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= 029441
(193 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3O2S|B Chain B, Crystal Structure Of The Human Symplekin-Ssu72 Complex
Length = 214
Score = 199 bits (505), Expect = 9e-52, Method: Compositional matrix adjust.
Identities = 97/190 (51%), Positives = 130/190 (68%), Gaps = 2/190 (1%)
Query: 4 RYAMVCSSNQNRSMEAHYLLKRHGFDVSSYGTGAHVKLPGPSLREPNVYEFGTPYKQMFD 63
R A+VCSSNQNRSMEAH +L + GF V S+GTG HVKLPGP+ +PNVY+F T Y QM++
Sbjct: 27 RVAVVCSSNQNRSMEAHNILSKRGFSVRSFGTGTHVKLPGPAPDKPNVYDFKTTYDQMYN 86
Query: 64 DLRRKDPELYKRNGILPMLKRNIGVKAAPQRWQDNALDGSFDIVFTFEEKVFDTVVEDLN 123
DL RKD ELY +NGIL ML RN +K P+R+Q N D FD++ T EE+V+D VVEDLN
Sbjct: 87 DLLRKDKELYTQNGILHMLDRNKRIKPRPERFQ-NCKD-LFDLILTCEERVYDQVVEDLN 144
Query: 124 TREQPFMKTVLVINLEVKDNHEEAAIGGRLTFDLCQXXXXXXXXXXXXXXIIAAFEKRHR 183
+REQ + V V+N++++DNHEEA +G L +LCQ ++ FE++
Sbjct: 145 SREQETCQPVHVVNVDIQDNHEEATLGAFLICELCQCIQHTEDMENEIDELLQEFEEKSG 204
Query: 184 RKLLYSISFY 193
R L+++ FY
Sbjct: 205 RTFLHTVCFY 214
>pdb|3O2Q|B Chain B, Crystal Structure Of The Human Symplekin-Ssu72-Ctd
Phosphopeptide Complex
pdb|3O2Q|E Chain E, Crystal Structure Of The Human Symplekin-Ssu72-Ctd
Phosphopeptide Complex
pdb|4H3H|B Chain B, Crystal Structure Of A Ternary Complex Of Human Symplekin
Ntd, Human Ssu72 And A Rna Poymerase Ii Ctd Peptide
Phosphorylated At Ser-7
pdb|4H3H|E Chain E, Crystal Structure Of A Ternary Complex Of Human Symplekin
Ntd, Human Ssu72 And A Rna Poymerase Ii Ctd Peptide
Phosphorylated At Ser-7
pdb|4H3K|B Chain B, Crystal Structure Of A Ternary Complex Of Human Symplekin
Ntd, Human Ssu72 And A Rna Polymerase Ii Ctd Peptide
Phosphorylated At Ser-2, Ser-5 And Ser-7
pdb|4H3K|E Chain E, Crystal Structure Of A Ternary Complex Of Human Symplekin
Ntd, Human Ssu72 And A Rna Polymerase Ii Ctd Peptide
Phosphorylated At Ser-2, Ser-5 And Ser-7
Length = 214
Score = 194 bits (494), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 96/190 (50%), Positives = 129/190 (67%), Gaps = 2/190 (1%)
Query: 4 RYAMVCSSNQNRSMEAHYLLKRHGFDVSSYGTGAHVKLPGPSLREPNVYEFGTPYKQMFD 63
R A+V SSNQNRSMEAH +L + GF V S+GTG HVKLPGP+ +PNVY+F T Y QM++
Sbjct: 27 RVAVVSSSNQNRSMEAHNILSKRGFSVRSFGTGTHVKLPGPAPDKPNVYDFKTTYDQMYN 86
Query: 64 DLRRKDPELYKRNGILPMLKRNIGVKAAPQRWQDNALDGSFDIVFTFEEKVFDTVVEDLN 123
DL RKD ELY +NGIL ML RN +K P+R+Q N D FD++ T EE+V+D VVEDLN
Sbjct: 87 DLLRKDKELYTQNGILHMLDRNKRIKPRPERFQ-NCKD-LFDLILTCEERVYDQVVEDLN 144
Query: 124 TREQPFMKTVLVINLEVKDNHEEAAIGGRLTFDLCQXXXXXXXXXXXXXXIIAAFEKRHR 183
+REQ + V V+N++++DNHEEA +G L +LCQ ++ FE++
Sbjct: 145 SREQETCQPVHVVNVDIQDNHEEATLGAFLICELCQCIQHTEDMENEIDELLQEFEEKSG 204
Query: 184 RKLLYSISFY 193
R L+++ FY
Sbjct: 205 RTFLHTVCFY 214
>pdb|3OMW|A Chain A, Crystal Structure Of Ssu72, An Essential Eukaryotic
Phosphatase Specific For The C-Terminal Domain Of Rna
Polymerase Ii
pdb|3OMW|B Chain B, Crystal Structure Of Ssu72, An Essential Eukaryotic
Phosphatase Specific For The C-Terminal Domain Of Rna
Polymerase Ii
pdb|3OMW|C Chain C, Crystal Structure Of Ssu72, An Essential Eukaryotic
Phosphatase Specific For The C-Terminal Domain Of Rna
Polymerase Ii
pdb|3OMW|D Chain D, Crystal Structure Of Ssu72, An Essential Eukaryotic
Phosphatase Specific For The C-Terminal Domain Of Rna
Polymerase Ii
