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= 013307
(445 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4E7X|A Chain A, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E7X|B Chain B, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E7X|C Chain C, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E7X|D Chain D, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E80|A Chain A, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E80|B Chain B, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E80|C Chain C, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E80|D Chain D, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E8F|A Chain A, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
pdb|4E8F|B Chain B, Structural Basis For The Activity Of A Cytoplasmic Rna
Terminal U- Transferase
Length = 405
Score = 88.6 bits (218), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 80/299 (26%), Positives = 125/299 (41%), Gaps = 49/299 (16%)
Query: 48 ATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRL 107
A + FGS S L + D+D+ + + + + + + L+ +
Sbjct: 83 AELVAFGSLESGLALKNSDMDLCVLMDSRVQSDTIALQFYEELIAEGFEG---------- 132
Query: 108 QFVAHARVPILKFETIHQN-----ISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLV 162
+F+ AR+PI+K + +N CDI +N + L +++D R + MVLLV
Sbjct: 133 KFLQRARIPIIKLTSDTKNGFGASFQCDIGFNNRLAIHNTLLLSSYTKLDARLKPMVLLV 192
Query: 163 KEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANA 222
K WAK IN+P GT +SY L+VL++ + I PP ++P L+ LK
Sbjct: 193 KHWAKRKQINSPYFGTLSSYGYVLMVLYYL---IHVIKPP---VFPNLLLSPLK------ 240
Query: 223 ERQIAEICAFNIARFSSDKYRKI----NRSSLAHLFVSFLEKFSGLSLKASELGIC---- 274
Q + F++ DK I N SSL L F +F + E +
Sbjct: 241 --QEKIVDGFDVG--FDDKLEDIPPSQNYSSLGSLLHGFF-RFYAYKFEPREKVVTFRRP 295
Query: 275 ---------PFTGQWEHIRSNTRWLPNNHPLFIEDPFEQPENSARAVSEKNLAKISNAF 324
+T EH S + + + + L IEDPFE N R VS L +I F
Sbjct: 296 DGYLTKQEKGWTSATEHTGSADQIIKDRYILAIEDPFEISHNVGRTVSSSGLYRIRGEF 354
>pdb|4EP7|A Chain A, Functional Implications From The Cid1 Poly(U) Polymerase
Crystal Structure
pdb|4EP7|B Chain B, Functional Implications From The Cid1 Poly(U) Polymerase
Crystal Structure
Length = 340
Score = 88.2 bits (217), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 80/299 (26%), Positives = 127/299 (42%), Gaps = 49/299 (16%)
Query: 48 ATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRL 107
A + FGS S L + D+D+ + + + + + + L+ +
Sbjct: 46 AELVAFGSLESGLALKNSDMDLCVLMDSRVQSDTIALQFYEELIAEGFEG---------- 95
Query: 108 QFVAHARVPILKFETIHQN-----ISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLV 162
+F+ AR+PI+K + +N CDI +N + L +++D R + MVLLV
