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= 017163
(376 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2V8Q|E Chain E, Crystal Structure Of The Regulatory Fragment Of Mammalian
Ampk In Complexes With Amp
pdb|2V92|E Chain E, Crystal Structure Of The Regulatory Fragment Of Mammalian
Ampk In Complexes With Atp-Amp
pdb|2V9J|E Chain E, Crystal Structure Of The Regulatory Fragment Of Mammalian
Ampk In Complexes With Mg.Atp-Amp
pdb|2Y8L|E Chain E, Structure Of The Regulatory Fragment Of Mammalian Ampk In
Complex With Two Adp
pdb|2Y8Q|E Chain E, Structure Of The Regulatory Fragment Of Mammalian Ampk In
Complex With One Adp
pdb|2Y94|E Chain E, Structure Of An Active Form Of Mammalian Ampk
pdb|2YA3|E Chain E, Structure Of The Regulatory Fragment Of Mammalian Ampk In
Complex With Coumarin Adp
pdb|4EAG|C Chain C, Co-Crystal Structure Of An Chimeric Ampk Core With Atp
pdb|4EAI|C Chain C, Co-Crystal Structure Of An Ampk Core With Amp
pdb|4EAJ|C Chain C, Co-Crystal Of Ampk Core With Amp Soaked With Atp
pdb|4EAK|C Chain C, Co-Crystal Structure Of An Ampk Core With Atp
pdb|4EAL|C Chain C, Co-Crystal Of Ampk Core With Atp Soaked With Amp
Length = 330
Score = 142 bits (357), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 106/334 (31%), Positives = 166/334 (49%), Gaps = 41/334 (12%)
Query: 42 SSFLSTHTVYELLPDSGKVTALDVNLAVKQAFHVLYEQGLPMVPLWDDFKGRFVGVLSAL 101
++F+ +H Y+L+P S K+ D +L VK+AF L G+ PLWD K FVG+L+
Sbjct: 29 TTFMKSHRCYDLIPTSSKLVVFDTSLQVKKAFFALVTNGVRAAPLWDSKKQSFVGMLTIT 88
Query: 102 DFILILRELGTNGSNLTE-EELETHTISAWKVGKLQLNLKRQMDGNGRPCPRPLVQAGPY 160
DFI IL S L + ELE H I W+ LQ + K PLV P
Sbjct: 89 DFINILHRY--YKSALVQIYELEEHKIETWREVYLQDSFK------------PLVCISPN 134
Query: 161 DSLKEVALKILQNKVATVPIIHSTGPAGSCQEILYLASLSDILKCICRHFKHSSSSLPIL 220
SL + +++NK+ +P+I +G+ IL + LK F +
Sbjct: 135 ASLFDAVSSLIRNKIHRLPVI--DPESGNTLYILTHKRILKFLKLFITEFPKPE----FM 188
Query: 221 QQPVSSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDI 280
+ + +Q+GT+ AN AM+R T + AL + VQ VS++P+VD+ ++DI
Sbjct: 189 SKSLEELQIGTY------AN---IAMVRTTTPVYVALGIFVQHRVSALPVVDEKGRVVDI 239
Query: 281 YSRSDITALAKDKAYAQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVME 340
YS+ D+ LA +K Y + ++++ +ALQ + S F G C + L ++
Sbjct: 240 YSKFDVINLAAEKTYNNL---DVSVTKALQ-----HRSHYFEG--VLKCYLHETLEAIIN 289
Query: 341 RLANPGVRRLVIVEAGSKRVEGIISLSDVFRFLL 374
RL V RLV+V+ V+GI+SLSD+ + L+
Sbjct: 290 RLVEAEVHRLVVVDEHD-VVKGIVSLSDILQALV 322
>pdb|2QR1|G Chain G, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp
pdb|2QR1|E Chain E, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp
pdb|2QRC|G Chain G, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp And Amp
pdb|2QRC|E Chain E, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp And Amp
pdb|2QRD|G Chain G, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp And Atp
pdb|2QRD|E Chain E, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With Adp And Atp
pdb|2QRE|G Chain G, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With
5-Aminoimidazole-4-Carboxamide 1-Beta-D- Ribofuranotide
(Zmp)
pdb|2QRE|E Chain E, Crystal Structure Of The Adenylate Sensor From
Amp-Activated Protein Kinase In Complex With
5-Aminoimidazole-4-Carboxamide 1-Beta-D- Ribofuranotide
(Zmp)
Length = 334
Score = 108 bits (270), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 83/334 (24%), Positives = 164/334 (49%), Gaps = 34/334 (10%)
