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= 018603
(353 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ADG|A Chain A, Structure Of Arabidopsis Hyl1 And Its Molecular
Implications For Mirna Processing
pdb|3ADI|A Chain A, Structure Of Arabidopsis Hyl1 And Its Molecular
Implications For Mirna Processing
pdb|3ADI|B Chain B, Structure Of Arabidopsis Hyl1 And Its Molecular
Implications For Mirna Processing
pdb|3ADI|C Chain C, Structure Of Arabidopsis Hyl1 And Its Molecular
Implications For Mirna Processing
Length = 73
Score = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 32/70 (45%), Positives = 42/70 (60%)
Query: 42 HLYKNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHE 101
H++K++LQ Y QK LP P+Y +EGP H S F+ V +DG Y S F K AE
Sbjct: 3 HVFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQS 62
Query: 102 AAKVALMSLS 111
AA+VAL L+
Sbjct: 63 AAEVALRELA 72
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 30/70 (42%), Positives = 39/70 (55%), Gaps = 1/70 (1%)
Query: 120 SVLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVF-SGQGAKSKKQAEM 178
S ++K+ LQE AQK PVY + G SH F STV + G + S G ++K AE
Sbjct: 2 SHVFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQ 61
Query: 179 SAAKVAYMRL 188
SAA+VA L
Sbjct: 62 SAAEVALREL 71
>pdb|2L2N|A Chain A, Backbone 1h, 13c, And 15n Chemical Shift Assignments For
The First Dsrbd Of Protein Hyl1
Length = 103
Score = 62.4 bits (150), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 34/82 (41%), Positives = 45/82 (54%)
Query: 30 TVNDVHKSRDMQHLYKNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESH 89
T DV +++K++LQ Y QK LP P+Y +EGP H S F+ V +DG Y S
Sbjct: 5 TSTDVSSGVSNCYVFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSL 64
Query: 90 QFFPTLKEAEHEAAKVALMSLS 111
F K AE AA+VAL L+
Sbjct: 65 PGFFNRKAAEQSAAEVALRELA 86
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 39/71 (54%), Gaps = 1/71 (1%)
Query: 119 DSVLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVF-SGQGAKSKKQAE 177
+ ++K+ LQE AQK PVY + G SH F STV + G + S G ++K AE
Sbjct: 15 NCYVFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAE 74
Query: 178 MSAAKVAYMRL 188
SAA+VA L
Sbjct: 75 QSAAEVALREL 85
>pdb|2L2M|A Chain A, Solution Structure Of The Second Dsrbd Of Hyl1
Length = 77
Score = 53.1 bits (126), Expect = 2e-07, Method: Composition-based stats.
Identities = 27/69 (39%), Positives = 42/69 (60%), Gaps = 1/69 (1%)
Query: 122 LYKNVLQELAQKEAYALPVYNTKQ-SGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSA 180
L KN+LQE AQK YA+P+Y ++ F TVE+GG ++G ++KK AE+SA
Sbjct: 8 LCKNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGGIKYTGAATRTKKDAEISA 67
Query: 181 AKVAYMRLK 189
+ A + ++
Sbjct: 68 GRTALLAIQ 76
Score = 43.9 bits (102), Expect = 2e-04, Method: Composition-based stats.
Identities = 26/69 (37%), Positives = 37/69 (53%), Gaps = 2/69 (2%)
Query: 43 LYKNQLQSYTQKKNLPLPMYSCER-EGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHE 101
L KN LQ Y QK N +P+Y C++ E ++F C V I G Y T K+AE
Sbjct: 8 LCKNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGGIKYTGAA-TRTKKDAEIS 66
Query: 102 AAKVALMSL 110
A + AL+++
Sbjct: 67 AGRTALLAI 75
>pdb|3ADJ|A Chain A, Structure Of Arabidopsis Hyl1 And Its Molecular
Implications For Mirna Processing
Length = 76
Score = 52.8 bits (125), Expect = 3e-07, Method: Composition-based stats.
