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= 030201
(181 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3R90|A Chain A, Crystal Structure Of Malignant T Cell-Amplified Sequence 1
Protein
pdb|3R90|B Chain B, Crystal Structure Of Malignant T Cell-Amplified Sequence 1
Protein
pdb|3R90|C Chain C, Crystal Structure Of Malignant T Cell-Amplified Sequence 1
Protein
pdb|3R90|D Chain D, Crystal Structure Of Malignant T Cell-Amplified Sequence 1
Protein
pdb|3R90|E Chain E, Crystal Structure Of Malignant T Cell-Amplified Sequence 1
Protein
pdb|3R90|F Chain F, Crystal Structure Of Malignant T Cell-Amplified Sequence 1
Protein
pdb|3R90|G Chain G, Crystal Structure Of Malignant T Cell-Amplified Sequence 1
Protein
pdb|3R90|H Chain H, Crystal Structure Of Malignant T Cell-Amplified Sequence 1
Protein
pdb|3R90|I Chain I, Crystal Structure Of Malignant T Cell-Amplified Sequence 1
Protein
pdb|3R90|J Chain J, Crystal Structure Of Malignant T Cell-Amplified Sequence 1
Protein
pdb|3R90|K Chain K, Crystal Structure Of Malignant T Cell-Amplified Sequence 1
Protein
pdb|3R90|L Chain L, Crystal Structure Of Malignant T Cell-Amplified Sequence 1
Protein
Length = 188
Score = 183 bits (465), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 97/179 (54%), Positives = 126/179 (70%), Gaps = 2/179 (1%)
Query: 1 MFKKFSAEE-VSAQNQVKASVQRKIRQSIADEYPGLEPVLDDLLPKKSPLIVAKCQNHXX 59
MFKKF +E VS Q+K SV + I+ + +++PG+EP L+ ++PKK P+ + +C H
Sbjct: 1 MFKKFDEKENVSNCIQLKTSVIKGIKNQLIEQFPGIEPWLNQIMPKKDPVKIVRCHEHIE 60
Query: 60 XXXXXXXPLFFNIRDGPYMPTLRLLHQYPNIMKKLQVDRGAIKFVLSGANIMCPGLTSPG 119
LFF R+GP+ PTLRLLH+YP I+ QVD+GAIKFVLSGANIMCPGLTSPG
Sbjct: 61 ILTVNGELLFFRQREGPFYPTLRLLHKYPFILPHQQVDKGAIKFVLSGANIMCPGLTSPG 120
Query: 120 GSLDEEVGAETPVAIMAEGKQHALAIGFTKMSAKDIKAINKGIGVDNMHYLNDGLWKME 178
L +T VAIMA G HAL +G KMSA+DI+ +NKGIG++N+HYLNDGLW M+
Sbjct: 121 AKL-YPAAVDTIVAIMAAGAAHALCVGVMKMSAEDIEKVNKGIGIENIHYLNDGLWHMK 178
>pdb|3D79|A Chain A, Crystal Structure Of Hypothetical Protein Ph0734.1 From
Hyperthermophilic Archaea Pyrococcus Horikoshii Ot3
Length = 179
Score = 55.8 bits (133), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 40/150 (26%), Positives = 69/150 (46%), Gaps = 15/150 (10%)
Query: 36 EPVLDDLLPKKSPLIVAKCQNHXXXXXXXXXPLFFNIRDGPYMPTLRL--------LHQY 87
E + +L KK + VA+ P+F +D + + L L ++
Sbjct: 34 EEIARKMLNKKDEVKVAEFDKTTEIILVNDKPMFIRRKDLIFPLVIALYNLSDEEDLRKW 93
Query: 88 PNIMKKLQVDRGAIKFVLSGANIMCPGLTSPGGSLDEEVGAETPVAIMAEGKQHALAIGF 147
P +++ VD GA+ +L+GA++M PG+ DE + V ++ E LAIG
Sbjct: 94 P---RRVVVDEGAVPHILNGADVMAPGIVDA----DEGIKEGDFVFVVEEKYGRPLAIGI 146
Query: 148 TKMSAKDIKAINKGIGVDNMHYLNDGLWKM 177
MS K +K N+G V +H+ D +W++
Sbjct: 147 ALMSGKVMKEKNRGKAVKVIHHARDKIWEV 176
>pdb|2CX0|A Chain A, Crystal Structure Of A Pua Domain (ape0525) From The
Aeropyrum Pernix K1 (sulfate Complex)
pdb|2CX1|A Chain A, Crystal Structure Of A Pua Domain (ape0525) From The