Query: 41 ISSFLSTHTVYELLPDSGKVTALDVNLAVKQAFHVLYEQGLPMVPLWDDFKGRFVGVLSA 100
I +F+ + T Y++LP S ++ DV L VK + +L + PLWD +F G+L+
Sbjct: 15 IQAFIRSRTSYDVLPTSFRLIVFDVTLFVKTSLSLLTLNNIVSAPLWDSEANKFAGLLTM 74
Query: 101 LDFILILRELGTNGSNLTEEELETHTISAWKVGKLQLNLKRQMDGNGRPCPRPLVQAGPY 160
DF+ +++ S+ E E + K +L R+++ P + P
Sbjct: 75 ADFVNVIKYY-YQSSSFPEAIAE--------IDKFRLLGLREVERKIGAIPPETIYVHPM 125
Query: 161 DSLKEVALKILQNKVATVPIIHSTGPAGSCQEILYLASLSDILKCICRHFKHSSSSLPIL 220
SL + L + +++ +P+I G GS + I+ + + ILK I + K ++ +L
Sbjct: 126 HSLMDACLAMSKSRARRIPLIDVDGETGS-EMIVSVLTQYRILKFISMNCKETA----ML 180
Query: 221 QQPVSSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDI 280
+ P++ + +GTW A + + +L + ++S++PIV+ +LL++
Sbjct: 181 RVPLNQMTIGTW---------SNLATASMETKVYDVIKMLAEKNISAVPIVNSEGTLLNV 231
Query: 281 YSRSDITALAKDKAYAQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVME 340
Y D+ L +D Y+ + ++++ +AL L + AN F+G C +D L + +
Sbjct: 232 YESVDVMHLIQDGDYSNL---DLSVGEAL-LKRPAN----FDG--VHTCRATDRLDGIFD 281
Query: 341 RLANPGVRRLVIVEAGSKRVEGIISLSDVFRFLL 374
+ + V RL +V+ K +EGI+SL+D+ +++
Sbjct: 282 AIKHSRVHRLFVVDENLK-LEGILSLADILNYII 314
>pdb|2OOX|G Chain G, Crystal Structure Of The Adenylate Sensor From
Amp-activated Protein Kinase Complexed With Amp
pdb|2OOX|E Chain E, Crystal Structure Of The Adenylate Sensor From
Amp-activated Protein Kinase Complexed With Amp
pdb|2OOY|G Chain G, Crystal Structure Of The Adenylate Sensor From Amp-
Activated Protein Kinase Complexed With Atp
pdb|2OOY|E Chain E, Crystal Structure Of The Adenylate Sensor From Amp-
Activated Protein Kinase Complexed With Atp
Length = 333
Score = 108 bits (270), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 83/334 (24%), Positives = 164/334 (49%), Gaps = 34/334 (10%)
Query: 41 ISSFLSTHTVYELLPDSGKVTALDVNLAVKQAFHVLYEQGLPMVPLWDDFKGRFVGVLSA 100
I +F+ + T Y++LP S ++ DV L VK + +L + PLWD +F G+L+
Sbjct: 14 IQAFIRSRTSYDVLPTSFRLIVFDVTLFVKTSLSLLTLNNIVSAPLWDSEANKFAGLLTM 73
Query: 101 LDFILILRELGTNGSNLTEEELETHTISAWKVGKLQLNLKRQMDGNGRPCPRPLVQAGPY 160
DF+ +++ S+ E E + K +L R+++ P + P
Sbjct: 74 ADFVNVIKYY-YQSSSFPEAIAE--------IDKFRLLGLREVERKIGAIPPETIYVHPM 124
Query: 161 DSLKEVALKILQNKVATVPIIHSTGPAGSCQEILYLASLSDILKCICRHFKHSSSSLPIL 220
SL + L + +++ +P+I G GS + I+ + + ILK I + K ++ +L
Sbjct: 125 HSLMDACLAMSKSRARRIPLIDVDGETGS-EMIVSVLTQYRILKFISMNCKETA----ML 179
Query: 221 QQPVSSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDI 280
+ P++ + +GTW A + + +L + ++S++PIV+ +LL++
Sbjct: 180 RVPLNQMTIGTW---------SNLATASMETKVYDVIKMLAEKNISAVPIVNSEGTLLNV 230
Query: 281 YSRSDITALAKDKAYAQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVME 340
Y D+ L +D Y+ + ++++ +AL L + AN F+G C +D L + +
Sbjct: 231 YESVDVMHLIQDGDYSNL---DLSVGEAL-LKRPAN----FDG--VHTCRATDRLDGIFD 280
Query: 341 RLANPGVRRLVIVEAGSKRVEGIISLSDVFRFLL 374
+ + V RL +V+ K +EGI+SL+D+ +++
Sbjct: 281 AIKHSRVHRLFVVDENLK-LEGILSLADILNYII 313
>pdb|3T4N|C Chain C, Structure Of The Regulatory Fragment Of Saccharomyces
Cerevisiae Ampk In Complex With Adp
pdb|3TDH|C Chain C, Structure Of The Regulatory Fragment Of Sccharomyces
Cerevisiae Ampk In Complex With Amp
pdb|3TE5|C Chain C, Structure Of The Regulatory Fragment Of Sacchromyces
Cerevisiae Ampk In Complex With Nadh
Length = 323