Identities = 27/69 (39%), Positives = 42/69 (60%), Gaps = 1/69 (1%)
Query: 122 LYKNVLQELAQKEAYALPVYNTKQ-SGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSA 180
L KN+LQE AQK YA+P+Y ++ F TVE+GG ++G ++KK AE+SA
Sbjct: 5 LCKNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGGIKYTGAATRTKKDAEISA 64
Query: 181 AKVAYMRLK 189
+ A + ++
Sbjct: 65 GRTALLAIQ 73
Score = 44.7 bits (104), Expect = 7e-05, Method: Composition-based stats.
Identities = 27/72 (37%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 43 LYKNQLQSYTQKKNLPLPMYSCER-EGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHE 101
L KN LQ Y QK N +P+Y C++ E ++F C V I G Y T K+AE
Sbjct: 5 LCKNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGGIKYTGAA-TRTKKDAEIS 63
Query: 102 AAKVALMSLSLD 113
A + AL+++ D
Sbjct: 64 AGRTALLAIQSD 75
>pdb|2L3J|A Chain A, The Solution Structure Of The Adar2 Dsrbm-Rna Complex
Reveals A Sequence-Specific Read Out Of The Minor Groove
Length = 236
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 36/110 (32%), Positives = 57/110 (51%), Gaps = 5/110 (4%)
Query: 121 VLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSA 180
VL KN L +L + + L Q+G HAP FV +VEV G+VF G G +KK+A++ A
Sbjct: 4 VLPKNALMQLNEIKP-GLQYMLLSQTGPVHAPLFVMSVEVNGQVFEGSG-PTKKKAKLHA 61
Query: 181 AKVAYMRLKE-PNPSQGPALVSPDIQAQADYSSSSLQSNVTADLHHNIQT 229
A+ A + PN S+ + + D++S Q++ L + +T
Sbjct: 62 AEKALRSFVQFPNASEAHLAMGRTLSVNTDFTSD--QADFPDTLFNGFET 109
Score = 36.2 bits (82), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 20/40 (50%), Positives = 28/40 (70%), Gaps = 1/40 (2%)
Query: 145 QSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVA 184
+SGESHA +FV +V V G+ F G G ++KK A+ AA+ A
Sbjct: 181 ESGESHAKSFVMSVVVDGQFFEGSG-RNKKLAKARAAQSA 219
Score = 31.6 bits (70), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 64 CEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSL 110
+ GP HA F V ++GQ +E PT K+A+ AA+ AL S
Sbjct: 25 LSQTGPVHAPLFVMSVEVNGQVFEGSG--PTKKKAKLHAAEKALRSF 69
>pdb|2L3C|A Chain A, Solution Structure Of Adar2 Dsrbm1 Bound To Lsl Rna
Length = 74
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/64 (43%), Positives = 39/64 (60%), Gaps = 2/64 (3%)
Query: 121 VLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSA 180
VL KN L +L + + L Q+G HAP FV +VEV G+VF G G +KK+A++ A
Sbjct: 4 VLPKNALMQLNEIKP-GLQYMLLSQTGPVHAPLFVMSVEVNGQVFEGSGP-TKKKAKLHA 61
Query: 181 AKVA 184
A+ A
Sbjct: 62 AEKA 65
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 68 GPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSL 110
GP HA F V ++GQ +E PT K+A+ AA+ AL S
Sbjct: 29 GPVHAPLFVMSVEVNGQVFEGSG--PTKKKAKLHAAEKALRSF 69
>pdb|2B7T|A Chain A, Structure Of Adar2 Dsrbm1
Length = 73
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/64 (43%), Positives = 39/64 (60%), Gaps = 2/64 (3%)
Query: 121 VLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSA 180
VL KN L +L + + L Q+G HAP FV +VEV G+VF G G +KK+A++ A
Sbjct: 4 VLPKNALMQLNEIKP-GLQYMLLSQTGPVHAPLFVMSVEVNGQVFEGSGP-TKKKAKLHA 61
Query: 181 AKVA 184
A+ A
Sbjct: 62 AEKA 65
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 68 GPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSL 110
GP HA F V ++GQ +E PT K+A+ AA+ AL S
Sbjct: 29 GPVHAPLFVMSVEVNGQVFEGSG--PTKKKAKLHAAEKALRSF 69
>pdb|3N3W|A Chain A, 2.2 Angstrom Resolution Crystal Structure Of Nuclease
