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= 021322
(314 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: 3 HLYKNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHE 62
H++K++LQ Y QK LP P+Y +EGP H S F+ V +DG Y S F K AE
Sbjct: 3 HVFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQS 62
Query: 63 AAKVALMSLS 72
AA+VAL L+
Sbjct: 63 AAEVALRELA 72
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 30/70 (42%), Positives = 39/70 (55%), Gaps = 1/70 (1%)
Query: 81 SVLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVF-SGQGAKSKKQAEM 139
S ++K+ LQE AQK PVY + G SH F STV + G + S G ++K AE
Sbjct: 2 SHVFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQ 61
Query: 140 SAAKVAYMRL 149
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 = 60.8 bits (146), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 31/70 (44%), Positives = 42/70 (60%)
Query: 3 HLYKNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHE 62
+++K++LQ Y QK LP P+Y +EGP H S F+ V +DG Y S F K AE
Sbjct: 17 YVFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQS 76
Query: 63 AAKVALMSLS 72
AA+VAL L+
Sbjct: 77 AAEVALRELA 86
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 29/68 (42%), Positives = 38/68 (55%), Gaps = 1/68 (1%)
Query: 83 LYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVF-SGQGAKSKKQAEMSA 141
++K+ LQE AQK PVY + G SH F STV + G + S G ++K AE SA
Sbjct: 18 VFKSRLQEYAQKYKLPTPVYEIVKEGPSHKSLFQSTVILDGVRYNSLPGFFNRKAAEQSA 77
Query: 142 AKVAYMRL 149
A+VA L
Sbjct: 78 AEVALREL 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: 83 LYKNVLQELAQKEAYALPVYNTKQ-SGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSA 141
L KN+LQE AQK YA+P+Y ++ F TVE+GG ++G ++KK AE+SA
Sbjct: 8 LCKNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGGIKYTGAATRTKKDAEISA 67
Query: 142 AKVAYMRLK 150
+ A + ++
Sbjct: 68 GRTALLAIQ 76
Score = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 26/69 (37%), Positives = 37/69 (53%), Gaps = 2/69 (2%)
Query: 4 LYKNQLQSYTQKKNLPLPMYSCER-EGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHE 62
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: 63 AAKVALMSL 71
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 = 53.1 bits (126), Expect = 2e-07, Method: Composition-based stats.
Identities = 27/69 (39%), Positives = 42/69 (60%), Gaps = 1/69 (1%)
Query: 83 LYKNVLQELAQKEAYALPVYNTKQ-SGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSA 141
L KN+LQE AQK YA+P+Y ++ F TVE+GG ++G ++KK AE+SA
Sbjct: 5 LCKNLLQEYAQKMNYAIPLYQCQKVETLGRVTQFTCTVEIGGIKYTGAATRTKKDAEISA 64
Query: 142 AKVAYMRLK 150
+ A + ++
Sbjct: 65 GRTALLAIQ 73
Score = 45.1 bits (105), Expect = 5e-05, Method: Composition-based stats.
Identities = 27/72 (37%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 4 LYKNQLQSYTQKKNLPLPMYSCER-EGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHE 62
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: 63 AAKVALMSLSLD 74
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 = 2e-05, Method: Compositional matrix adjust.