Score = 106 bits (264), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 95/354 (26%), Positives = 167/354 (47%), Gaps = 65/354 (18%)
Query: 35 QLSRDRISSFLSTHTVYELLPDSGKVTALDVNLAVKQAFHVLYEQGLPMVPLWDDFKGRF 94
QL+ + I FL++ T Y++LP S ++ LD +L VK++ +VL + + PLWD RF
Sbjct: 17 QLAVESIRKFLNSKTSYDVLPVSYRLIVLDTSLLVKKSLNVLLQNSIVSAPLWDSKTSRF 76
Query: 95 VGVLSALDFILILRELGTNGSNLTEEELETHTISAWKVGKLQL----NLKR-----QMDG 145
G+L+ DFI +++ +N EL V KLQL +++R Q+D
Sbjct: 77 AGLLTTTDFINVIQYYFSNPDKF---EL---------VDKLQLDGLKDIERALGVDQLDT 124
Query: 146 NGRPCPRPLVQAGPYDSLKEVALKILQNKVATVPIIHSTGPAGSCQEILYLASLSDILKC 205
RPL +A LK+L+++ +P+I + ++ + + ILK
Sbjct: 125 ASIHPSRPLFEA---------CLKMLESRSGRIPLIDQDEETHR-EIVVSVLTQYRILKF 174
Query: 206 I---CR--HFKHSSSSLPILQQPVSSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALL 260
+ CR HF L+ P+ + + I + N + M P + + +L
Sbjct: 175 VALNCRETHF---------LKIPIGDLNI------ITQDNMKSCQMTTPVIDV---IQML 216
Query: 261 VQADVSSIPIVDDNDSLLDIYSRSDITALAKDKAYAQIHLDEMNIHQALQLGQDANPSLG 320
Q VSS+PI+D+N L+++Y D+ L K Y + L ++ +AL D
Sbjct: 217 TQGRVSSVPIIDENGYLINVYEAYDVLGLIKGGIYNDLSL---SVGEALMRRSD-----D 268
Query: 321 FNGQRCQMCLRSDPLHKVMERLANPGVRRLVIVEAGSKRVEGIISLSDVFRFLL 374
F G C ++D L +M+ + V R +V+ R+ G+++LSD+ +++L
Sbjct: 269 FEG--VYTCTKNDKLSTIMDNIRKARVHRFFVVD-DVGRLVGVLTLSDILKYIL 319
>pdb|2QLV|C Chain C, Crystal Structure Of The Heterotrimer Core Of The S.
Cerevisiae Ampk Homolog Snf1
pdb|2QLV|F Chain F, Crystal Structure Of The Heterotrimer Core Of The S.
Cerevisiae Ampk Homolog Snf1
Length = 315
Score = 106 bits (264), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 95/354 (26%), Positives = 167/354 (47%), Gaps = 65/354 (18%)
Query: 35 QLSRDRISSFLSTHTVYELLPDSGKVTALDVNLAVKQAFHVLYEQGLPMVPLWDDFKGRF 94
QL+ + I FL++ T Y++LP S ++ LD +L VK++ +VL + + PLWD RF
Sbjct: 10 QLAVESIRKFLNSKTSYDVLPVSYRLIVLDTSLLVKKSLNVLLQNSIVSAPLWDSKTSRF 69
Query: 95 VGVLSALDFILILRELGTNGSNLTEEELETHTISAWKVGKLQL----NLKR-----QMDG 145
G+L+ DFI +++ +N EL V KLQL +++R Q+D
Sbjct: 70 AGLLTTTDFINVIQYYFSNPDKF---EL---------VDKLQLDGLKDIERALGVDQLDT 117
Query: 146 NGRPCPRPLVQAGPYDSLKEVALKILQNKVATVPIIHSTGPAGSCQEILYLASLSDILKC 205
RPL +A LK+L+++ +P+I + ++ + + ILK
Sbjct: 118 ASIHPSRPLFEA---------CLKMLESRSGRIPLIDQDEETHR-EIVVSVLTQYRILKF 167
Query: 206 I---CR--HFKHSSSSLPILQQPVSSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALL 260
+ CR HF L+ P+ + + I + N + M P + + +L
Sbjct: 168 VALNCRETHF---------LKIPIGDLNI------ITQDNMKSCQMTTPVIDV---IQML 209
Query: 261 VQADVSSIPIVDDNDSLLDIYSRSDITALAKDKAYAQIHLDEMNIHQALQLGQDANPSLG 320
Q VSS+PI+D+N L+++Y D+ L K Y + L ++ +AL D
Sbjct: 210 TQGRVSSVPIIDENGYLINVYEAYDVLGLIKGGIYNDLSL---SVGEALMRRSD-----D 261
Query: 321 FNGQRCQMCLRSDPLHKVMERLANPGVRRLVIVEAGSKRVEGIISLSDVFRFLL 374
F G C ++D L +M+ + V R +V+ R+ G+++LSD+ +++L
Sbjct: 262 FEG--VYTCTKNDKLSTIMDNIRKARVHRFFVVD-DVGRLVGVLTLSDILKYIL 312
>pdb|2UV4|A Chain A, Crystal Structure Of A Cbs Domain Pair From The Regulatory
Gamma1 Subunit Of Human Ampk In Complex With Amp
pdb|2UV5|A Chain A, Crystal Structure Of A Cbs Domain Pair From The Regulatory
Gamma1 Subunit Of Human Ampk In Complex With Amp
Length = 152
Score = 73.9 bits (180), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 50/155 (32%), Positives = 85/155 (54%), Gaps = 20/155 (12%)
Query: 220 LQQPVSSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLD 279
+ + + +Q+GT+ AN AM+R T + AL + VQ VS++P+VD+ ++D
