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= 000208
(1857 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2HA8|A Chain A, Methyltransferase Domain Of Human Tar (Hiv-1) Rna Binding
Protein 1
pdb|2HA8|B Chain B, Methyltransferase Domain Of Human Tar (Hiv-1) Rna Binding
Protein 1
Length = 184
Score = 188 bits (478), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 87/160 (54%), Positives = 121/160 (75%), Gaps = 5/160 (3%)
Query: 1701 RASR-----QQFVLVASLIDRIPNLAGLARTCEVFKASGLAIADANILHDKQFQLISVTA 1755
RA+R + ++VASLID+ NL GL RTCEVF AS L + + DKQFQ +SV+A
Sbjct: 16 RAARLGKSISRLIVVASLIDKPTNLGGLCRTCEVFGASVLVVGSLQCISDKQFQHLSVSA 75
Query: 1756 EKWVPIVEVPVNSIKHFLERKKHEGFSVLGLEQTANSIPLDQYMFPKKTVLVLGREKEGI 1815
E+W+P+VEV + +L++KK EG++++G+EQTA S+ L QY FP+K++L+LG E+EGI
Sbjct: 76 EQWLPLVEVKPPQLIDYLQQKKTEGYTIIGVEQTAKSLDLTQYCFPEKSLLLLGNEREGI 135
Query: 1816 PVDIIHMLDACIEIPQLGVVRSLNVHVSGAIALWEYTRQQ 1855
P ++I LD C+EIPQ G++RSLNVHVSGA+ +WEYTRQQ
Sbjct: 136 PANLIQQLDVCVEIPQQGIIRSLNVHVSGALLIWEYTRQQ 175
>pdb|1ZJR|A Chain A, Crystal Structure Of A. Aeolicus TrmhSPOU TRNA MODIFYING
ENZYME
Length = 211
Score = 68.9 bits (167), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 51/170 (30%), Positives = 84/170 (49%), Gaps = 7/170 (4%)
Query: 1689 VLQARSLAMETIRASRQQFVLV-ASLIDRIPNLAGLARTCEVFKASGLAIADANILHDKQ 1747
VL+ R + + RQ+ ++V A + N + + RTC+ L A K
Sbjct: 7 VLEKRLKRLREVLEKRQKDLIVFADNVKNEHNFSAIVRTCDAVGVLYLYYYHAEGKKAKI 66
Query: 1748 FQLISVTAEKWVPI--VEVPVNSIKHFLERKKHEGFSVLGLEQTANSIPLDQYMFPKKTV 1805
+ I+ + KWV I V+ PV + F K+ GF ++ + S+ + + K TV
Sbjct: 67 NEGITQGSHKWVFIEKVDNPVQKLLEF----KNRGFQIVATWLSKESVNFREVDYTKPTV 122
Query: 1806 LVLGREKEGIPVDIIHMLDACIEIPQLGVVRSLNVHVSGAIALWEYTRQQ 1855
LV+G E +G+ +I+ + D I IP G+ +SLNV V+ I L+E RQ+
Sbjct: 123 LVVGNELQGVSPEIVEIADKKIVIPMYGMAQSLNVSVATGIILYEAQRQR 172
>pdb|1V2X|A Chain A, Trmh
Length = 194
Score = 58.2 bits (139), Expect = 4e-08, Method: Composition-based stats.