Sbjct: 96 KFLQRARIPIIKLTSDTKNGFGASFQCDIGFNNRLAIHNTLLLSSYTKLDARLKPMVLLV 155
Query: 163 KEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANA 222
K WAK IN+P GT +SY L+VL++ + I PP ++P L+ LK
Sbjct: 156 KHWAKRKQINSPYFGTLSSYGYVLMVLYYL---IHVIKPP---VFPNLLLSPLK------ 203
Query: 223 ERQIAEICAFNIARFSSDKYRKI----NRSSLAHLFVSFLEKFSGLSLKASELGIC---- 274
+ +I + F++ DK I N SSL L F +F + E +
Sbjct: 204 QEKIVD--GFDVG--FDDKLEDIPPSQNYSSLGSLLHGFF-RFYAYKFEPREKVVTFRRP 258
Query: 275 ---------PFTGQWEHIRSNTRWLPNNHPLFIEDPFEQPENSARAVSEKNLAKISNAF 324
+T EH S + + + + L IEDPFE N R VS L +I F
Sbjct: 259 DGYLTKQEKGWTSATEHTGSADQIIKDRYILAIEDPFEISHNVGRTVSSSGLYRIRGEF 317
>pdb|4FH3|A Chain A, Crystal Structures Of The Cid1 Poly (U) Polymerase Reveal
The Mechanism For Utp Selectivity
pdb|4FH5|A Chain A, Crystal Structures Of The Cid1 Poly (U) Polymerase Reveal
The Mechanism For Utp Selectivity - Mgutp Bound
pdb|4FHP|A Chain A, Crystal Structures Of The Cid1 Poly (U) Polymerase Reveal
The Mechanism For Utp Selectivity - Cautp Bound
pdb|4FHV|A Chain A, Crystal Structures Of The Cid1 Poly (U) Polymerase Reveal
The Mechanism For Utp Selectivity - Mgctp Bound
pdb|4FHW|A Chain A, Crystal Structures Of The Cid1 Poly (U) Polymerase Reveal
The Mechanism For Utp Selectivity - Mggtp Bound
pdb|4FHY|A Chain A, Crystal Structures Of The Cid1 Poly (U) Polymerase Reveal
The Mechanism For Utp Selectivity - Mg 3'-Datp Bound
Length = 349
Score = 88.2 bits (217), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 80/299 (26%), Positives = 127/299 (42%), Gaps = 49/299 (16%)
Query: 48 ATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRL 107
A + FGS S L + D+D+ + + + + + + L+ +
Sbjct: 55 AELVAFGSLESGLALKNSDMDLCVLMDSRVQSDTIALQFYEELIAEGFEG---------- 104
Query: 108 QFVAHARVPILKFETIHQN-----ISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLV 162
+F+ AR+PI+K + +N CDI +N + L +++D R + MVLLV
Sbjct: 105 KFLQRARIPIIKLTSDTKNGFGASFQCDIGFNNRLAIHNTLLLSSYTKLDARLKPMVLLV 164
Query: 163 KEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANA 222
K WAK IN+P GT +SY L+VL++ + I PP ++P L+ LK
Sbjct: 165 KHWAKRKQINSPYFGTLSSYGYVLMVLYYL---IHVIKPP---VFPNLLLSPLK------ 212
Query: 223 ERQIAEICAFNIARFSSDKYRKI----NRSSLAHLFVSFLEKFSGLSLKASELGIC---- 274
+ +I + F++ DK I N SSL L F +F + E +
Sbjct: 213 QEKIVD--GFDVG--FDDKLEDIPPSQNYSSLGSLLHGFF-RFYAYKFEPREKVVTFRRP 267
Query: 275 ---------PFTGQWEHIRSNTRWLPNNHPLFIEDPFEQPENSARAVSEKNLAKISNAF 324
+T EH S + + + + L IEDPFE N R VS L +I F
Sbjct: 268 DGYLTKQEKGWTSATEHTGSADQIIKDRYILAIEDPFEISHNVGRTVSSSGLYRIRGEF 326
>pdb|4FHX|A Chain A, Crystal Structures Of The Cid1 Poly (U) Polymerase Reveal