Identities = 36/110 (32%), Positives = 57/110 (51%), Gaps = 5/110 (4%)
Query: 82 VLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSA 141
VL KN L +L + + L Q+G HAP FV +VEV G+VF G G +KK+A++ A
Sbjct: 4 VLPKNALMQLNEIKP-GLQYMLLSQTGPVHAPLFVMSVEVNGQVFEGSG-PTKKKAKLHA 61
Query: 142 AKVAYMRLKE-PNPSQGPALVSPDIQAQADYSSSSLQSNVTADLHHNIQT 190
A+ A + PN S+ + + D++S Q++ L + +T
Sbjct: 62 AEKALRSFVQFPNASEAHLAMGRTLSVNTDFTSD--QADFPDTLFNGFET 109
Score = 36.2 bits (82), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 20/40 (50%), Positives = 28/40 (70%), Gaps = 1/40 (2%)
Query: 106 QSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVA 145
+SGESHA +FV +V V G+ F G G ++KK A+ AA+ A
Sbjct: 181 ESGESHAKSFVMSVVVDGQFFEGSG-RNKKLAKARAAQSA 219
Score = 31.6 bits (70), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 25 CEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSL 71
+ 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 = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/64 (43%), Positives = 39/64 (60%), Gaps = 2/64 (3%)
Query: 82 VLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSA 141
VL KN L +L + + L Q+G HAP FV +VEV G+VF G G +KK+A++ A
Sbjct: 4 VLPKNALMQLNEIKP-GLQYMLLSQTGPVHAPLFVMSVEVNGQVFEGSGP-TKKKAKLHA 61
Query: 142 AKVA 145
A+ A
Sbjct: 62 AEKA 65
Score = 30.8 bits (68), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 25 CEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSL 71
+ GP HA F V ++GQ +E PT K+A+ AA+ AL S
Sbjct: 25 LSQTGPVHAPLFVMSVEVNGQVFEGSG--PTKKKAKLHAAEKALRSF 69
>pdb|2B7T|A Chain A, Structure Of Adar2 Dsrbm1
Length = 73
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/64 (43%), Positives = 39/64 (60%), Gaps = 2/64 (3%)
Query: 82 VLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSA 141
VL KN L +L + + L Q+G HAP FV +VEV G+VF G G +KK+A++ A
Sbjct: 4 VLPKNALMQLNEIKP-GLQYMLLSQTGPVHAPLFVMSVEVNGQVFEGSGP-TKKKAKLHA 61
Query: 142 AKVA 145
A+ A
Sbjct: 62 AEKA 65
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 29 GPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSL 71
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 = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 35/69 (50%), Gaps = 2/69 (2%)
Query: 5 YKNQLQSYTQKKNLPLPMYSCERE-GPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEA 63
YK +LQ TQ K P Y R GP H +F+ + +DG+ + + KEA+ A
Sbjct: 179 YKTKLQEITQGKIGQTPQYETVRAFGPDHLKQFEIALMLDGKEL-ARAIAGSKKEAQQMA 237
Query: 64 AKVALMSLS 72
AK+AL L
Sbjct: 238 AKIALEKLG 246
Score = 35.0 bits (79), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 32/97 (32%), Positives = 47/97 (48%), Gaps = 5/97 (5%)
Query: 58 EAEHEAAKVALMSLSLDKFQQDDSVL----YKNVLQELAQKEAYALPVYNTKQS-GESHA 112
EA E AK + L F Q D+ + YK LQE+ Q + P Y T ++ G H
Sbjct: 149 EAGFEFAKTIALRLIEKNFPQIDAKILIKDYKTKLQEITQGKIGQTPQYETVRAFGPDHL 208
Query: 113 PTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRL 149
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: 87 VLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVA 145
+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 = 7.0, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 24/51 (47%), Gaps = 3/51 (5%)
Query: 22 MYSCERE-GPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSL 71
+Y E + GP HA F V +DGQ Y + K A EAA AL S
Sbjct: 51 IYKLESQTGPVHAPLFTISVEVDGQKYLGQGR--SKKVARIEAAATALRSF 99
>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 = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 1/67 (1%)
Query: 84 YKNVLQELAQKEAYALPVYNTKQSGESHAP-TFVSTVEVGGEVFSGQGAKSKKQAEMSAA 142
YK LQE+ Q E P Y ++ ++ FV V V G+ + ++KK+AE AA
Sbjct: 181 YKTALQEIVQSEHKVPPEYILVRTEKNDGDRIFVVEVRVNGKTIATGKGRTKKEAEKEAA 240
Query: 143 KVAYMRL 149
++AY +L
Sbjct: 241 RIAYEKL 247
Score = 28.1 bits (61), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 33/68 (48%), Gaps = 2/68 (2%)
Query: 5 YKNQLQSYTQKKNLPLPMYSCEREGPPHASR-FKCKVTIDGQTYESHQFFPTLKEAEHEA 63
YK LQ Q ++ P Y R R F +V ++G+T + + T KEAE EA
Sbjct: 181 YKTALQEIVQSEHKVPPEYILVRTEKNDGDRIFVVEVRVNGKTIATGKG-RTKKEAEKEA 239
Query: 64 AKVALMSL 71
A++A L
Sbjct: 240 ARIAYEKL 247
>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 = 0.016, Method: Compositional matrix adjust.