Sbjct: 16 MSKSLEELQIGTY------AN---IAMVRTTTPVYVALGIFVQHRVSALPVVDEKGRVVD 66
Query: 280 IYSRSDITALAKDKAYAQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVM 339
IYS+ D+ LA +K Y + ++++ +ALQ + S F G C + L ++
Sbjct: 67 IYSKFDVINLAAEKTYNNL---DVSVTKALQ-----HRSHYFEG--VLKCYLHETLETII 116
Query: 340 ERLANPGVRRLVIVEAGSKRVEGIISLSDVFRFLL 374
RL V RLV+V+ V+GI+SLSD+ + L+
Sbjct: 117 NRLVEAEVHRLVVVDENDV-VKGIVSLSDILQALV 150
>pdb|2UV6|A Chain A, Crystal Structure Of A Cbs Domain Pair From The Regulatory
Gamma1 Subunit Of Human Ampk In Complex With Amp
Length = 152
Score = 72.0 bits (175), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 49/155 (31%), Positives = 85/155 (54%), Gaps = 20/155 (12%)
Query: 220 LQQPVSSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLD 279
+ + + +Q+GT+ AN AM+R T + AL + VQ VS++P+VD+ ++D
Sbjct: 16 MSKSLEELQIGTY------AN---IAMVRTTTPVYVALGIFVQHRVSALPVVDEKGRVVD 66
Query: 280 IYSRSDITALAKDKAYAQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVM 339
IYS+ D+ LA +K Y + ++++ +ALQ + S F G C + L ++
Sbjct: 67 IYSKFDVINLAAEKTYNNL---DVSVTKALQ-----HRSHYFEG--VLKCYLHETLETII 116
Query: 340 ERLANPGVRRLVIVEAGSKRVEGIISLSDVFRFLL 374
RL V +LV+V+ V+GI+SLSD+ + L+
Sbjct: 117 NRLVEAEVHQLVVVDENDV-VKGIVSLSDILQALV 150
>pdb|2UV7|A Chain A, Crystal Structure Of A Cbs Domain Pair From The Regulatory
Gamma1 Subunit Of Human Ampk In Complex With Amp
Length = 152
Score = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 49/155 (31%), Positives = 84/155 (54%), Gaps = 20/155 (12%)
Query: 220 LQQPVSSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLD 279
+ + + +Q+GT+ AN AM+R T + AL + VQ VS++P+VD+ ++D
Sbjct: 16 MSKSLEELQIGTY------AN---IAMVRTTTPVYVALGIFVQHRVSALPVVDEKGRVVD 66
Query: 280 IYSRSDITALAKDKAYAQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVM 339
IYS+ D+ LA +K Y + ++++ +ALQ + S F G C + L ++
Sbjct: 67 IYSKFDVINLAAEKTYNNL---DVSVTKALQ-----HRSHYFEG--VLKCYLHETLETII 116
Query: 340 ERLANPGVRRLVIVEAGSKRVEGIISLSDVFRFLL 374
RL V LV+V+ V+GI+SLSD+ + L+
Sbjct: 117 NRLVEAEVHGLVVVDENDV-VKGIVSLSDILQALV 150
>pdb|2NYC|A Chain A, Crystal Structure Of The Bateman2 Domain Of Yeast Snf4
Length = 144
Score = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 69/139 (49%), Gaps = 14/139 (10%)
Query: 236 IGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDITALAKDKAY 295
I + N + M P + + +L Q VSS+PI+D+N L+++Y D+ L K Y
Sbjct: 16 ITQDNMKSCQMTTPVIDV---IQMLTQGRVSSVPIIDENGYLINVYEAYDVLGLIKGGIY 72
Query: 296 AQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVMERLANPGVRRLVIVEA 355
+ L ++ +AL D F G C ++D L +M+ + V R +V+
Sbjct: 73 NDLSL---SVGEALMRRSDD-----FEG--VYTCTKNDKLSTIMDNIRKARVHRFFVVDD 122
Query: 356 GSKRVEGIISLSDVFRFLL 374
R+ G+++LSD+ +++L
Sbjct: 123 -VGRLVGVLTLSDILKYIL 140
>pdb|2NYE|A Chain A, Crystal Structure Of The Bateman2 Domain Of Yeast Snf4
pdb|2NYE|B Chain B, Crystal Structure Of The Bateman2 Domain Of Yeast Snf4
Length = 144
Score = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 33/119 (27%), Positives = 60/119 (50%), Gaps = 11/119 (9%)
Query: 256 ALALLVQADVSSIPIVDDNDSLLDIYSRSDITALAKDKAYAQIHLDEMNIHQALQLGQDA 315
+ L Q VSS+PI+D+N L+++Y D+ L K Y + L ++ +AL D
Sbjct: 33 VIQXLTQGRVSSVPIIDENGYLINVYEAYDVLGLIKGGIYNDLSL---SVGEALXRRSDD 89
Query: 316 NPSLGFNGQRCQMCLRSDPLHKVMERLANPGVRRLVIVEAGSKRVEGIISLSDVFRFLL 374
F G C ++D L + + + V R +V+ R+ G+++LSD+ +++L