The Mechanism For Utp Selectivity - H336n Mutant Bound
To Mgatp
Length = 349
Score = 87.8 bits (216), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 80/299 (26%), Positives = 127/299 (42%), Gaps = 49/299 (16%)
Query: 48 ATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRL 107
A + FGS S L + D+D+ + + + + + + L+ +
Sbjct: 55 AELVAFGSLESGLALKNSDMDLCVLMDSRVQSDTIALQFYEELIAEGFEG---------- 104
Query: 108 QFVAHARVPILKFETIHQN-----ISCDISIDNLCGQIKSKFLFWISQIDGRFRDMVLLV 162
+F+ AR+PI+K + +N CDI +N + L +++D R + MVLLV
Sbjct: 105 KFLQRARIPIIKLTSDTKNGFGASFQCDIGFNNRLAIHNTLLLSSYTKLDARLKPMVLLV 164
Query: 163 KEWAKAHDINNPKTGTFNSYSLSLLVLFHFQTCVPAILPPLKDIYPGNLVDDLKGVRANA 222
K WAK IN+P GT +SY L+VL++ + I PP ++P L+ LK
Sbjct: 165 KHWAKRKQINSPYFGTLSSYGYVLMVLYYL---IHVIKPP---VFPNLLLSPLK------ 212
Query: 223 ERQIAEICAFNIARFSSDKYRKI----NRSSLAHLFVSFLEKFSGLSLKASELGIC---- 274
+ +I + F++ DK I N SSL L F +F + E +
Sbjct: 213 QEKIVD--GFDVG--FDDKLEDIPPSQNYSSLGSLLHGFF-RFYAYKFEPREKVVTFRRP 267
Query: 275 ---------PFTGQWEHIRSNTRWLPNNHPLFIEDPFEQPENSARAVSEKNLAKISNAF 324
+T EH S + + + + L IEDPFE N R VS L +I F
Sbjct: 268 DGYLTKQEKGWTSATEHTGSADQIIKDRYILAIEDPFEISNNVGRTVSSSGLYRIRGEF 326
>pdb|3NYB|A Chain A, Structure And Function Of The Polymerase Core Of Tramp, A
Rna Surveillance Complex
Length = 323
Score = 78.6 bits (192), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 59/191 (30%), Positives = 96/191 (50%), Gaps = 12/191 (6%)
Query: 11 LKDILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDIS 70
+KD + ++P RE+ E R + IS +RE V+ + A + FGS+ ++L+ D+D
Sbjct: 25 IKDFVAYISPSREEIEIRNQTISTIREAVKQL--WPDADLHVFGSYSTDLYLPGSDIDCV 82
Query: 71 IELSNGSCISSAGKKVKQSLLGDLLRALRQKGGYRRLQFVAHARVPILKFETIHQNISCD 130
+ S G K ++ L L L++K ++ VA ARVPI+KF H I
Sbjct: 83 VT-------SELGGKESRNNLYSLASHLKKKNLATEVEVVAKARVPIIKFVEPHSGIHIA 135
Query: 131 ISIDNLCGQIKSKFLF-WISQIDGRFRDMVLLVKEWAKAHDINNPKTGTFNSYSLSLLVL 189
+S + G +K + W+ G R++VL+VK++ A +NN TG +S+ LV
Sbjct: 136 VSFERTNGIEAAKLIREWLDDTPG-LRELVLIVKQFLHARRLNNVHTGGLGGFSIICLV- 193
Query: 190 FHFQTCVPAIL 200
F F P I+
Sbjct: 194 FSFLHMHPRII 204
>pdb|3HJ1|A Chain A, Minor Editosome-Associated Tutase 1 With Bound Utp
pdb|3HJ1|B Chain B, Minor Editosome-Associated Tutase 1 With Bound Utp
Length = 387
Score = 68.9 bits (167), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 52/168 (30%), Positives = 84/168 (50%), Gaps = 6/168 (3%)
Query: 31 VISDLREVVESVESL--RGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQ 88
VI +L++ V + L A VE FGS VS + D DIS+ N S ++V +
Sbjct: 30 VIHELQKRVLDIGMLAVNKAHVELFGSHVSGFCTPHSDADISLTYRNFSPWLQGMERVDE 89
Query: 89 SLLGDLLRALRQKG--GYRRLQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLF 146