Identities = 41/142 (28%), Positives = 72/142 (50%), Gaps = 13/142 (9%)
Query: 1719 NLAGLARTCEVFKASGLAIADANILHDK----QFQLISVTAEKWVPI-VEVPVNSIKHFL 1773
NL+ + RTC+ + + +A+ ++ F S + KWV + V ++ FL
Sbjct: 35 NLSAILRTCD-----AVGVLEAHAVNPTGGVPTFNETSGGSHKWVYLRVHPDLHEAFRFL 89
Query: 1774 ERKKHEGFSVLGLEQTANSIPLDQYMFPKKTVLVLGREKEGIPVDIIHMLDACIEIPQLG 1833
K GF+V ++ + + K T ++ G EK G+ + + + D I+IP LG
Sbjct: 90 ---KERGFTVYATALREDARDFREVDYTKPTAVLFGAEKWGVSEEALALADGAIKIPMLG 146
Query: 1834 VVRSLNVHVSGAIALWEYTRQQ 1855
+V+SLNV V+ A+ L+E RQ+
Sbjct: 147 MVQSLNVSVAAAVILFEAQRQR 168
>pdb|3GYQ|A Chain A, Structure Of The Thiostrepton-Resistance Methyltransferase
S-Adenosyl-L-Methionine Complex
pdb|3GYQ|B Chain B, Structure Of The Thiostrepton-Resistance Methyltransferase
S-Adenosyl-L-Methionine Complex
Length = 272
Score = 44.7 bits (104), Expect = 4e-04, Method: Composition-based stats.
Identities = 48/179 (26%), Positives = 79/179 (44%), Gaps = 8/179 (4%)
Query: 1675 QLLEIEKEDELFDQVLQARSLAMETIRASRQQFVLVASLIDRIPNLAGLARTCEVFKASG 1734
QL + E++ + F R I ASR+ V+V + + N+ + RT ASG
Sbjct: 89 QLFKGERKAKTFGIARVPRPARFGDI-ASRRGDVVVLDGVKIVGNIGAIVRTSLALGASG 147
Query: 1735 LAIADANI--LHDKQFQLISVTAEKWVPIVEVPVNSIKHFLERKKHEGFSVLGLEQTANS 1792
+ + D++I + D++ Q S +P+V F+ + G ++ L+ +
Sbjct: 148 IILVDSDITSIADRRLQRASRGYVFSLPVVLSGREEAIAFI---RDSGMQLMTLKADGDI 204
Query: 1793 IPLDQYMFPKKTVLVLGREKEGIPVDII-HMLDACIEIPQLGVVRSLNVHVSGAIALWE 1850
+ P + L+ G EK G P D+ A + IP + SLNV VS IAL E
Sbjct: 205 SVKELGDNPDRLALLFGSEKGG-PSDLFEEASSASVSIPMMSQTESLNVSVSLGIALHE 262
>pdb|1GZ0|A Chain A, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
pdb|1GZ0|B Chain B, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
pdb|1GZ0|C Chain C, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
pdb|1GZ0|D Chain D, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
pdb|1GZ0|E Chain E, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
pdb|1GZ0|F Chain F, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
pdb|1GZ0|G Chain G, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
pdb|1GZ0|H Chain H, 23s Ribosomal Rna G2251 2'o-Methyltransferase Rlmb
Length = 253
Score = 38.5 bits (88), Expect = 0.040, Method: Composition-based stats.
Identities = 38/152 (25%), Positives = 63/152 (41%), Gaps = 4/152 (2%)
Query: 1705 QQFVLVASLIDRIPNLAGLARTCEVFKASGLAI-ADANILHDKQFQLISVTAEKWVPIVE 1763
Q F+L+ + NL R+ + + + D + + + ++ A + VP++
Sbjct: 104 QPFLLILDGVTDPHNLGACLRSADAAGVHAVIVPKDRSAQLNATAKKVACGAAESVPLIR 163
Query: 1764 VPVNSIKHFLERKKHEGFSVLGLEQTANSIPLDQYMFPKKTVLVLGREKEGIPVDIIHML 1823
V ++ + E ++G A+ L Q + LV G E EG
Sbjct: 164 V--TNLARTXRXLQEENIWIVGTAGEADHT-LYQSKXTGRLALVXGAEGEGXRRLTREHC 220
Query: 1824 DACIEIPQLGVVRSLNVHVSGAIALWEYTRQQ 1855
D I IP G V SLNV V+ I L+E RQ+
Sbjct: 221 DELISIPXAGSVSSLNVSVATGICLFEAVRQR 252
>pdb|3NK6|A Chain A, Structure Of The Nosiheptide-Resistance Methyltransferase
pdb|3NK6|B Chain B, Structure Of The Nosiheptide-Resistance Methyltransferase
pdb|3NK7|A Chain A, Structure Of The Nosiheptide-Resistance Methyltransferase
S-Adenosyl- L-Methionine Complex
pdb|3NK7|B Chain B, Structure Of The Nosiheptide-Resistance Methyltransferase
S-Adenosyl- L-Methionine Complex
Length = 277
Score = 37.7 bits (86), Expect = 0.065, Method: Composition-based stats.