Identities = 20/40 (50%), Positives = 28/40 (70%), Gaps = 1/40 (2%)
Query: 106 QSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVA 145
+SGESHA +FV +V V G+ F G G ++KK A+ AA+ A
Sbjct: 24 ESGESHAKSFVMSVVVDGQFFEGSG-RNKKLAKARAAQSA 62
>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 = 36.6 bits (83), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 36/158 (22%), Positives = 70/158 (44%), Gaps = 13/158 (8%)
Query: 4 LYKNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTY-----------ESHQF 52
+ +L +Y QK+ + L GPPH RF +V IDG+ + ++
Sbjct: 14 FFMEELNTYRQKQGVVLKYQELPNSGPPHDRRFTFQVIIDGREFPEGEGRSKKEAKNAAA 73
Query: 53 FPTLKEAEHEAAKVALMSLSLDKFQQDDSVL-YKNVLQELAQKEAYALPVYNTKQSGESH 111
++ E V+ + L+ + S+ Y ++ +AQK+ + Y SG
Sbjct: 74 KLAVEILNKEKKAVSPLLLTTTNSSEGLSMGNYIGLINRIAQKKRLTVN-YEQCASGVHG 132
Query: 112 APTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRL 149
F ++G + +S +K++A+ AAK+AY+++
Sbjct: 133 PEGFHYKCKMGQKEYSIGTGSTKQEAKQLAAKLAYLQI 170
>pdb|2LRS|A Chain A, The Second Dsrbd Domain From A. Thaliana Dicer-like 1
Length = 71
Score = 35.8 bits (81), Expect = 0.028, Method: Composition-based stats.
Identities = 23/60 (38%), Positives = 34/60 (56%), Gaps = 6/60 (10%)
Query: 15 KKNLPLPMYSCERE-GPPHASRFKCKVTID----GQTYES-HQFFPTLKEAEHEAAKVAL 68
+KN P+P Y C +E GP HA RF V ++ G T E + P++K+A+ AA + L
Sbjct: 6 RKNWPMPSYRCVKEGGPAHAKRFTFGVRVNTSDRGWTDECIGEPMPSVKKAKDSAAVLLL 65
>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 = 0.039, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 38/73 (52%), Gaps = 4/73 (5%)
Query: 86 NVLQELAQKEAYALPVYN-TKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKV 144
LQEL ++ + LP Y T++SG +H F T V + G G SKK A+ +AA
Sbjct: 20 GALQELVVQKGWRLPEYTVTQESGPAHRKEFTMTCRVERFIEIGSGT-SKKLAKRNAA-- 76
Query: 145 AYMRLKEPNPSQG 157
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 = 0.059, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 33/79 (41%), Gaps = 6/79 (7%)
Query: 4 LYKNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEA 63
Y ++L Y Q + + GPPH RF +V ID + FP K +
Sbjct: 15 FYMDKLNKYRQMHGVAITYKELSTSGPPHDRRFTFQVLIDEKE------FPEAKGRSKQE 68
Query: 64 AKVALMSLSLDKFQQDDSV 82
A+ A L++D ++ V
Sbjct: 69 ARNAAAKLAVDILDNENKV 87
>pdb|3ADL|A Chain A, Structure Of Trbp2 And Its Molecule Implications For Mirna
Processing
Length = 88
Score = 32.7 bits (73), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 86 NVLQELAQKEAYALPVYN-TKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKV 144
LQEL ++ + LP Y T++SG +H F T V + G G SKK A+ +AA
Sbjct: 19 GALQELVVQKGWRLPEYTVTQESGPAHRKEFTMTCRVERFIEIGSGT-SKKLAKRNAAAK 77
Query: 145 AYMRL 149
+R+
Sbjct: 78 MLLRV 82
>pdb|2DIX|A Chain A, Solution Structure Of The Dsrm Domain Of Protein Activator
Of The Interferon-Induced Protein Kinase
Length = 84
Score = 32.0 bits (71), Expect = 0.40, Method: Composition-based stats.