+ R ++ G ++++ AR+P+++F I CD+SI N+ G SK L
Sbjct: 90 QNNKRMTRFGKEASAMGMEDVRYI-RARIPVVQFTDGVTGIHCDVSIGNIGGVENSKILC 148
Query: 147 WISQIDGRFRDMVL-LVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQ 193
I Q+ F + LVK W KA ++ P+ TFNS++++ + L Q
Sbjct: 149 AIRQVFPDFYGAYIHLVKAWGKAREVIAPERSTFNSFTVTTMALMVLQ 196
>pdb|3HIY|A Chain A, Minor Editosome-Associated Tutase 1 With Bound Utp And Mg
pdb|3HIY|B Chain B, Minor Editosome-Associated Tutase 1 With Bound Utp And Mg
pdb|3HJ4|A Chain A, Minor Editosome-Associated Tutase 1
pdb|3HJ4|B Chain B, Minor Editosome-Associated Tutase 1
Length = 384
Score = 66.2 bits (160), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 52/168 (30%), Positives = 82/168 (48%), Gaps = 6/168 (3%)
Query: 31 VISDLREVVESVESL--RGATVEPFGSFVSNLFSRWGDLDISIELSNGSCISSAGKKVKQ 88
VI +L++ V + L A VE FGS VS + D DIS+ N S ++V +
Sbjct: 27 VIHELQKRVLDIGXLAVNKAHVELFGSHVSGFCTPHSDADISLTYRNFSPWLQGXERVDE 86
Query: 89 SLLGDLLRALRQKG--GYRRLQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLF 146
R ++ G ++++ AR+P+++F I CD+SI N+ G SK L
Sbjct: 87 QNNKRXTRFGKEASAXGXEDVRYI-RARIPVVQFTDGVTGIHCDVSIGNIGGVENSKILC 145
Query: 147 WISQIDGRFRDMVL-LVKEWAKAHDINNPKTGTFNSYSLSLLVLFHFQ 193
I Q+ F + LVK W KA ++ P+ TFNS++++ L Q
Sbjct: 146 AIRQVFPDFYGAYIHLVKAWGKAREVIAPERSTFNSFTVTTXALXVLQ 193
>pdb|3PQ1|A Chain A, Crystal Structure Of Human Mitochondrial Poly(A)
Polymerase (Papd1)
pdb|3PQ1|B Chain B, Crystal Structure Of Human Mitochondrial Poly(A)
Polymerase (Papd1)
Length = 464
Score = 58.9 bits (141), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 48/184 (26%), Positives = 81/184 (44%), Gaps = 19/184 (10%)
Query: 88 QSLLGDLLRALRQKG-GYRRLQFVAHARVPILKFETIHQNISCDISIDNLCGQIKSKFLF 146
Q +L L L G G +Q + +AR P+++F C ++ +N S+ L+
Sbjct: 230 QKILSVLGECLDHFGPGCVGVQKILNARCPLVRFSHQASGFQCALTTNNRIALTSSELLY 289
Query: 147 WISQIDGRFRDMVLLVKEWAKAHDINNPKTGTF-NSYSLSLLVLFHFQTCVPAILPPLKD 205
+D R R +V V+ WA+AH + + G + ++SL+ V+F Q P ILP L
Sbjct: 290 IYGALDSRVRALVFSVRCWARAHSLTSSIPGAWITNFSLTXXVIFFLQRRSPPILPTL-- 347
Query: 206 IYPGNLVDDLKGVRANAERQIAEI--CAF--NIARFSSDKYRKINRSSLAHLFVSFLEKF 261
D LK + ++ + E C F +++R + N +L L F E F
Sbjct: 348 -------DSLKTLADAEDKCVIEGNNCTFVRDLSRIKPSQ----NTETLELLLKEFFEYF 396
Query: 262 SGLS 265
+
Sbjct: 397 GNFA 400
>pdb|1Q79|A Chain A, Crystal Structure Of Mammalian Poly(A) Polymerase
Length = 514
Score = 38.5 bits (88), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 53/210 (25%), Positives = 91/210 (43%), Gaps = 44/210 (20%)
Query: 14 ILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIEL 73
ILG LN L ++W ++ IS+ + + +SV G + FGS+ + ++ D+D