Sbjct: 90 -----FEG--VYTCTKNDKLSTIXDNIRKARVHRFFVVDD-VGRLVGVLTLSDILKYIL 140
>pdb|3FHM|A Chain A, Crystal Structure Of The Cbs-Domain Containing Protein
Atu1752 From Agrobacterium Tumefaciens
pdb|3FHM|B Chain B, Crystal Structure Of The Cbs-Domain Containing Protein
Atu1752 From Agrobacterium Tumefaciens
pdb|3FHM|C Chain C, Crystal Structure Of The Cbs-Domain Containing Protein
Atu1752 From Agrobacterium Tumefaciens
pdb|3FHM|D Chain D, Crystal Structure Of The Cbs-Domain Containing Protein
Atu1752 From Agrobacterium Tumefaciens
Length = 165
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 39/147 (26%), Positives = 65/147 (44%), Gaps = 18/147 (12%)
Query: 229 LGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDITA 288
+ T+V + + GR + P S+G A L + ++ + D + +L I++ D+
Sbjct: 22 MATFVKDLLDRKGRDVVTVGPDVSIGEAAGTLHAHKIGAVVVTDADGVVLGIFTERDLV- 80
Query: 289 LAKDKAYAQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVMERLANPGVR 348
KA A A L Q + ++ N RCQ +D L ++M G
Sbjct: 81 ----KAVAG--------QGAASLQQSVSVAMTKNVVRCQHNSTTDQLMEIM----TGGRF 124
Query: 349 RLVIVEAGSKRVEGIISLSDVFRFLLG 375
R V VE + R+ GIIS+ DV + +G
Sbjct: 125 RHVPVEE-NGRLAGIISIGDVVKARIG 150
>pdb|3SL7|A Chain A, Crystal Structure Of Cbs-Pair Protein, Cbsx2 From
Arabidopsis Thaliana
pdb|3SL7|B Chain B, Crystal Structure Of Cbs-Pair Protein, Cbsx2 From
Arabidopsis Thaliana
Length = 180
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 31/44 (70%)
Query: 246 MLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDITAL 289
+++P+ S+ AL LLV+ V+ +P++DDN +L+ + S D+ AL
Sbjct: 18 VVKPSTSVDDALELLVEKKVTGLPVIDDNWTLVGVVSDYDLLAL 61
>pdb|3ZF7|XX Chain x, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 276
Score = 36.6 bits (83), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 26/116 (22%), Positives = 53/116 (45%), Gaps = 1/116 (0%)
Query: 169 KILQNKVATVPIIHSTGPAGSCQEILYLASLSDILKCICRHFKHSSSSLPILQQPVSSIQ 228
K ++++ V P G+ L +S L+ + R + ++ L ++ V I+
Sbjct: 116 KARRDRLTKVAEEKKKNPKGTVSTKAPLCVVSG-LQEVTRTIEKKTARLVLIANNVDPIE 174
Query: 229 LGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRS 284
L W+P + AN P+A+++ A LG A+ V+ + ++ + L +RS
Sbjct: 175 LVLWMPTLCRANKIPYAIVKDKARLGDAIGRKTATCVAFTDVNAEDQAALKNLTRS 230
>pdb|4GQV|A Chain A, Crystal Structure Of Cbs-pair Protein, Cbsx1 From
Arabidopsis Thaliana
Length = 166
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 230 GTWVPRIGE--ANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDIT 287
G+ V +GE +++PT ++ AL LLV+ ++ P++D++ L+ + S D+
Sbjct: 1 GSGVYTVGEFMTKKEDLHVVKPTTTVDEALELLVENRITGFPVIDEDWKLVGLVSDYDLL 60
Query: 288 AL 289
AL
Sbjct: 61 AL 62
>pdb|4GQW|A Chain A, Crystal Structure Of Cbs-pair Protein, Cbsx1 (loop
Deletion) From Arabidopsis Thaliana
Length = 152
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 230 GTWVPRIGE--ANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDIT 287
G+ V +GE +++PT ++ AL LLV+ ++ P++D++ L+ + S D+
Sbjct: 1 GSGVYTVGEFMTKKEDLHVVKPTTTVDEALELLVENRITGFPVIDEDWKLVGLVSDYDLL 60
Query: 288 AL 289
AL
Sbjct: 61 AL 62
>pdb|3L2B|A Chain A, Crystal Structure Of The Cbs And Drtgg Domains Of The
Regulatory Region Of Clostridium Perfringens
Pyrophosphatase Complexed With Activator, Diadenosine
Tetraphosphate
pdb|3L2B|B Chain B, Crystal Structure Of The Cbs And Drtgg Domains Of The
Regulatory Region Of Clostridium Perfringens