Domain Ribonuclase Iii (Rnc) From Campylobacter Jejuni
pdb|3N3W|B Chain B, 2.2 Angstrom Resolution Crystal Structure Of Nuclease
Domain Ribonuclase Iii (Rnc) From Campylobacter Jejuni
Length = 248
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 35/69 (50%), Gaps = 2/69 (2%)
Query: 44 YKNQLQSYTQKKNLPLPMYSCERE-GPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEA 102
YK +LQ TQ K P Y R GP H +F+ + +DG+ + + KEA+ A
Sbjct: 179 YKTKLQEITQGKIGQTPQYETVRAFGPDHLKQFEIALMLDGKEL-ARAIAGSKKEAQQMA 237
Query: 103 AKVALMSLS 111
AK+AL L
Sbjct: 238 AKIALEKLG 246
Score = 35.0 bits (79), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 32/97 (32%), Positives = 47/97 (48%), Gaps = 5/97 (5%)
Query: 97 EAEHEAAKVALMSLSLDKFQQDDSVL----YKNVLQELAQKEAYALPVYNTKQS-GESHA 151
EA E AK + L F Q D+ + YK LQE+ Q + P Y T ++ G H
Sbjct: 149 EAGFEFAKTIALRLIEKNFPQIDAKILIKDYKTKLQEITQGKIGQTPQYETVRAFGPDHL 208
Query: 152 PTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRL 188
F + + G+ + A SKK+A+ AAK+A +L
Sbjct: 209 KQFEIALMLDGKELARAIAGSKKEAQQMAAKIALEKL 245
>pdb|2LJH|A Chain A, Nmr Structure Of Double-Stranded Rna-Specific Editase Adar
Length = 114
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 25/59 (42%), Positives = 32/59 (54%), Gaps = 5/59 (8%)
Query: 126 VLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVA 184
+L EL Y L Q+G HAP F +VEV G+ + GQG +SKK A + AA A
Sbjct: 42 MLNELRHGLIYKL----ESQTGPVHAPLFTISVEVDGQKYLGQG-RSKKVARIEAAATA 95
Score = 28.1 bits (61), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 61 MYSCERE-GPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSL 110
+Y E + GP HA F V +DGQ Y + K A EAA AL S
Sbjct: 51 IYKLESQTGPVHAPLFTISVEVDGQKYLGQGR--SKKVARIEAAATALRSF 99
>pdb|2B7V|A Chain A, Structure Of Adar2 Dsrbm2
pdb|2L2K|B Chain B, Solution Nmr Structure Of The RG STEM LOOP RNA-Adar2
Dsrbm2 Complex
Length = 71
Score = 36.6 bits (83), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/40 (50%), Positives = 28/40 (70%), Gaps = 1/40 (2%)
Query: 145 QSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVA 184
+SGESHA +FV +V V G+ F G G ++KK A+ AA+ A
Sbjct: 24 ESGESHAKSFVMSVVVDGQFFEGSG-RNKKLAKARAAQSA 62
>pdb|1O0W|A Chain A, Crystal Structure Of Ribonuclease Iii (Tm1102) From
Thermotoga Maritima At 2.0 A Resolution
pdb|1O0W|B Chain B, Crystal Structure Of Ribonuclease Iii (Tm1102) From
Thermotoga Maritima At 2.0 A Resolution
Length = 252
Score = 36.6 bits (83), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 1/67 (1%)
Query: 123 YKNVLQELAQKEAYALPVYNTKQSGESHAP-TFVSTVEVGGEVFSGQGAKSKKQAEMSAA 181
YK LQE+ Q E P Y ++ ++ FV V V G+ + ++KK+AE AA
Sbjct: 181 YKTALQEIVQSEHKVPPEYILVRTEKNDGDRIFVVEVRVNGKTIATGKGRTKKEAEKEAA 240
Query: 182 KVAYMRL 188
++AY +L
Sbjct: 241 RIAYEKL 247
Score = 27.7 bits (60), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 35/73 (47%), Gaps = 2/73 (2%)
Query: 39 DMQHLYKNQLQSYTQKKNLPLPMYSCEREGPPHASR-FKCKVTIDGQTYESHQFFPTLKE 97
+M YK LQ Q ++ P Y R R F +V ++G+T + + T KE
Sbjct: 176 EMLFDYKTALQEIVQSEHKVPPEYILVRTEKNDGDRIFVVEVRVNGKTIATGKG-RTKKE 234
Query: 98 AEHEAAKVALMSL 110
AE EAA++A L
Sbjct: 235 AEKEAARIAYEKL 247
>pdb|2LRS|A Chain A, The Second Dsrbd Domain From A. Thaliana Dicer-like 1
Length = 71
Score = 36.2 bits (82), Expect = 0.029, Method: Composition-based stats.