Identities = 45/179 (25%), Positives = 76/179 (42%), Gaps = 8/179 (4%)
Query: 1675 QLLEIEKEDELFDQVLQARSLAMETIRASRQQFVLVASLIDRIPNLAGLARTCEVFKASG 1734
QL + E++ ++F R + I A R V+V + + N+ + RT A+G
Sbjct: 89 QLFKAERKAKVFGIARVPRPARLADI-AERGGDVVVLDGVKIVGNIGAIVRTSLALGAAG 147
Query: 1735 LAIADANI--LHDKQFQLISVTAEKWVPIVEVPVNSIKHFLERKKHEGFSVLGLEQTANS 1792
+ + D+++ + D++ S +P+V FL + +++ L+ +
Sbjct: 148 IVLVDSDLATIADRRLLRASRGYVFSLPVVLADREEAVSFL---RDNDIALMVLDTDGDL 204
Query: 1793 IPLDQYMFPKKTVLVLGREKEGIPVDIIHMLDA-CIEIPQLGVVRSLNVHVSGAIALWE 1850
D + LV G EK G P + A + IP L SLNV VS IAL E
Sbjct: 205 GVKDLGDRADRMALVFGSEKGG-PSGLFQEASAGTVSIPMLSSTESLNVSVSVGIALHE 262
>pdb|1IPA|A Chain A, Crystal Structure Of Rna 2'-O Ribose Methyltransferase
Length = 274
Score = 36.6 bits (83), Expect = 0.12, Method: Composition-based stats.
Identities = 36/154 (23%), Positives = 63/154 (40%), Gaps = 4/154 (2%)
Query: 1697 METIRASRQQFVLVASLIDRIPNLAGLARTCEVFKASGLAIADANILHDKQFQLISVTAE 1756
+E R S +LVA +++ NL + R+ + A + +A L+ Q + +
Sbjct: 107 LEEYRPSPDALILVAVGLEKPGNLGAVLRSADAAGAEAVLVAGGVDLYSPQ---VIRNST 163
Query: 1757 KWVPIVEVPVNSIKHFLERKKHEGFSVLGLEQTANSIPLDQYMFPKKTVLVLGREKEGIP 1816
V + S L+ K ++ A ++ + + P + V G E EG+
Sbjct: 164 GVVFSLRTLAASESEVLDWIKQHNLPLVATTPHAEALYWEANLRPPVAIAV-GPEHEGLR 222
Query: 1817 VDIIHMLDACIEIPQLGVVRSLNVHVSGAIALWE 1850
+ + IP G SLNV VS A+ L+E
Sbjct: 223 AAWLEAAQTQVRIPMQGQADSLNVSVSAALLLYE 256
>pdb|3T15|A Chain A, Structure Of Green-Type Rubisco Activase From Tobacco
pdb|3ZW6|A Chain A, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|B Chain B, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|C Chain C, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|D Chain D, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|E Chain E, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco.
pdb|3ZW6|F Chain F, Model Of Hexameric Aaa Domain Arrangement Of Green-Type
Rubisco Activase From Tobacco
Length = 293
Score = 36.6 bits (83), Expect = 0.15, Method: Composition-based stats.
