVNAVCYGAQIMLPGVLRY 81
H I++++ +++ +E + R+I PLE L R+++ + + G+QI L +L+
Sbjct: 199 HTIEESLNVFEAAPEE-IENRII-PLEKCLEWLPRVVVHQESTKMILNGSQIHLE-MLKE 255
Query: 82 EDGIEMDEEIVIVSTKGEAVALALAQMTTSTMAT 115
DG + E + + + +G +ALA A+ +S + T
Sbjct: 256 WDGFKKGEVVRVFNEEGRLLALAEAERNSSFLET 289
>pdb|1Q7H|A Chain A, Structure Of A Conserved Pua Domain Protein From
Thermoplasma Acidophilum
Length = 153
Score = 32.7 bits (73), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 15/68 (22%), Positives = 32/68 (47%)
Query: 57 IILKDSAVNAVCYGAQIMLPGVLRYEDGIEMDEEIVIVSTKGEAVALALAQMTTSTMATC 116
+ + + A + G+ + PG++ +D I + I + S+KG +A+ A+ +
Sbjct: 73 VTVDEGAEPHILNGSDLFAPGIVSXDDSIRKGDXIFVKSSKGYFIAVGXAEXDAGEVXAT 132
Query: 117 DHGVVAKI 124
G A+I
Sbjct: 133 KRGKAARI 140
>pdb|4ADZ|A Chain A, Crystal Structure Of The Apo Form Of A Copper-Sensitive
Operon Regulator (Csor) Protein From Streptomyces
Lividans
pdb|4ADZ|B Chain B, Crystal Structure Of The Apo Form Of A Copper-Sensitive
Operon Regulator (Csor) Protein From Streptomyces
Lividans
Length = 136
Score = 27.3 bits (59), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 2/55 (3%)
Query: 7 NRSGIQSEEDGLVTLHDIKDAMYLYDQHKDESLLRRVIRPLEGLLVGHKRIILKD 61
N++ Q+E DG + D ++ Y + K E L R +R +EG + G +R++ +D
Sbjct: 23 NQTARQAEADGTDIVTDHDRGVHGYHKQKAEHLKR--LRRIEGQIRGLQRMVDED 75
>pdb|1S9R|A Chain A, Crystal Structure Of Arginine Deiminase Covalently Linked
With A Reaction Intermediate
pdb|1S9R|B Chain B, Crystal Structure Of Arginine Deiminase Covalently Linked
With A Reaction Intermediate
Length = 410
Score = 26.9 bits (58), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 19/86 (22%), Positives = 43/86 (50%), Gaps = 3/86 (3%)
Query: 11 IQSEEDGLVTLHDIKDAMY-LYDQHKDESLLRRVIRPLEGLLVGHKRIILKD--SAVNAV 67
+++ + +V L D+ Y L Q + L+ + E +L ++++++ A
Sbjct: 65 LKANDINVVELIDLVAETYDLASQEAKDKLIEEFLEDSEPVLSEEHKVVVRNFLKAKKTS 124
Query: 68 CYGAQIMLPGVLRYEDGIEMDEEIVI 93
+IM+ G+ +Y+ GIE D E+++
Sbjct: 125 RELVEIMMAGITKYDLGIEADHELIV 150
>pdb|1LXY|A Chain A, Crystal Structure Of Arginine Deiminase Covalently Linked
With L-Citrulline
pdb|1LXY|B Chain B, Crystal Structure Of Arginine Deiminase Covalently Linked
With L-Citrulline
Length = 409
Score = 26.9 bits (58), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 19/86 (22%), Positives = 43/86 (50%), Gaps = 3/86 (3%)
Query: 11 IQSEEDGLVTLHDIKDAMY-LYDQHKDESLLRRVIRPLEGLLVGHKRIILKD--SAVNAV 67
+++ + +V L D+ Y L Q + L+ + E +L ++++++ A
Sbjct: 64 LKANDINVVELIDLVAETYDLASQEAKDKLIEEFLEDSEPVLSEEHKVVVRNFLKAKKTS 123
Query: 68 CYGAQIMLPGVLRYEDGIEMDEEIVI 93
+IM+ G+ +Y+ GIE D E+++
Sbjct: 124 RELVEIMMAGITKYDLGIEADHELIV 149
>pdb|3OX6|A Chain A, Crystal Structure Of The Calcium Sensor Calcium-Binding