Identities = 23/60 (38%), Positives = 34/60 (56%), Gaps = 6/60 (10%)
Query: 54 KKNLPLPMYSCERE-GPPHASRFKCKVTID----GQTYES-HQFFPTLKEAEHEAAKVAL 107
+KN P+P Y C +E GP HA RF V ++ G T E + P++K+A+ AA + L
Sbjct: 6 RKNWPMPSYRCVKEGGPAHAKRFTFGVRVNTSDRGWTDECIGEPMPSVKKAKDSAAVLLL 65
>pdb|1QU6|A Chain A, Structure Of The Double-Stranded Rna-Binding Domain Of The
Protein Kinase Pkr Reveals The Molecular Basis Of Its
Dsrna-Mediated Activation
Length = 179
Score = 35.8 bits (81), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 36/158 (22%), Positives = 70/158 (44%), Gaps = 13/158 (8%)
Query: 43 LYKNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTY-----------ESHQF 91
+ +L +Y QK+ + L GPPH RF +V IDG+ + ++
Sbjct: 14 FFMEELNTYRQKQGVVLKYQELPNSGPPHDRRFTFQVIIDGREFPEGEGRSKKEAKNAAA 73
Query: 92 FPTLKEAEHEAAKVALMSLSLDKFQQDDSVL-YKNVLQELAQKEAYALPVYNTKQSGESH 150
++ E V+ + L+ + S+ Y ++ +AQK+ + Y SG
Sbjct: 74 KLAVEILNKEKKAVSPLLLTTTNSSEGLSMGNYIGLINRIAQKKRLTVN-YEQCASGVHG 132
Query: 151 APTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRL 188
F ++G + +S +K++A+ AAK+AY+++
Sbjct: 133 PEGFHYKCKMGQKEYSIGTGSTKQEAKQLAAKLAYLQI 170
>pdb|2CPN|A Chain A, Solution Structure Of The Second Dsrbd Of Tar Rna-Binding
Protein 2
Length = 89
Score = 35.4 bits (80), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 38/73 (52%), Gaps = 4/73 (5%)
Query: 125 NVLQELAQKEAYALPVYN-TKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKV 183
LQEL ++ + LP Y T++SG +H F T V + G G SKK A+ +AA
Sbjct: 20 GALQELVVQKGWRLPEYTVTQESGPAHRKEFTMTCRVERFIEIGSGT-SKKLAKRNAA-- 76
Query: 184 AYMRLKEPNPSQG 196
A M L+ PS G
Sbjct: 77 AKMLLRVSGPSSG 89
>pdb|1X49|A Chain A, Solution Structure Of The First Dsrm Domain In Interferon-
Induced, Double-Stranded Rna-Activated Protein Kinase
Length = 97
Score = 35.0 bits (79), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 34/83 (40%), Gaps = 6/83 (7%)
Query: 39 DMQHLYKNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEA 98
D Y ++L Y Q + + GPPH RF +V ID + FP K
Sbjct: 11 DTPGFYMDKLNKYRQMHGVAITYKELSTSGPPHDRRFTFQVLIDEKE------FPEAKGR 64
Query: 99 EHEAAKVALMSLSLDKFQQDDSV 121
+ A+ A L++D ++ V
Sbjct: 65 SKQEARNAAAKLAVDILDNENKV 87
>pdb|2DIX|A Chain A, Solution Structure Of The Dsrm Domain Of Protein Activator
Of The Interferon-Induced Protein Kinase
Length = 84
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 29/74 (39%), Positives = 37/74 (50%), Gaps = 5/74 (6%)
Query: 126 VLQELAQKEAYALPVYNTKQSG-ESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVA 184
VL E K +PVY ++S + H PTF V VG +G+G SKK A+ AA+ A
Sbjct: 13 VLHEYGMKTKN-IPVYECERSDVQIHVPTFTFRVTVGDITCTGEGT-SKKLAKHRAAEAA 70
Query: 185 YMRLK--EPNPSQG 196
LK PS G
Sbjct: 71 INILKANASGPSSG 84
>pdb|3ADL|A Chain A, Structure Of Trbp2 And Its Molecule Implications For Mirna
Processing
Length = 88
Score = 32.7 bits (73), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 125 NVLQELAQKEAYALPVYN-TKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKV 183
LQEL ++ + LP Y T++SG +H F T V + G G SKK A+ +AA
Sbjct: 19 GALQELVVQKGWRLPEYTVTQESGPAHRKEFTMTCRVERFIEIGSGT-SKKLAKRNAAAK 77
Query: 184 AYMRL 188
+R+
Sbjct: 78 MLLRV 82
>pdb|2KHX|A Chain A, Drosha Double-Stranded Rna Binding Motif
Length = 85
Score = 32.0 bits (71), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 138 LPVYNTKQS-GESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEP 191