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 5/59 (8%)
Query: 703 WFPVCEKVLEAAASLMCTFEVPLEILLHFISALPREFTDYGGSLRAR-----VREWLSG 756
W P E + + T VP E ++ + P + D+ G+LRAR VR+W+SG
Sbjct: 183 WAPTREDRIGVCTGIFRTDNVPAEDVVKIVDNFPGQSIDFFGALRARVYDDEVRKWVSG 241
>pdb|1X7P|A Chain A, Crystal Structure Of The Spou Methyltransferase Avirb From
Streptomyces Viridochromogenes In Complex With The
Cofactor Adomet
pdb|1X7P|B Chain B, Crystal Structure Of The Spou Methyltransferase Avirb From
Streptomyces Viridochromogenes In Complex With The
Cofactor Adomet
Length = 287
Score = 33.1 bits (74), Expect = 1.4, Method: Composition-based stats.
Identities = 44/189 (23%), Positives = 87/189 (46%), Gaps = 12/189 (6%)
Query: 1676 LLEIEKEDELFDQVLQARSLAMETIR--ASRQQFVLVASLIDRIP---NLAGLARTCEVF 1730
L+E+ +++E +V+ + + + R+ F+ V L DR N+ + R+ +
Sbjct: 93 LMELGEKNEAPPEVVAVVEMPADDLDRIPVREDFLGV--LFDRPTSPGNIGSIIRSADAL 150
Query: 1731 KASGLAIA-DANILHDKQFQLISVTAEKWVPIVEVPV-NSIKHFLERKKHEGFSVL--GL 1786
A GL +A A ++D + S + +P V VP + ++E ++ G ++ G
Sbjct: 151 GAHGLIVAGHAADVYDPKSVRSSTGSLFSLPAVRVPSPGEVMDWVEARRAAGTPIVLVGT 210
Query: 1787 EQTANSIPLDQYMFPKKTVLVLGREKEGIPVDIIHMLDACIEIPQLGVVRSLNVHVSGAI 1846
++ + D + F + T+L++G E G+ + D + IP G SLN +
Sbjct: 211 DEHGDCDVFD-FDFTQPTLLLIGNETAGLSNAWRTLCDYTVSIPMAGSASSLNAANAATA 269
Query: 1847 ALWEYTRQQ 1855
L+E RQ+
Sbjct: 270 ILYEAVRQR 278
>pdb|1X7O|A Chain A, Crystal Structure Of The Spou Methyltransferase Avirb From
Streptomyces Viridochromogenes
pdb|1X7O|B Chain B, Crystal Structure Of The Spou Methyltransferase Avirb From
Streptomyces Viridochromogenes
Length = 287
Score = 33.1 bits (74), Expect = 1.5, Method: Composition-based stats.
Identities = 40/159 (25%), Positives = 73/159 (45%), Gaps = 10/159 (6%)
Query: 1704 RQQFVLVASLIDRIP---NLAGLARTCEVFKASGLAIA-DANILHDKQFQLISVTAEKWV 1759
R+ F+ V L DR N+ + R+ + A GL +A A ++D + S + +
Sbjct: 123 REDFLGV--LFDRPTSPGNIGSIIRSADALGAHGLIVAGHAADVYDPKSVRSSTGSLFSL 180
Query: 1760 PIVEVPV-NSIKHFLERKKHEGFSVL--GLEQTANSIPLDQYMFPKKTVLVLGREKEGIP 1816
P V VP + ++E ++ G ++ G ++ + D + F + T+L++G E G+
Sbjct: 181 PAVRVPSPGEVXDWVEARRAAGTPIVLVGTDEHGDCDVFD-FDFTQPTLLLIGNETAGLS 239
Query: 1817 VDIIHMLDACIEIPQLGVVRSLNVHVSGAIALWEYTRQQ 1855
+ D + IP G SLN + L+E RQ+
Sbjct: 240 NAWRTLCDYTVSIPXAGSASSLNAANAATAILYEAVRQR 278
>pdb|1R1K|A Chain A, Crystal Structure Of The Ligand-Binding Domains Of The
Heterodimer EcrUSP BOUND TO PONASTERONE A
pdb|1R20|A Chain A, Crystal Structure Of The Ligand-Binding Domains Of The
Heterodimer EcrUSP BOUND TO THE SYNTHETIC AGONIST
BYI06830
pdb|2R40|A Chain A, Crystal Structure Of 20e Bound Ecr/usp
pdb|3IXP|A Chain A, Crystal Structure Of The Ecdysone Receptor Bound To Byi08346