pdb|3OMX|A Chain A, Crystal Structure Of Ssu72 With Vanadate Complex
pdb|3OMX|B Chain B, Crystal Structure Of Ssu72 With Vanadate Complex
pdb|3OMX|C Chain C, Crystal Structure Of Ssu72 With Vanadate Complex
pdb|3OMX|D Chain D, Crystal Structure Of Ssu72 With Vanadate Complex
Length = 190
Score = 166 bits (420), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 85/192 (44%), Positives = 117/192 (60%), Gaps = 2/192 (1%)
Query: 2 KYRYAMVCSSNQNRSMEAHYLLKRHGFDVSSYGTGAHVKLPGPSLREPNVYEFGTPYKQM 61
K A+VCSSN NRSMEAH L + GF+V SYGTG VKLPG + +PNVYEFGT Y+ +
Sbjct: 1 KLAVAVVCSSNMNRSMEAHNFLAKKGFNVRSYGTGERVKLPGMAFDKPNVYEFGTKYEDI 60
Query: 62 FDDLRRKDPELYKRNGILPMLKRNIGVKAAPQRWQDNALDGSFDIVFTFEEKVFDTVVED 121
+ DL KD E Y +NG+L ML RN +K P+R+QD FDI+ T EE+V+D VV
Sbjct: 61 YRDLESKDKEFYTQNGLLHMLDRNRRIKKCPERFQDTK--EQFDIIVTVEERVYDLVVMH 118
Query: 122 LNTREQPFMKTVLVINLEVKDNHEEAAIGGRLTFDLCQXXXXXXXXXXXXXXIIAAFEKR 181
+ + E + V V+N++V DN E+A +G + D+ +I FE+R
Sbjct: 119 MESMESVDNRPVHVLNVDVVDNAEDALMGAFVITDMINMMAKSTDLDNDIDELIQEFEER 178
Query: 182 HRRKLLYSISFY 193
+R +L+S+ FY
Sbjct: 179 RKRVILHSVLFY 190
>pdb|3FDF|A Chain A, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Orthorhombic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FDF|B Chain B, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Orthorhombic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FDF|C Chain C, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Orthorhombic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FDF|D Chain D, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Orthorhombic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FMV|A Chain A, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Monoclinic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FMV|B Chain B, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Monoclinic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FMV|C Chain C, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Monoclinic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FMV|D Chain D, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Monoclinic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FMV|E Chain E, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Monoclinic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FMV|F Chain F, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Monoclinic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FMV|G Chain G, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Monoclinic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FMV|H Chain H, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Monoclinic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253
Length = 195
Score = 157 bits (398), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 85/192 (44%), Positives = 114/192 (59%), Gaps = 2/192 (1%)
Query: 2 KYRYAMVCSSNQNRSMEAHYLLKRHGFDVSSYGTGAHVKLPGPSLREPNVYEFGTPYKQM 61
K A+VCSSN NRS EAH L + GF+V SYGTG VKLPG + +PNVYEFGT Y+ +
Sbjct: 6 KLAVAVVCSSNXNRSXEAHNFLAKKGFNVRSYGTGERVKLPGXAFDKPNVYEFGTKYEDI 65
Query: 62 FDDLRRKDPELYKRNGILPMLKRNIGVKAAPQRWQDNALDGSFDIVFTFEEKVFDTVVED 121
+ DL KD E Y +NG+L L RN +K P+R+QD FDI+ T EE+V+D VV
Sbjct: 66 YRDLESKDKEFYTQNGLLHXLDRNRRIKKCPERFQDTK--EQFDIIVTVEERVYDLVVXH 123
Query: 122 LNTREQPFMKTVLVINLEVKDNHEEAAIGGRLTFDLCQXXXXXXXXXXXXXXIIAAFEKR 181