+P+Y T Q+ G SHA T+ V GE S +QAEM AA A + P
Sbjct: 23 IPLYKTLQTVGPSHARTYTVAVYFKGERIGCGKGPSIQQAEMGAAMDALEKYNFP 77
>pdb|3TVI|A Chain A, Crystal Structure Of Clostridium Acetobutylicum Aspartate
Kinase (Caak): An Important Allosteric Enzyme For
Industrial Amino Acids Production
pdb|3TVI|B Chain B, Crystal Structure Of Clostridium Acetobutylicum Aspartate
Kinase (Caak): An Important Allosteric Enzyme For
Industrial Amino Acids Production
pdb|3TVI|C Chain C, Crystal Structure Of Clostridium Acetobutylicum Aspartate
Kinase (Caak): An Important Allosteric Enzyme For
Industrial Amino Acids Production
pdb|3TVI|D Chain D, Crystal Structure Of Clostridium Acetobutylicum Aspartate
Kinase (Caak): An Important Allosteric Enzyme For
Industrial Amino Acids Production
pdb|3TVI|E Chain E, Crystal Structure Of Clostridium Acetobutylicum Aspartate
Kinase (Caak): An Important Allosteric Enzyme For
Industrial Amino Acids Production
pdb|3TVI|F Chain F, Crystal Structure Of Clostridium Acetobutylicum Aspartate
Kinase (Caak): An Important Allosteric Enzyme For
Industrial Amino Acids Production
pdb|3TVI|G Chain G, Crystal Structure Of Clostridium Acetobutylicum Aspartate
Kinase (Caak): An Important Allosteric Enzyme For
Industrial Amino Acids Production
pdb|3TVI|H Chain H, Crystal Structure Of Clostridium Acetobutylicum Aspartate
Kinase (Caak): An Important Allosteric Enzyme For
Industrial Amino Acids Production
pdb|3TVI|I Chain I, Crystal Structure Of Clostridium Acetobutylicum Aspartate
Kinase (Caak): An Important Allosteric Enzyme For
Industrial Amino Acids Production
pdb|3TVI|J Chain J, Crystal Structure Of Clostridium Acetobutylicum Aspartate
Kinase (Caak): An Important Allosteric Enzyme For
Industrial Amino Acids Production
pdb|3TVI|K Chain K, Crystal Structure Of Clostridium Acetobutylicum Aspartate
Kinase (Caak): An Important Allosteric Enzyme For
Industrial Amino Acids Production
pdb|3TVI|L Chain L, Crystal Structure Of Clostridium Acetobutylicum Aspartate
Kinase (Caak): An Important Allosteric Enzyme For
Industrial Amino Acids Production
Length = 446
Score = 31.6 bits (70), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 30/55 (54%), Gaps = 7/55 (12%)
Query: 205 QAQADYSSSSLQSNVTADLHHN-------IQTAGRLVFNPNSMPKVQAEEIRELT 252
+ +D + S + + V ADL+ N + R+V NP ++ K+ +E+REL+
Sbjct: 185 RGGSDVTGSIISAGVNADLYENWTDVSGFLXADPRIVENPKTISKISYKELRELS 239
>pdb|2DMY|A Chain A, Solution Structure Of Dsrm Domain In Spermatid Perinuclear
Rna-Bind Protein
Length = 97
Score = 31.2 bits (69), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 30/61 (49%), Gaps = 10/61 (16%)
Query: 46 NQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAE-HEAAK 104
NQ++ Q K L + GP HA F V +DG TYE+ P+ K A+ H A K
Sbjct: 26 NQIRPGLQYKLL-------SQSGPVHAPVFTMSVDVDGTTYEASG--PSKKTAKLHVAVK 76
Query: 105 V 105
V
Sbjct: 77 V 77
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 145 QSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAA 181
QSG HAP F +V+V G + G SKK A++ A
Sbjct: 39 QSGPVHAPVFTMSVDVDGTTYEASG-PSKKTAKLHVA 74
>pdb|1YYK|A Chain A, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double-Stranded Rna At 2.5-Angstrom
Resolution
pdb|1YYK|B Chain B, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double-Stranded Rna At 2.5-Angstrom
Resolution