Pyrophosphatase Complexed With Activator, Diadenosine
Tetraphosphate
Length = 245
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 27/49 (55%)
Query: 244 FAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDITALAKD 292
A L P SL A ++ ++ SIP+ D N+ LL + S S+ITA D
Sbjct: 17 IAPLAPEVSLKMAWNIMRDKNLKSIPVADGNNHLLGMLSTSNITATYMD 65
>pdb|3L31|A Chain A, Crystal Structure Of The Cbs And Drtgg Domains Of The
Regulatory Region Of Clostridium Perfringens
Pyrophosphatase Complexed With The Inhibitor, Amp
pdb|3L31|B Chain B, Crystal Structure Of The Cbs And Drtgg Domains Of The
Regulatory Region Of Clostridium Perfringens
Pyrophosphatase Complexed With The Inhibitor, Amp
Length = 252
Score = 32.7 bits (73), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 27/49 (55%)
Query: 244 FAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDITALAKD 292
A L P SL A ++ ++ SIP+ D N+ LL + S S+ITA D
Sbjct: 14 IAPLAPEVSLKMAWNIMRDKNLKSIPVADGNNHLLGMLSTSNITATYMD 62
>pdb|4EIP|A Chain A, Native And K252c Bound Rebc-10x
pdb|4EIP|B Chain B, Native And K252c Bound Rebc-10x
pdb|4EIQ|A Chain A, Chromopyrrolic Acid-Soaked Rebc-10x With Bound
7-Carboxy-K252c
pdb|4EIQ|B Chain B, Chromopyrrolic Acid-Soaked Rebc-10x With Bound
7-Carboxy-K252c
Length = 549
Score = 31.6 bits (70), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 29/79 (36%), Gaps = 5/79 (6%)
Query: 179 PIIHSTGPAG-----SCQEILYLASLSDILKCICRHFKHSSSSLPILQQPVSSIQLGTWV 233
P +H GP G + E L + HF H+ S + +P + + G W
Sbjct: 388 PGLHDDGPRGERIRAAVAEKLERSGARREFDAPGIHFGHTYRSSIVCGEPETEVATGGWR 447
Query: 234 PRIGEANGRPFAMLRPTAS 252
P P A L PT S
Sbjct: 448 PSARPGARAPHAWLTPTTS 466
>pdb|2R0C|A Chain A, Structure Of The Substrate-Free Form Of The Rebeccamycin
Biosynthetic Enzyme Rebc
pdb|2R0G|A Chain A, Chromopyrrolic Acid-Soaked Rebc With Bound 7-Carboxy-K252c
pdb|2R0G|B Chain B, Chromopyrrolic Acid-Soaked Rebc With Bound 7-Carboxy-K252c
pdb|2R0P|A Chain A, K252c-Soaked Rebc
pdb|3EPT|A Chain A, Structure Of The Rebeccamycin Biosynthetic Enzyme Rebc
With Reduced Flavin
pdb|3EPT|B Chain B, Structure Of The Rebeccamycin Biosynthetic Enzyme Rebc
With Reduced Flavin
Length = 549
Score = 31.6 bits (70), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 29/79 (36%), Gaps = 5/79 (6%)
Query: 179 PIIHSTGPAG-----SCQEILYLASLSDILKCICRHFKHSSSSLPILQQPVSSIQLGTWV 233
P +H GP G + E L + HF H+ S + +P + + G W
Sbjct: 388 PGLHDDGPRGERIRAAVAEKLERSGARREFDAPGIHFGHTYRSSIVCGEPETEVATGGWR 447
Query: 234 PRIGEANGRPFAMLRPTAS 252
P P A L PT S
Sbjct: 448 PSARPGARAPHAWLTPTTS 466
>pdb|2YZQ|A Chain A, Crystal Structure Of Uncharacterized Conserved Protein
From Pyrococcus Horikoshii
Length = 282
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 33/135 (24%), Positives = 61/135 (45%), Gaps = 20/135 (14%)
Query: 80 GLPMVPLWDDFKGRFVGVLSALDF------ILILRELGTNGSNLTEEELETHTISAWKVG 133
LP+V D +G VG++ D + I++ S+ E LE+H ++
Sbjct: 159 ALPVV----DSEGNLVGIVDETDLLRDSEIVRIMKSTELAASSEEEWILESHPTLLFEKF 214
Query: 134 KLQLNLKRQMDGNGRPCPRPLVQAGPYDSLKEVALKILQNKVATVPIIHSTGPAGSCQEI 193
+LQL K R ++ A P+ ++ EVALK+ + + +P+I G ++
Sbjct: 215 ELQLPNK----PVAEIMTRDVIVATPHMTVHEVALKMAKYSIEQLPVIRGEG------DL 264
Query: 194 LYLASLSDILKCICR 208
+ L D+LK + +
Sbjct: 265 IGLIRDFDLLKVLVK 279
>pdb|3KH5|A Chain A, Crystal Structure Of Protein Mj1225 From
Methanocaldococcus Jannaschii, A Putative Archaeal
Homolog Of G-Ampk.