+ E + V V+N++V DN E+A G + D +I FE+R
Sbjct: 124 XESXESVDNRPVHVLNVDVVDNAEDALXGAFVITDXINXXAKSTDLDNDIDELIQEFEER 183
Query: 182 HRRKLLYSISFY 193
+R +L+S+ FY
Sbjct: 184 RKRVILHSVLFY 195
>pdb|3P9Y|A Chain A, Crystal Structure Of The Drosophila Melanogaster
Ssu72-Pctd Complex
pdb|3P9Y|B Chain B, Crystal Structure Of The Drosophila Melanogaster
Ssu72-Pctd Complex
pdb|3P9Y|C Chain C, Crystal Structure Of The Drosophila Melanogaster
Ssu72-Pctd Complex
pdb|3P9Y|D Chain D, Crystal Structure Of The Drosophila Melanogaster
Ssu72-Pctd Complex
Length = 198
Score = 156 bits (395), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 82/191 (42%), Positives = 115/191 (60%), Gaps = 2/191 (1%)
Query: 2 KYRYAMVCSSNQNRSMEAHYLLKRHGFDVSSYGTGAHVKLPGPSLREPNVYEFGTPYKQM 61
K A+V SSN NRSMEAH L + GF+V SYGTG VKLPG + +PNVYEFGT Y+ +
Sbjct: 9 KLAVAVVDSSNMNRSMEAHNFLAKKGFNVRSYGTGERVKLPGMAFDKPNVYEFGTKYEDI 68
Query: 62 FDDLRRKDPELYKRNGILPMLKRNIGVKAAPQRWQDNALDGSFDIVFTFEEKVFDTVVED 121
+ DL KD E Y +NG+L ML RN +K P+R+QD FDI+ T EE+V+D VV
Sbjct: 69 YRDLESKDKEFYTQNGLLHMLDRNRRIKKCPERFQDTK--EQFDIIVTVEERVYDLVVMH 126
Query: 122 LNTREQPFMKTVLVINLEVKDNHEEAAIGGRLTFDLCQXXXXXXXXXXXXXXIIAAFEKR 181
+ + E + V V+N++V +N E+A +G + D+ +I FE+R
Sbjct: 127 MESMESVDNRPVHVLNVDVVNNAEDALMGAFVITDMINMMAKSTDLDNDIDELIQEFEER 186
Query: 182 HRRKLLYSISF 192
+R +L+S+ F
Sbjct: 187 RKRVILHSVLF 197
>pdb|3IR5|A Chain A, Crystal Structure Of Narghi Mutant Narg-H49c
Length = 1247
Score = 32.0 bits (71), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%)
Query: 82 LKRNIGVKAAPQRWQDNALDGSFDIVFTFEEKVFDTVV 119
L + GVK WQDN L+G D+V T + ++ T +
Sbjct: 744 LGQQGGVKPEEVDWQDNGLEGKLDLVVTLDFRLSSTCL 781
>pdb|1Q16|A Chain A, Crystal Structure Of Nitrate Reductase A, Narghi, From
Escherichia Coli
Length = 1247
Score = 32.0 bits (71), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%)
Query: 82 LKRNIGVKAAPQRWQDNALDGSFDIVFTFEEKVFDTVV 119
L + GVK WQDN L+G D+V T + ++ T +
Sbjct: 744 LGQQGGVKPEEVDWQDNGLEGKLDLVVTLDFRLSSTCL 781
>pdb|1R27|A Chain A, Crystal Structure Of Nargh Complex
pdb|1R27|C Chain C, Crystal Structure Of Nargh Complex
pdb|1SIW|A Chain A, Crystal Structure Of The Apomolybdo-Narghi
pdb|1Y4Z|A Chain A, The Crystal Structure Of Nitrate Reductase A, Narghi, In
Complex With The Q-Site Inhibitor Pentachlorophenol
pdb|1Y5I|A Chain A, The Crystal Structure Of The Narghi Mutant Nari-K86a
pdb|1Y5L|A Chain A, The Crystal Structure Of The Narghi Mutant Nari-H66y
pdb|1Y5N|A Chain A, The Crystal Structure Of The Narghi Mutant Nari-K86a In
Complex With Pentachlorophenol
Length = 1246
Score = 32.0 bits (71), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%)
Query: 82 LKRNIGVKAAPQRWQDNALDGSFDIVFTFEEKVFDTVV 119
L + GVK WQDN L+G D+V T + ++ T +
Sbjct: 743 LGQQGGVKPEEVDWQDNGLEGKLDLVVTLDFRLSSTCL 780
>pdb|3EGW|A Chain A, The Crystal Structure Of The Narghi Mutant Narh - C16a
Length = 1244
Score = 32.0 bits (71), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%)
Query: 82 LKRNIGVKAAPQRWQDNALDGSFDIVFTFEEKVFDTVV 119
L + GVK WQDN L+G D+V T + ++ T +
Sbjct: 743 LGQQGGVKPEEVDWQDNGLEGKLDLVVTLDFRLSSTCL 780
>pdb|3IR7|A Chain A, Crystal Structure Of Narghi Mutant Narg-R94s
Length = 1247
Score = 32.0 bits (71), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%)