pdb|1YYW|A Chain A, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double Stranded Rna At 2.8-Angstrom
Resolution
pdb|1YYW|B Chain B, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double Stranded Rna At 2.8-Angstrom
Resolution
pdb|1YYW|C Chain C, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double Stranded Rna At 2.8-Angstrom
Resolution
pdb|1YYW|D Chain D, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Double Stranded Rna At 2.8-Angstrom
Resolution
pdb|2NUE|A Chain A, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 2.9-Angstrom Resolution
pdb|2NUE|B Chain B, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 2.9-Angstrom Resolution
pdb|2NUF|A Chain A, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 2.5-Angstrom Resolution
pdb|2NUF|B Chain B, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 2.5-Angstrom Resolution
pdb|2NUG|A Chain A, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 1.7-Angstrom Resolution
pdb|2NUG|B Chain B, Crystal Structure Of Rnase Iii From Aquifex Aeolicus
Complexed With Ds-Rna At 1.7-Angstrom Resolution
Length = 221
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 123 YKNVLQELAQKEAYALPVYN-TKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAA 181
YK +LQE+ QK P Y G H F+ ++ G+G KSKK+AE AA
Sbjct: 152 YKTILQEITQKRWKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEG-KSKKEAEQRAA 210
>pdb|1YZ9|A Chain A, Crystal Structure Of Rnase Iii Mutant E110q From Aquifex
Aeolicus Complexed With Double Stranded Rna At 2.1-
Angstrom Resolution
pdb|1YZ9|B Chain B, Crystal Structure Of Rnase Iii Mutant E110q From Aquifex
Aeolicus Complexed With Double Stranded Rna At 2.1-
Angstrom Resolution
Length = 221
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 123 YKNVLQELAQKEAYALPVYN-TKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAA 181
YK +LQE+ QK P Y G H F+ ++ G+G KSKK+AE AA
Sbjct: 152 YKTILQEITQKRWKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEG-KSKKEAEQRAA 210
>pdb|1RC7|A Chain A, Crystal Structure Of Rnase Iii Mutant E110k From Aquifex
Aeolicus Complexed With Ds-Rna At 2.15 Angstrom
Resolution
Length = 220
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 123 YKNVLQELAQKEAYALPVYN-TKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAA 181
YK +LQE+ QK P Y G H F+ ++ G+G KSKK+AE AA
Sbjct: 152 YKTILQEITQKRWKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEG-KSKKEAEQRAA 210
>pdb|1YYO|A Chain A, Crystal Structure Of Rnase Iii Mutant E110k From Aquifex
Aeolicus Complexed With Double-stranded Rna At 2.9-
Angstrom Resolution
pdb|1YYO|B Chain B, Crystal Structure Of Rnase Iii Mutant E110k From Aquifex
Aeolicus Complexed With Double-stranded Rna At 2.9-
Angstrom Resolution
Length = 221
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 123 YKNVLQELAQKEAYALPVYN-TKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAA 181
YK +LQE+ QK P Y G H F+ ++ G+G KSKK+AE AA
Sbjct: 152 YKTILQEITQKRWKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEG-KSKKEAEQRAA 210
>pdb|2EZ6|A Chain A, Crystal Structure Of Aquifex Aeolicus Rnase Iii (d44n)
Complexed With Product Of Double-stranded Rna Processing
pdb|2EZ6|B Chain B, Crystal Structure Of Aquifex Aeolicus Rnase Iii (d44n)
Complexed With Product Of Double-stranded Rna Processing
Length = 221