pdb|3LFZ|A Chain A, Crystal Structure Of Protein Mj1225 From
Methanocaldococcus Jannaschii, A Putative Archaeal
Homolog Of G-Ampk
Length = 280
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 51/113 (45%), Gaps = 19/113 (16%)
Query: 69 VKQAFHVLYEQGLPMVPLWDDFKGRFVGVLSALDFILILRELGTNGSNLTEEELETHTIS 128
+K + G +P+ + GR VG++++ DFI +L GS+ ++T +
Sbjct: 167 LKDVARTMVRNGFRRLPVVSE--GRLVGIITSTDFIKLL------GSDWAFNHMQTGNVR 218
Query: 129 AWKVGKLQLNLKRQMDGNGRPCPRPLVQAGPYDSLKEVALKILQNKVATVPII 181
+++ +KR ++ A D LK++A ++ N + +P++
Sbjct: 219 EITNVRMEEIMKRD-----------VITAKEGDKLKKIAEIMVTNDIGALPVV 260
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 28/139 (20%), Positives = 59/139 (42%), Gaps = 19/139 (13%)
Query: 150 CPRPLVQAGPYDSLKEVALKILQNKVATVPIIHSTGPAGSCQEILYLASLSDILKCICRH 209
R ++ A P + LK+VA +++N +P++ G + + +D +K +
Sbjct: 154 ITRDVIVATPGERLKDVARTMVRNGFRRLPVVSEGRLVG-------IITSTDFIKLLGSD 206
Query: 210 --FKHSSSSLPILQQPVSSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSS 267
F H + +++ T V R+ E R + L ++V D+ +
Sbjct: 207 WAFNHMQTG---------NVREITNV-RMEEIMKRDVITAKEGDKLKKIAEIMVTNDIGA 256
Query: 268 IPIVDDNDSLLDIYSRSDI 286
+P+VD+N + I + D+
Sbjct: 257 LPVVDENLRIKGIITEKDV 275
Score = 28.1 bits (61), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 19/28 (67%)
Query: 348 RRLVIVEAGSKRVEGIISLSDVFRFLLG 375
RRL +V AG+ +V GII+ D+ F+ G
Sbjct: 36 RRLPVVNAGNNKVVGIITSMDIVDFMGG 63
>pdb|2EF7|A Chain A, Crystal Structure Of St2348, A Hypothetical Protein With
Cbs Domains From Sulfolobus Tokodaii Strain7
pdb|2EF7|B Chain B, Crystal Structure Of St2348, A Hypothetical Protein With
Cbs Domains From Sulfolobus Tokodaii Strain7
Length = 133
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 32/107 (29%), Positives = 45/107 (42%), Gaps = 13/107 (12%)
Query: 197 ASLSDILKCICRHFKHSSSSLPIL-QQPVSSIQLGTWVPRIG-----EANGRPFAM---- 246
A L+DI K K+ S + + +PV I V IG E F
Sbjct: 21 AKLNDIAKVXTE--KNIGSVIVVDGNKPVGIITERDIVKAIGKGKSLETKAEEFXTASLI 78
Query: 247 -LRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDITALAKD 292
+R + + ALAL Q ++ +P+VDD +L I S DIT D
Sbjct: 79 TIREDSPITGALALXRQFNIRHLPVVDDKGNLKGIISIRDITRAIDD 125
>pdb|3KPB|A Chain A, Crystal Structure Of The Cbs Domain Pair Of Protein Mj0100
In Complex With 5 -Methylthioadenosine And S-Adenosyl-L-
Methionine.
pdb|3KPB|C Chain C, Crystal Structure Of The Cbs Domain Pair Of Protein Mj0100
In Complex With 5 -Methylthioadenosine And S-Adenosyl-L-
Methionine.
pdb|3KPB|B Chain B, Crystal Structure Of The Cbs Domain Pair Of Protein Mj0100
In Complex With 5 -Methylthioadenosine And S-Adenosyl-L-
Methionine.
pdb|3KPB|D Chain D, Crystal Structure Of The Cbs Domain Pair Of Protein Mj0100
In Complex With 5 -Methylthioadenosine And S-Adenosyl-L-
Methionine.
pdb|3KPD|A Chain A, Crystal Structure Of The Cbs Domain Pair Of Protein Mj0100
In Complex With 5 -Methylthioadenosine And S-Adenosyl-L-
Methionine.
pdb|3KPD|B Chain B, Crystal Structure Of The Cbs Domain Pair Of Protein Mj0100
In Complex With 5 -Methylthioadenosine And S-Adenosyl-L-
Methionine.
pdb|3KPD|C Chain C, Crystal Structure Of The Cbs Domain Pair Of Protein Mj0100
In Complex With 5 -Methylthioadenosine And S-Adenosyl-L-
Methionine.
pdb|3KPD|D Chain D, Crystal Structure Of The Cbs Domain Pair Of Protein Mj0100
In Complex With 5 -Methylthioadenosine And S-Adenosyl-L-
Methionine
Length = 122
Score = 30.0 bits (66), Expect = 2.4, Method: Composition-based stats.