Sbjct: 64 ILGKLNNLVKEW---IREISESKNLPQSVIENVGGKIFTFGSYRLGVHTKGADID----- 115
Query: 74 SNGSCISSAGKKVKQS-LLGDLLRALRQKGGYRRLQFVAHARVPILK--FETIHQNI--- 127
C+ A + V +S L+ + + L+ V A VP++K F+ I +I
Sbjct: 116 --ALCV--APRHVDRSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLXFDGIEIDILFA 171
Query: 128 --------------------SCDI-SIDNLCG-QIKSKFLFWISQIDGRFRDMVLLVKEW 165
+ DI I +L G ++ + L + ID FR + +K W
Sbjct: 172 RLALQTIPEDLDLRDDSLLKNLDIRXIRSLNGCRVTDEILHLVPNIDN-FRLTLRAIKLW 230
Query: 166 AKAHDINNPKTGTFNSYSLSLLVLFHFQTC 195
AK H+I + G S ++LV +TC
Sbjct: 231 AKRHNIYSNILGFLGGVSWAMLVA---RTC 257
>pdb|1Q78|A Chain A, Crystal Structure Of Poly(A) Polymerase In Complex With
3'- Datp And Magnesium Chloride
Length = 514
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 53/210 (25%), Positives = 91/210 (43%), Gaps = 44/210 (20%)
Query: 14 ILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIEL 73
ILG LN L ++W ++ IS+ + + +SV G + FGS+ + ++ D+D
Sbjct: 64 ILGKLNNLVKEW---IREISESKNLPQSVIENVGGKIFTFGSYRLGVHTKGADID----- 115
Query: 74 SNGSCISSAGKKVKQS-LLGDLLRALRQKGGYRRLQFVAHARVPILK--FETIHQNI--- 127
C+ A + V +S L+ + + L+ V A VP++K F+ I +I
Sbjct: 116 --ALCV--APRHVDRSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFA 171
Query: 128 --------------------SCDI-SIDNLCG-QIKSKFLFWISQIDGRFRDMVLLVKEW 165
+ DI I +L G ++ + L + ID FR + +K W
Sbjct: 172 RLALQTIPEDLDLRDDSLLKNLDIRXIRSLNGCRVTDEILHLVPNIDN-FRLTLRAIKLW 230
Query: 166 AKAHDINNPKTGTFNSYSLSLLVLFHFQTC 195
AK H+I + G S ++LV +TC
Sbjct: 231 AKRHNIYSNILGFLGGVSWAMLVA---RTC 257
>pdb|1F5A|A Chain A, Crystal Structure Of Mammalian Poly(A) Polymerase
Length = 513
Score = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 51/203 (25%), Positives = 87/203 (42%), Gaps = 41/203 (20%)
Query: 14 ILGMLNPLREDWETRMKVISDLREVVESVESLRGATVEPFGSFVSNLFSRWGDLDISIEL 73
ILG LN L ++W ++ IS+ + + +SV G + FGS+ + ++ D+D
Sbjct: 64 ILGKLNNLVKEW---IREISESKNLPQSVIENVGGKIFTFGSYRLGVHTKGADID----- 115
Query: 74 SNGSCISSAGKKVKQS-LLGDLLRALRQKGGYRRLQFVAHARVPILK--FETIHQNI--- 127
C+ A + V +S L+ + + L+ V A VP++K F+ I +I
Sbjct: 116 --ALCV--APRHVDRSDFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFA 171
Query: 128 --------------------SCDI-SIDNLCG-QIKSKFLFWISQIDGRFRDMVLLVKEW 165
+ DI I +L G ++ + L + ID FR + +K W
Sbjct: 172 RLALQTIPEDLDLRDDSLLKNLDIRCIRSLNGCRVTDEILHLVPNIDN-FRLTLRAIKLW 230
Query: 166 AKAHDINNPKTGTFNSYSLSLLV 188
AK H+I + G S + LV
Sbjct: 231 AKRHNIYSNILGFLGGVSWAXLV 253
>pdb|2HAF|A Chain A, Crystal Structure Of A Putative Translation Repressor From
Vibrio Cholerae
Length = 211
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 38/73 (52%), Gaps = 1/73 (1%)