Protein 1 (Cabp1)
pdb|3OX6|B Chain B, Crystal Structure Of The Calcium Sensor Calcium-Binding
Protein 1 (Cabp1)
pdb|3OX6|C Chain C, Crystal Structure Of The Calcium Sensor Calcium-Binding
Protein 1 (Cabp1)
pdb|3OX6|D Chain D, Crystal Structure Of The Calcium Sensor Calcium-Binding
Protein 1 (Cabp1)
pdb|3OX6|E Chain E, Crystal Structure Of The Calcium Sensor Calcium-Binding
Protein 1 (Cabp1)
pdb|3OX6|F Chain F, Crystal Structure Of The Calcium Sensor Calcium-Binding
Protein 1 (Cabp1)
Length = 153
Score = 26.6 bits (57), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 6/55 (10%)
Query: 18 LVTLHDIKDAMYLYDQHKD----ESLLRRVIRPLEGLLVGHKRI--ILKDSAVNA 66
++ + +++DA +D + D S LR +R L G VGH+ I I++D +N
Sbjct: 84 MIGVKELRDAFREFDTNGDGEISTSELREAMRALLGHQVGHRDIEEIIRDVDLNG 138
>pdb|3OX5|A Chain A, Crystal Structure Of The Calcium Sensor Calcium-Binding
Protein 1 (Cabp1)
pdb|3OX5|B Chain B, Crystal Structure Of The Calcium Sensor Calcium-Binding
Protein 1 (Cabp1)
pdb|3OX5|C Chain C, Crystal Structure Of The Calcium Sensor Calcium-Binding
Protein 1 (Cabp1)
pdb|3OX5|D Chain D, Crystal Structure Of The Calcium Sensor Calcium-Binding
Protein 1 (Cabp1)
pdb|3OX5|E Chain E, Crystal Structure Of The Calcium Sensor Calcium-Binding
Protein 1 (Cabp1)
pdb|3OX5|F Chain F, Crystal Structure Of The Calcium Sensor Calcium-Binding
Protein 1 (Cabp1)
Length = 153
Score = 26.6 bits (57), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 6/55 (10%)
Query: 18 LVTLHDIKDAMYLYDQHKD----ESLLRRVIRPLEGLLVGHKRI--ILKDSAVNA 66
++ + +++DA +D + D S LR +R L G VGH+ I I++D +N
Sbjct: 84 MIGVKELRDAFREFDTNGDGEISTSELREAMRKLLGHQVGHRDIEEIIRDVDLNG 138
>pdb|2LAN|A Chain A, Nmr Structure Of Ca2+-Bound Cabp1 N-Domain With Rdc
pdb|2LAP|A Chain A, Nmr Structure Of Ca2+-Bound Cabp1 C-Domain With Rdc
Length = 167
Score = 26.2 bits (56), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 6/55 (10%)
Query: 18 LVTLHDIKDAMYLYDQHKD----ESLLRRVIRPLEGLLVGHKRI--ILKDSAVNA 66
++ + +++DA +D + D S LR +R L G VGH+ I I++D +N
Sbjct: 98 MIGVKELRDAFREFDTNGDGEISTSELREAMRKLLGHQVGHRDIEEIIRDVDLNG 152
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 0.137 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,927,019
Number of Sequences: 62578
Number of extensions: 133806
Number of successful extensions: 342
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 323
Number of HSP's gapped (non-prelim): 27
length of query: 144
length of database: 14,973,337
effective HSP length: 89
effective length of query: 55
effective length of database: 9,403,895
effective search space: 517214225
effective search space used: 517214225
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: 46 (22.3 bits)