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 123 YKNVLQELAQKEAYALPVYN-TKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAA 181
YK +LQE+ QK P Y G H F+ ++ G+G KSKK+AE AA
Sbjct: 152 YKTILQEITQKRWKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEG-KSKKEAEQRAA 210
>pdb|1DI2|A Chain A, Crystal Structure Of A Dsrna-Binding Domain Complexed With
Dsrna: Molecular Basis Of Double-Stranded Rna-Protein
Interactions
pdb|1DI2|B Chain B, Crystal Structure Of A Dsrna-Binding Domain Complexed With
Dsrna: Molecular Basis Of Double-Stranded Rna-Protein
Interactions
Length = 69
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 127 LQELAQKEAYALPVYNTKQ-SGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAY 185
LQELA ++ + LP Y Q SG H F T V V +G G SK+ A+ AA+
Sbjct: 6 LQELAVQKGWRLPEYTVAQESGPPHKREFTITCRVETFVETGSGT-SKQVAKRVAAEKLL 64
Query: 186 MRLK 189
+ K
Sbjct: 65 TKFK 68
>pdb|2A11|A Chain A, Crystal Structure Of Nuclease Domain Of Ribonuclase Iii
From Mycobacterium Tuberculosis
Length = 242
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 17/45 (37%)
Query: 44 YKNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYES 88
+K LQ T + L P Y GP H F V + Y S
Sbjct: 164 WKTSLQELTAARGLGAPSYLVTSTGPDHDKEFTAVVVVMDSEYGS 208
>pdb|2L33|A Chain A, Solution Nmr Structure Of Drbm 2 Domain Of Interleukin
Enhancer- Binding Factor 3 From Homo Sapiens, Northeast
Structural Genomics Consortium Target Hr4527e
Length = 91
Score = 28.5 bits (62), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 124 KNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGA 170
KN + EL +K L ++G SH FV VEV G+ F G G+
Sbjct: 17 KNPVMELNEKRR-GLKYELISETGGSHDKRFVMEVEVDGQKFQGAGS 62
>pdb|3P1X|A Chain A, Crystal Structure Of Drbm 2 Domain Of Interleukin
Enhancer-Binding Factor 3 From Homo Sapiens, Northeast
Structural Genomics Consortium Target Hr4527e
pdb|3P1X|B Chain B, Crystal Structure Of Drbm 2 Domain Of Interleukin
Enhancer-Binding Factor 3 From Homo Sapiens, Northeast
Structural Genomics Consortium Target Hr4527e
Length = 75
Score = 28.5 bits (62), Expect = 5.7, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 124 KNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGA 170
KN + EL +K L ++G SH FV VEV G+ F G G+
Sbjct: 7 KNPVXELNEKRR-GLKYELISETGGSHDKRFVXEVEVDGQKFQGAGS 52
>pdb|1WHQ|A Chain A, Solution Structure Of The N-Terminal Dsrbd From
Hypothetical Protein Bab28848
pdb|2RS6|A Chain A, Solution Structure Of The N-Terminal Dsrbd From Rna
Helicase A
Length = 99
Score = 28.1 bits (61), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 45 KNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAK 104
KN L ++ K+ + P Y G + +F C+V ++G Y K+A+ AA+
Sbjct: 9 KNFLYAWCGKRKM-TPAYEIRAVGNKNRQKFMCEVRVEGFNYAGMGNSTNKKDAQSNAAR 67
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
0.311 0.125 0.352
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,386,603
Number of Sequences: 62578
Number of extensions: 336838
Number of successful extensions: 660
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 616
Number of HSP's gapped (non-prelim): 56
length of query: 353
length of database: 14,973,337
effective HSP length: 100
effective length of query: 253
effective length of database: 8,715,537
effective search space: 2205030861
effective search space used: 2205030861
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 52 (24.6 bits)