Identities = 27/125 (21%), Positives = 59/125 (47%), Gaps = 24/125 (19%)
Query: 252 SLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDIT-ALAKDKAYAQIHLDEMNIHQALQ 310
S+ A +L++ +++ +PIVD++ L+ I + DI ALA++K ++E+ +
Sbjct: 19 SIMEAAKILIKHNINHLPIVDEHGKLVGIITSWDIAKALAQNKKT----IEEIMTRNVIT 74
Query: 311 LGQDANPSLGFNGQRCQMCLRSDPLHKVMERLANPGVRRLVIVEAGSKRVEGIISLSDVF 370
+D +P+ V +++ + + +V+ +RV GI++ D+
Sbjct: 75 AHED------------------EPVDHVAIKMSKYNISGVPVVD-DYRRVVGIVTSEDIS 115
Query: 371 RFLLG 375
R G
Sbjct: 116 RLFGG 120
>pdb|3KPC|A Chain A, Crystal Structure Of The Cbs Domain Pair Of Protein Mj0100
In Complex With 5 -Methylthioadenosine And S-Adenosyl-L-
Methionine
Length = 124
Score = 29.6 bits (65), Expect = 2.8, Method: Composition-based stats.
Identities = 27/125 (21%), Positives = 59/125 (47%), Gaps = 24/125 (19%)
Query: 252 SLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDIT-ALAKDKAYAQIHLDEMNIHQALQ 310
S+ A +L++ +++ +PIVD++ L+ I + DI ALA++K ++E+ +
Sbjct: 21 SIMEAAKILIKHNINHLPIVDEHGKLVGIITSWDIAKALAQNKKT----IEEIMTRNVIT 76
Query: 311 LGQDANPSLGFNGQRCQMCLRSDPLHKVMERLANPGVRRLVIVEAGSKRVEGIISLSDVF 370
+D +P+ V +++ + + +V+ +RV GI++ D+
Sbjct: 77 AHED------------------EPVDHVAIKMSKYNISGVPVVD-DYRRVVGIVTSEDIS 117
Query: 371 RFLLG 375
R G
Sbjct: 118 RLFGG 122
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 16/31 (51%), Positives = 20/31 (64%), Gaps = 2/31 (6%)
Query: 277 LLDIYSRSDITALAKDKAYAQIHLDEMNIHQ 307
+ D YS SD+TALAKD A I E+N+ Q
Sbjct: 220 ITDGYSGSDLTALAKDAALEPIR--ELNVEQ 248
>pdb|4A17|F Chain F, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 2.
pdb|4A1A|F Chain F, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 3.
pdb|4A1C|F Chain F, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 4.
pdb|4A1E|F Chain F, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 1
Length = 255
Score = 28.9 bits (63), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 17/80 (21%), Positives = 38/80 (47%)
Query: 203 LKCICRHFKHSSSSLPILQQPVSSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALLVQ 262
L I ++ + L ++ V I+L ++P++ N PFA ++ A+LG +
Sbjct: 129 LNHITTLIENKQAKLVVIAHDVDPIELVIFLPQLCRKNDVPFAFVKGKAALGKLVNKKTA 188
Query: 263 ADVSSIPIVDDNDSLLDIYS 282
V+ + +++ + L +S
Sbjct: 189 TAVALTEVRNEDKAKLQQFS 208
>pdb|3I8N|A Chain A, A Domain Of A Conserved Functionally Known Protein From
Vibrio Parahaemolyticus Rimd 2210633.
pdb|3I8N|B Chain B, A Domain Of A Conserved Functionally Known Protein From
Vibrio Parahaemolyticus Rimd 2210633
Length = 130
Score = 28.5 bits (62), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 46/96 (47%), Gaps = 6/96 (6%)
Query: 281 YSRSDITALAKDKAYAQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVME 340
+SR + + KD +H E+ Q GQ LG + Q+ L + L KV +
Sbjct: 39 FSRPLVYSEQKDNIIGFVHRLELFKXQQSGSGQK---QLGAVXRPIQVVLNNTALPKVFD 95
Query: 341 RLANPGVR-RLVIVEAGSKRVEGIISLSDVFRFLLG 375
+ ++ LV+ E G+ V G+++L D+F L+G
Sbjct: 96 QXXTHRLQLALVVDEYGT--VLGLVTLEDIFEHLVG 129
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
0.319 0.136 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,127,318
Number of Sequences: 62578
Number of extensions: 456818
Number of successful extensions: 1027
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 973
Number of HSP's gapped (non-prelim): 37
length of query: 376
length of database: 14,973,337
effective HSP length: 100
effective length of query: 276
effective length of database: 8,715,537
effective search space: 2405488212
effective search space used: 2405488212
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: 52 (24.6 bits)