Query: 82 LKRNIGVKAAPQRWQDNALDGSFDIVFTFEEKVFDTVV 119
L + GVK WQDN L+G D+V T + ++ T +
Sbjct: 744 LGQQGGVKPEEVDWQDNGLEGKLDLVVTLDFRLSSTCL 781
>pdb|3IR6|A Chain A, Crystal Structure Of Narghi Mutant Narg-H49s
Length = 1247
Score = 32.0 bits (71), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%)
Query: 82 LKRNIGVKAAPQRWQDNALDGSFDIVFTFEEKVFDTVV 119
L + GVK WQDN L+G D+V T + ++ T +
Sbjct: 744 LGQQGGVKPEEVDWQDNGLEGKLDLVVTLDFRLSSTCL 781
>pdb|3UTM|A Chain A, Crystal Structure Of A Mouse Tankyrase-Axin Complex
pdb|3UTM|B Chain B, Crystal Structure Of A Mouse Tankyrase-Axin Complex
Length = 351
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 10 SSNQNRSMEAHYLLKRHGFD---VSSYGTGAHVKLPGPSLREPNVYEF 54
++++NR +E LL HG D V+ +G A P P LRE YEF
Sbjct: 131 AASKNR-VEVCSLLLSHGADPTLVNCHGKSAVDMAPTPELRERLTYEF 177
>pdb|3HIS|A Chain A, Crystal Structure Of Saporin-L1 From Saponaria
Officinalis
pdb|3HIS|B Chain B, Crystal Structure Of Saporin-L1 From Saponaria
Officinalis
pdb|3HIT|A Chain A, Crystal Structure Of Saporin-L1 In Complex With The
Dinucleotide Inhibitor, A Transition State Analogue
pdb|3HIT|B Chain B, Crystal Structure Of Saporin-L1 In Complex With The
Dinucleotide Inhibitor, A Transition State Analogue
pdb|3HIV|A Chain A, Crystal Structure Of Saporin-L1 In Complex With The
Trinucleotide Inhibitor, A Transition State Analogue
pdb|3HIV|B Chain B, Crystal Structure Of Saporin-L1 In Complex With The
Trinucleotide Inhibitor, A Transition State Analogue
pdb|3HIW|A Chain A, Crystal Structure Of Saporin-L1 In Complex With The
Cyclic Tetranucleotide Inhibitor, A Transition State
Analogue
pdb|3HIW|B Chain B, Crystal Structure Of Saporin-L1 In Complex With The
Cyclic Tetranucleotide Inhibitor, A Transition State
Analogue
Length = 259
Score = 27.7 bits (60), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 22/35 (62%), Gaps = 2/35 (5%)
Query: 53 EFGTPYKQMFDDLRRKDPELYKRNGILPMLKRNIG 87
++ T KQ+ DD+ KDP L+ LP++KR +G
Sbjct: 15 QYSTFLKQLRDDI--KDPNLHYGGTNLPVIKRPVG 47
>pdb|3HIQ|A Chain A, Crystal Structure Of Saporin-L1 Mutant (Y73a) From
Saponaria Officinalis
pdb|3HIQ|B Chain B, Crystal Structure Of Saporin-L1 Mutant (Y73a) From
Saponaria Officinalis
Length = 345
Score = 27.3 bits (59), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 22/35 (62%), Gaps = 2/35 (5%)
Query: 53 EFGTPYKQMFDDLRRKDPELYKRNGILPMLKRNIG 87
++ T KQ+ DD+ KDP L+ LP++KR +G
Sbjct: 49 QYSTFLKQLRDDI--KDPNLHYGGTNLPVIKRPVG 81
Score = 27.3 bits (59), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 22/35 (62%), Gaps = 2/35 (5%)
Query: 53 EFGTPYKQMFDDLRRKDPELYKRNGILPMLKRNIG 87
++ T KQ+ DD+ KDP L+ LP++KR +G
Sbjct: 101 QYSTFLKQLRDDI--KDPNLHYGGTNLPVIKRPVG 133
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 0.139 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,590,784
Number of Sequences: 62578
Number of extensions: 228582
Number of successful extensions: 586
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 565
Number of HSP's gapped (non-prelim): 19
length of query: 193
length of database: 14,973,337
effective HSP length: 93
effective length of query: 100
effective length of database: 9,153,583
effective search space: 915358300
effective search space used: 915358300
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: 49 (23.5 bits)