Query: 9 PILKDILGMLNPLREDWETRMKVISDLREVV-ESVESLRGATVEPFGSFVSNLFSRWGDL 67
P+ +D +L+ R+ +E+ MK+ D+ + + ++ G EP G V+ +S W
Sbjct: 92 PVSEDRGFILHRPRDHYESSMKMTDDIAVTTSKDILTVLGTEAEPEGYIVALGYSGWSAG 151
Query: 68 DISIELSNGSCIS 80
+ +EL+ S ++
Sbjct: 152 QLEVELTENSWLT 164
>pdb|1HM2|A Chain A, Active Site Of Chondroitinase Ac Lyase Revealed By The
Structure Of Enzyme-Oligosaccharide Complexes And
Mutagenesis
pdb|1HM3|A Chain A, Active Site Of Chondroitinase Ac Lyase Revealed By The
Structure Of Enzyme-Oligosaccharide Complexes And
Mutagenesis
pdb|1HMU|A Chain A, Active Site Of Chondroitinase Ac Lyase Revealed By The
Structure Of Enzyme-oligosaccharide Complexes And
Mutagenesis
pdb|1HMW|A Chain A, Active Site Of Chondroitinase Ac Lyase Revealed By The
Structure Of Enzyme-oligosaccharide Complexes And
Mutagenesis
Length = 700
Score = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 53/130 (40%), Gaps = 18/130 (13%)
Query: 278 GQWEHI----RSNTRWLPNNHPLFIEDPFEQ--PENSARAVSEKNLAKISNAFEMTHFRL 331
G W+ + + T WLPNNH L +E + ++S +K +IS AF+ +
Sbjct: 61 GSWKDVPYKDDAMTNWLPNNHLLQLETIIQAYIEKDSHYYGDDKVFDQISKAFK---YWY 117
Query: 332 TSTNQTRYALLSSLARP------FILQFFGESPVRYA---NYNNGHRRARPQSHKSVNSP 382
S ++R + +A P IL +G+ P+ A +R P+ N
Sbjct: 118 DSDPKSRNWWHNEIATPQALGEMLILMRYGKKPLDEALVHKLTERMKRGEPEKKTGANKT 177
Query: 383 LQAQHQSHNA 392
A H + A
Sbjct: 178 DIALHYFYRA 187
>pdb|1CB8|A Chain A, Chondroitinase Ac Lyase From Flavobacterium Heparinum
Length = 678
Score = 29.6 bits (65), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 53/130 (40%), Gaps = 18/130 (13%)
Query: 278 GQWEHI----RSNTRWLPNNHPLFIEDPFEQ--PENSARAVSEKNLAKISNAFEMTHFRL 331
G W+ + + T WLPNNH L +E + ++S +K +IS AF+ +
Sbjct: 39 GSWKDVPYKDDAMTNWLPNNHLLQLETIIQAYIEKDSHYYGDDKVFDQISKAFK---YWY 95
Query: 332 TSTNQTRYALLSSLARP------FILQFFGESPVRYA---NYNNGHRRARPQSHKSVNSP 382
S ++R + +A P IL +G+ P+ A +R P+ N
Sbjct: 96 DSDPKSRNWWHNEIATPQALGEMLILMRYGKKPLDEALVHKLTERMKRGEPEKKTGANKT 155
Query: 383 LQAQHQSHNA 392
A H + A
Sbjct: 156 DIALHYFYRA 165
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
0.320 0.135 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,371,724
Number of Sequences: 62578
Number of extensions: 463838
Number of successful extensions: 989
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 959
Number of HSP's gapped (non-prelim): 18
length of query: 445
length of database: 14,973,337
effective HSP length: 102
effective length of query: 343
effective length of database: 8,590,381
effective search space: 2946500683
effective search space used: 2946500683
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)