Aeropyrum Pernix K1 (tartrate Complex)
Length = 187
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 10/117 (8%)
Query: 67 PLFFNIRDGPYMPTLRLLHQYPNIMKK--LQVDRGAIKFVLSGANIMCPGLTSPGGSLDE 124
P F DG PTL+ L + K + VD+GA + GA++ PG+ GS
Sbjct: 66 PCLFEWSDGRIYPTLQCLKAFGVDWLKGVVLVDKGAAIALAKGAHLXIPGVVGVEGSFTR 125
Query: 125 EVGAETPVAIMAEGKQHALAIGFTKMSAKDIKAI----NKGIGVDNMHYLNDGLWKM 177
VA + + + +G ++ + ++ + +G V +H L D LW++
Sbjct: 126 ----GDVVAALYHETRTPVXVGVAEVDSSALEKLYREKARGRAVRRVHRLGDALWEL 178
>pdb|1ZS7|A Chain A, The Structure Of Gene Product Ape0525 From Aeropyrum
Pernix
Length = 190
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 10/117 (8%)
Query: 67 PLFFNIRDGPYMPTLRLLHQYPNIMKK--LQVDRGAIKFVLSGANIMCPGLTSPGGSLDE 124
P F DG PTL+ L + K + VD+GA + GA++ PG+ GS
Sbjct: 67 PCLFEWSDGRIYPTLQCLKAFGVDWLKGVVLVDKGAAIALAKGAHLXIPGVVGVEGSFTR 126
Query: 125 EVGAETPVAIMAEGKQHALAIGFTKMSAKDIKAI----NKGIGVDNMHYLNDGLWKM 177
VA + + + +G ++ + ++ + +G V +H L D LW++
Sbjct: 127 ----GDVVAALYHETRTPVXVGVAEVDSSALEKLYREKARGRAVRRVHRLGDALWEL 179
>pdb|1Q7H|A Chain A, Structure Of A Conserved Pua Domain Protein From
Thermoplasma Acidophilum
Length = 153
Score = 35.0 bits (79), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 23/100 (23%), Positives = 46/100 (46%), Gaps = 5/100 (5%)
Query: 75 GPYMPTLRLLHQYPNIMKKLQVDRGAIKFVLSGANIMCPGLTSPGGSLDEEVGAETPVAI 134
G +P++ LL+ + VD GA +L+G+++ PG+ S S+ +
Sbjct: 54 GDLIPSVYLLNYRNPSRNIVTVDEGAEPHILNGSDLFAPGIVSXDDSI-----RKGDXIF 108
Query: 135 MAEGKQHALAIGFTKMSAKDIKAINKGIGVDNMHYLNDGL 174
+ K + +A+G + A ++ A +G +H+ D L
Sbjct: 109 VKSSKGYFIAVGXAEXDAGEVXATKRGKAARIIHFPGDEL 148
>pdb|2APO|A Chain A, Crystal Structure Of The Methanococcus Jannaschii Cbf5
Nop10 Complex
Length = 357
Score = 31.6 bits (70), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 46/96 (47%), Gaps = 14/96 (14%)
Query: 91 MKKLQVDRGAIKFVLSGANIMCPGLT--SPGGSLDEEVGAETPVAIMAEGKQHALAIGFT 148
+KK+ V A+ + GA++ G+ S G E V ET K A+A+G
Sbjct: 269 LKKVVVKDSAVDAICHGADVYVRGIAKLSKGIGKGETVLVETL-------KGEAVAVGKA 321
Query: 149 KMSAKDIKAINKGIGVD-NMHYLNDG----LWKMER 179
M+ K+I +KG+ VD Y++ G +WK ++
Sbjct: 322 LMNTKEILNADKGVAVDVERVYMDRGTYPRMWKRKK 357
>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 = 31.2 bits (69), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 37/75 (49%), Gaps = 5/75 (6%)
Query: 91 MKKLQVDRGAIKFVLSGANIMCPGLTSPGGSLDEEVGAETPVAIMAEGKQHALAIGFTKM 150
+ K+ + A+ V GAN+ PG+ L+ + VAIM K +A+G M
Sbjct: 250 LPKIWIKDSAVAAVAHGANLTVPGIVK----LNAGIKKGDLVAIMTL-KDELVALGKAMM 304
Query: 151 SAKDIKAINKGIGVD 165
S +++ +KGI VD
Sbjct: 305 STQEMIERSKGIAVD 319
>pdb|4GUA|A Chain A, Alphavirus P23pro-Zbd
pdb|4GUA|B Chain B, Alphavirus P23pro-Zbd
pdb|4GUA|C Chain C, Alphavirus P23pro-Zbd
Length = 670
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 18/39 (46%)
Query: 131 PVAIMAEGKQHALAIGFTKMSAKDIKAINKGIGVDNMHY 169