Identities = 29/74 (39%), Positives = 37/74 (50%), Gaps = 5/74 (6%)
Query: 87 VLQELAQKEAYALPVYNTKQSG-ESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVA 145
VL E K +PVY ++S + H PTF V VG +G+G SKK A+ AA+ A
Sbjct: 13 VLHEYGMKTK-NIPVYECERSDVQIHVPTFTFRVTVGDITCTGEGT-SKKLAKHRAAEAA 70
Query: 146 YMRLK--EPNPSQG 157
LK PS G
Sbjct: 71 INILKANASGPSSG 84
>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 = 32.0 bits (71), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 31/55 (56%), Gaps = 7/55 (12%)
Query: 166 QAQADYSSSSLQSNVTADLHHN-IQTAG------RLVFNPNSMPKVQAEEIRELT 213
+ +D + S + + V ADL+ N +G R+V NP ++ K+ +E+REL+
Sbjct: 185 RGGSDVTGSIISAGVNADLYENWTDVSGFLXADPRIVENPKTISKISYKELRELS 239
>pdb|2KHX|A Chain A, Drosha Double-Stranded Rna Binding Motif
Length = 85
Score = 31.6 bits (70), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 99 LPVYNTKQS-GESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEP 152
+P+Y T Q+ G SHA T+ V GE S +QAEM AA A + P
Sbjct: 23 IPLYKTLQTVGPSHARTYTVAVYFKGERIGCGKGPSIQQAEMGAAMDALEKYNFP 77
>pdb|2DMY|A Chain A, Solution Structure Of Dsrm Domain In Spermatid
Perinuclear Rna-Bind Protein
Length = 97
Score = 31.2 bits (69), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 30/61 (49%), Gaps = 10/61 (16%)
Query: 7 NQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAE-HEAAK 65
NQ++ Q K L + GP HA F V +DG TYE+ P+ K A+ H A K
Sbjct: 26 NQIRPGLQYKLL-------SQSGPVHAPVFTMSVDVDGTTYEASG--PSKKTAKLHVAVK 76
Query: 66 V 66
V
Sbjct: 77 V 77
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 106 QSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAA 142
QSG HAP F +V+V G + G SKK A++ A
Sbjct: 39 QSGPVHAPVFTMSVDVDGTTYEASG-PSKKTAKLHVA 74
>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 = 0.94, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 84 YKNVLQELAQKEAYALPVYN-TKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAA 142
YK +LQE+ QK P Y G H F+ ++ G+G KSKK+AE AA
Sbjct: 152 YKTILQEITQKRWKERPEYRLISVEGPHHKKKFIVEAKIKEYRTLGEG-KSKKEAEQRAA 210
>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 = 0.94, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 84 YKNVLQELAQKEAYALPVYN-TKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAA 142
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 = 0.97, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 84 YKNVLQELAQKEAYALPVYN-TKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAA 142
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 = 0.98, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 84 YKNVLQELAQKEAYALPVYN-TKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAA 142
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 = 0.99, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 84 YKNVLQELAQKEAYALPVYN-TKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAA 142
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: 88 LQELAQKEAYALPVYNTKQ-SGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAY 146
LQELA ++ + LP Y Q SG H F T V V +G G SK+ A+ AA+
Sbjct: 6 LQELAVQKGWRLPEYTVAQESGPPHKREFTITCRVETFVETGSGT-SKQVAKRVAAEKLL 64
Query: 147 MRLK 150
+ 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 = 2.7, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 17/45 (37%)
Query: 5 YKNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYES 49