Length = 263
Score = 32.7 bits (73), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 28/46 (60%)
Query: 1684 ELFDQVLQARSLAMETIRASRQQFVLVASLIDRIPNLAGLARTCEV 1729
++FD+VL SL M T+R + ++V + ++I P++ GL EV
Sbjct: 140 QIFDRVLSELSLKMRTLRVDQAEYVALKAIILLNPDVKGLKNRQEV 185
>pdb|1J85|A Chain A, Structure Of Yibk From Haemophilus Influenzae (Hi0766), A
Truncated Sequence Homolog Of Trna (Guanosine-2'-O-)
Methyltransferase (Spou)
pdb|1MXI|A Chain A, Structure Of Yibk From Haemophilus Influenzae (Hi0766): A
Methyltransferase With A Cofactor Bound At A Site Formed
By A Knot
Length = 160
Score = 32.7 bits (73), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 31/60 (51%), Gaps = 2/60 (3%)
Query: 1797 QYMFPKKTVLVLGREKEGIPVDIIH--MLDACIEIPQLGVVRSLNVHVSGAIALWEYTRQ 1854
Q F L+ G E GIP+ I++ ++ I IP RS+N+ S A+ ++E RQ
Sbjct: 88 QVKFKLGDYLMFGPETRGIPMSILNEMPMEQKIRIPMTANSRSMNLSNSVAVTVYEAWRQ 147
>pdb|1G2N|A Chain A, Crystal Structure Of The Ligand Binding Domain Of The
Ultraspiracle Protein Usp, The Ortholog Of Rxrs In
Insects
Length = 264
Score = 32.7 bits (73), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 28/46 (60%)
Query: 1684 ELFDQVLQARSLAMETIRASRQQFVLVASLIDRIPNLAGLARTCEV 1729
++FD+VL SL M T+R + ++V + ++I P++ GL EV
Sbjct: 141 QIFDRVLSELSLKMRTLRVDQAEYVALKAIILLNPDVKGLKNRQEV 186
>pdb|1VCT|A Chain A, Crystal Structure Of Putative Potassium Channel Related
Protein From Pyrococcus Horikoshii
pdb|2BKN|A Chain A, Structure Analysis Of Unknown Function Protein
pdb|2BKO|A Chain A, Structure Analysis Of Unknown Function Protein
pdb|2BKP|A Chain A, Structure Analysis Of Unknown Function Protein
Length = 205
Score = 32.3 bits (72), Expect = 2.6, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 37/63 (58%), Gaps = 3/63 (4%)
Query: 1663 SSSFFGNREAYKQLLEIEKEDELFD-QVLQARSLAMETIRASRQQFVL--VASLIDRIPN 1719
+S FG++E +++LE+E+ +L + Q++ LA ++ + Q + +A+ I+ I N
Sbjct: 34 ASLLFGDKEIAEEVLELEERIDLLNYQLMMHSVLAARNVKEAEQVITILQIANAIEDISN 93
Query: 1720 LAG 1722
AG
Sbjct: 94 AAG 96
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
0.322 0.135 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 50,168,480
Number of Sequences: 62578
Number of extensions: 1956924
Number of successful extensions: 3823
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 3811
Number of HSP's gapped (non-prelim): 15
length of query: 1857
length of database: 14,973,337
effective HSP length: 113
effective length of query: 1744
effective length of database: 7,902,023
effective search space: 13781128112
effective search space used: 13781128112
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: 59 (27.3 bits)