P+ I K + LA GF + D+ IN G N H+
Sbjct: 200 PIGIAGADKNYNLAFGFPPQARYDLVFINIGTKYRNHHF 238
>pdb|1YXY|A Chain A, Crystal Structure Of Putative N-Acetylmannosamine-6-P
Epimerase From Streptococcus Pyogenes (Apc29713)
Structural Genomics, Mcsg
pdb|1YXY|B Chain B, Crystal Structure Of Putative N-Acetylmannosamine-6-P
Epimerase From Streptococcus Pyogenes (Apc29713)
Structural Genomics, Mcsg
Length = 234
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 107 GANIMCPGLTSPGGSLDEEVGAETPVAIMAEGKQHALAIGFTKMSAKDIKAIN 159
G + C L PG L E G P +MA+ Q A A+G S +DIK I
Sbjct: 17 GIIVSCQAL--PGEPLYSETGGIMP--LMAKAAQEAGAVGIRANSVRDIKEIQ 65
>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 = 27.3 bits (59), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%), Gaps = 5/75 (6%)
Query: 91 MKKLQVDRGAIKFVLSGANIMCPGLTSPGGSLDEEVGAETPVAIMAEGKQHALAIGFTKM 150
+ K+ + A+ V GA++ PG+ L + VAIM K +A+G M
Sbjct: 250 LPKVWIKDSAVAAVTHGADLAVPGI----AKLHAGIKRGDLVAIMTL-KDELVALGKAMM 304
Query: 151 SAKDIKAINKGIGVD 165
+++++ KGI VD
Sbjct: 305 TSQEMLEKTKGIAVD 319
>pdb|3MQK|A Chain A, Cbf5-Nop10-Gar1 Complex Binding With 17mer Rna Containing
Aca Trinucleotide
Length = 328
Score = 27.3 bits (59), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%), Gaps = 5/75 (6%)
Query: 91 MKKLQVDRGAIKFVLSGANIMCPGLTSPGGSLDEEVGAETPVAIMAEGKQHALAIGFTKM 150
+ K+ + A+ V GA++ PG+ L + VAIM K +A+G M
Sbjct: 243 LPKVWIKDSAVAAVTHGADLAVPGI----AKLHAGIKRGDLVAIMTL-KDELVALGKAMM 297
Query: 151 SAKDIKAINKGIGVD 165
+++++ KGI VD
Sbjct: 298 TSQEMLEKTKGIAVD 312
>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 = 27.3 bits (59), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%), Gaps = 5/75 (6%)
Query: 91 MKKLQVDRGAIKFVLSGANIMCPGLTSPGGSLDEEVGAETPVAIMAEGKQHALAIGFTKM 150
+ K+ + A+ V GA++ PG+ L + VAIM K +A+G M
Sbjct: 250 LPKVWIKDSAVAAVTHGADLAVPGI----AKLHAGIKRGDLVAIMTL-KDELVALGKAMM 304
Query: 151 SAKDIKAINKGIGVD 165
+++++ KGI VD
Sbjct: 305 TSQEMLEKTKGIAVD 319
>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 = 27.3 bits (59), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%), Gaps = 5/75 (6%)
Query: 91 MKKLQVDRGAIKFVLSGANIMCPGLTSPGGSLDEEVGAETPVAIMAEGKQHALAIGFTKM 150
+ K+ + A+ V GA++ PG+ L + VAIM K +A+G M
Sbjct: 243 LPKVWIKDSAVAAVTHGADLAVPGI----AKLHAGIKRGDLVAIMTL-KDELVALGKAMM 297
Query: 151 SAKDIKAINKGIGVD 165
+++++ KGI VD
Sbjct: 298 TSQEMLEKTKGIAVD 312
>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 = 27.3 bits (59), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%), Gaps = 5/75 (6%)
Query: 91 MKKLQVDRGAIKFVLSGANIMCPGLTSPGGSLDEEVGAETPVAIMAEGKQHALAIGFTKM 150
+ K+ + A+ V GA++ PG+ L + VAIM K +A+G M
Sbjct: 250 LPKVWIKDSAVAAVTHGADLAVPGI----AKLHAGIKRGDLVAIMTL-KDELVALGKAMM 304
Query: 151 SAKDIKAINKGIGVD 165
+++++ KGI VD
Sbjct: 305 TSQEMLEKTKGIAVD 319
>pdb|2RFK|A Chain A, Substrate Rna Positioning In The Archaeal HACA
Ribonucleoprotein Complex