+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 = 4.8, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 85 KNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGA 131
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 = 5.0, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 85 KNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGA 131
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 = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 6 KNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAK 65
KN L ++ K+ + P Y G + +F C+V ++G Y K+A+ AA+
Sbjct: 9 KNFLYAWCGKRKM-TPAYEIRAVGNKNRQKFMCEVRVEGFNYAGMGNSTNKKDAQSNAAR 67
>pdb|3VYY|A Chain A, Structural Insights Into Risc Assembly Facilitated By
Dsrna Binding Domains Of Human Rna Helicase A (dhx9)
pdb|3VYY|B Chain B, Structural Insights Into Risc Assembly Facilitated By
Dsrna Binding Domains Of Human Rna Helicase A (dhx9)
Length = 91
Score = 27.7 bits (60), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 38/80 (47%), Gaps = 5/80 (6%)
Query: 85 KNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQG-AKSKKQAEMSAAK 143
KN L K P Y + G + F+ V+V G ++G G + +KK A+ +AA+
Sbjct: 5 KNFLYAWCGKRKMT-PSYEIRAVGNKNRQKFMCEVQVEGYNYTGMGNSTNKKDAQSNAAR 63
Query: 144 --VAYM-RLKEPNPSQGPAL 160
V Y+ R+ E + PA
Sbjct: 64 DFVNYLVRINEIKSEEVPAF 83
Score = 27.7 bits (60), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 6 KNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAK 65
KN L ++ K+ + P Y G + +F C+V ++G Y K+A+ AA+
Sbjct: 5 KNFLYAWCGKRKM-TPSYEIRAVGNKNRQKFMCEVQVEGYNYTGMGNSTNKKDAQSNAAR 63
>pdb|4E8C|A Chain A, Crystal Structure Of Streptococcal Beta-Galactosidase In
Complex With Galactose
pdb|4E8C|B Chain B, Crystal Structure Of Streptococcal Beta-Galactosidase In
Complex With Galactose
pdb|4E8D|A Chain A, Crystal Structure Of Streptococcal Beta-Galactosidase
pdb|4E8D|B Chain B, Crystal Structure Of Streptococcal Beta-Galactosidase
Length = 595
Score = 27.7 bits (60), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 41/171 (23%), Positives = 59/171 (34%), Gaps = 14/171 (8%)
Query: 26 EREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAA-----KVALMSLSLDKFQQDD 80
+ EG P A K + E Q P KE+ A KV+L +LD
Sbjct: 310 DEEGNPTAKYLAVKKMMATHFSEYPQLEPLYKESMELDAIPLVEKVSLFE-TLDSLSSPV 368
Query: 81 SVLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMS 140
LY ++EL Q Y L T E + + GQ K++ Q E+
Sbjct: 369 ESLYPQKMEELGQSYGYLLYRTETNWDAEEERLRIIDGRDRAQLYVDGQWVKTQYQTEIG 428
Query: 141 ------AAKVAYMRLKEPNPSQGPALVSPDIQAQADYSSSSLQSNVTADLH 185
K RL + G V+ + AD +++ V DLH
Sbjct: 429 EDIFYQGKKKGLSRLDILIENMGR--VNYGHKFLADTQRKGIRTGVCKDLH 477
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
0.312 0.126 0.362
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,650,965
Number of Sequences: 62578
Number of extensions: 306696
Number of successful extensions: 613
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: 569
Number of HSP's gapped (non-prelim): 56
length of query: 314
length of database: 14,973,337
effective HSP length: 99
effective length of query: 215
effective length of database: 8,778,115
effective search space: 1887294725
effective search space used: 1887294725
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (24.3 bits)