Length = 334
Score = 27.3 bits (59), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%), Gaps = 5/75 (6%)
Query: 91 MKKLQVDRGAIKFVLSGANIMCPGLTSPGGSLDEEVGAETPVAIMAEGKQHALAIGFTKM 150
+ K+ + A+ V GA++ PG+ L + VAIM K +A+G M
Sbjct: 246 LPKVWIKDSAVAAVTHGADLAVPGI----AKLHAGIKRGDLVAIMTL-KDELVALGKAMM 300
Query: 151 SAKDIKAINKGIGVD 165
+++++ KGI VD
Sbjct: 301 TSQEMLEKTKGIAVD 315
>pdb|3NMU|A Chain A, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NMU|B Chain B, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NVI|A Chain A, Structure Of N-Terminal Truncated Nop5658 BOUND WITH L7AE
AND BOX CD Rna
pdb|3NVI|C Chain C, Structure Of N-Terminal Truncated Nop5658 BOUND WITH L7AE
AND BOX CD Rna
Length = 379
Score = 26.9 bits (58), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 21/40 (52%)
Query: 68 LFFNIRDGPYMPTLRLLHQYPNIMKKLQVDRGAIKFVLSG 107
LF ++R G P +++QYP I + RG I L+G
Sbjct: 305 LFRHLRTGAKPPKHGVIYQYPAINRSPWWQRGKIARALAG 344
>pdb|2NNW|A Chain A, Alternative Conformations Of Nop56/58-fibrillarin Complex
And Implication For Induced-fit Assenly Of Box C/d Rnps
pdb|2NNW|C Chain C, Alternative Conformations Of Nop56/58-fibrillarin Complex
And Implication For Induced-fit Assenly Of Box C/d Rnps
Length = 376
Score = 26.9 bits (58), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 21/40 (52%)
Query: 68 LFFNIRDGPYMPTLRLLHQYPNIMKKLQVDRGAIKFVLSG 107
LF ++R G P +++QYP I + RG I L+G
Sbjct: 305 LFRHLRTGAKPPKHGVIYQYPAINRSPWWQRGKIARALAG 344
>pdb|3NVK|A Chain A, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
pdb|3NVK|F Chain F, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
Length = 376
Score = 26.6 bits (57), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 21/40 (52%)
Query: 68 LFFNIRDGPYMPTLRLLHQYPNIMKKLQVDRGAIKFVLSG 107
LF ++R G P +++QYP I + RG I L+G
Sbjct: 305 LFRHLRTGAKPPKHGVIYQYPAINRSPWWQRGKIARALAG 344
>pdb|1N5D|A Chain A, Crystal Structure Of Porcine Testicular Carbonyl Reductase
20beta-Hydroxysteroid Dehydrogenase
Length = 288
Score = 26.6 bits (57), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 22/46 (47%), Gaps = 8/46 (17%)
Query: 92 KKLQVDRGAIKFVLSGANIMCPG-----LTSPGGSLDEEVGAETPV 132
+KL+ R K +L N CPG + P EVGAETPV
Sbjct: 209 RKLREQRAGDKILL---NACCPGWVRTDMGGPKAPKSPEVGAETPV 251
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
0.318 0.136 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,043,939
Number of Sequences: 62578
Number of extensions: 185310
Number of successful extensions: 278
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 263
Number of HSP's gapped (non-prelim): 30
length of query: 181
length of database: 14,973,337
effective HSP length: 93
effective length of query: 88
effective length of database: 9,153,583
effective search space: 805515304
effective search space used: 805515304
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)