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= 018309
(358 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 = 124 bits (312), Expect = 6e-29, Method: Compositional matrix adjust.
Identities = 104/331 (31%), Positives = 160/331 (48%), Gaps = 44/331 (13%)
Query: 27 HSCPHIQYTSSFLTQVTALDVNLAVKQAFHVLYEQGLPMVPLWDDFKGRFVGVLSALDFI 86
H C + TSS ++ D +L VK+AF L G+ PLWD K FVG+L+ DFI
Sbjct: 35 HRCYDLIPTSS---KLVVFDTSLQVKKAFFALVTNGVRAAPLWDSKKQSFVGMLTITDFI 91
Query: 87 LILRELGTNGSNLTE-EELETHTISAWKVGKLQLNLKRQMDGNGRPCPRPLVQAGPYDSL 145
IL S L + ELE H I W+ LQ + K PLV P SL
Sbjct: 92 NILHRY--YKSALVQIYELEEHKIETWREVYLQDSFK------------PLVCISPNASL 137
Query: 146 KEVALKILQNKVATVPIIHSTGPAGSCQEILYLASLSDILKCICRHFKHSSSSLPILQQP 205
+ +++NK+ +P+I +G+ IL + LK F + +
Sbjct: 138 FDAVSSLIRNKIHRLPVI--DPESGNTLYILTHKRILKFLKLFITEFPKPE----FMSKS 191
Query: 206 VSSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSR 265
+ +Q+GT+ AN AM+R T + AL + VQ VS++P+VD+ ++DIYS+
Sbjct: 192 LEELQIGTY------AN---IAMVRTTTPVYVALGIFVQHRVSALPVVDEKGRVVDIYSK 242
Query: 266 SDITALAKDKAYAQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVMERLA 325
D+ LA +K Y + ++++ +ALQ + S F G C + L ++ RL
Sbjct: 243 FDVINLAAEKTYNNL---DVSVTKALQ-----HRSHYFEG--VLKCYLHETLEAIINRLV 292
Query: 326 NPGVRRLVIVEAGSKRVEGIISLSDVFRFLL 356
V RLV+V+ V+GI+SLSD+ + L+
Sbjct: 293 EAEVHRLVVVDEHD-VVKGIVSLSDILQALV 322
>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 = 92.8 bits (229), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 76/316 (24%), Positives = 152/316 (48%), Gaps = 34/316 (10%)
Query: 41 QVTALDVNLAVKQAFHVLYEQGLPMVPLWDDFKGRFVGVLSALDFILILRELGTNGSNLT 100
++ DV L VK + +L + PLWD +F G+L+ DF+ +++ S+
Sbjct: 32 RLIVFDVTLFVKTSLSLLTLNNIVSAPLWDSEANKFAGLLTMADFVNVIKYY-YQSSSFP 90
Query: 101 EEELETHTISAWKVGKLQLNLKRQMDGNGRPCPRPLVQAGPYDSLKEVALKILQNKVATV 160
E E + K +L R+++ P + P SL + L + +++ +
Sbjct: 91 EAIAE--------IDKFRLLGLREVERKIGAIPPETIYVHPMHSLMDACLAMSKSRARRI 142
Query: 161 PIIHSTGPAGSCQEILYLASLSDILKCICRHFKHSSSSLPILQQPVSSIQLGTWVPRIGE 220
P+I G GS + I+ + + ILK I + K ++ +L+ P++ + +GTW
Sbjct: 143 PLIDVDGETGS-EMIVSVLTQYRILKFISMNCKETA----MLRVPLNQMTIGTW------ 191
Query: 221 ANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDITALAKDKAYAQI 280
A + + +L + ++S++PIV+ +LL++Y D+ L +D Y+ +
Sbjct: 192 ---SNLATASMETKVYDVIKMLAEKNISAVPIVNSEGTLLNVYESVDVMHLIQDGDYSNL 248
Query: 281 HLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVMERLANPGVRRLVIVEAGSK 340
++++ +AL L + AN F+G C +D L + + + + V RL +V+ K
Sbjct: 249 ---DLSVGEAL-LKRPAN----FDG--VHTCRATDRLDGIFDAIKHSRVHRLFVVDENLK 298
Query: 341 RVEGIISLSDVFRFLL 356
+EGI+SL+D+ +++
Sbjct: 299 -LEGILSLADILNYII 313
>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 = 92.8 bits (229), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 76/316 (24%), Positives = 152/316 (48%), Gaps = 34/316 (10%)
Query: 41 QVTALDVNLAVKQAFHVLYEQGLPMVPLWDDFKGRFVGVLSALDFILILRELGTNGSNLT 100
++ DV L VK + +L + PLWD +F G+L+ DF+ +++ S+
Sbjct: 33 RLIVFDVTLFVKTSLSLLTLNNIVSAPLWDSEANKFAGLLTMADFVNVIKYY-YQSSSFP 91
Query: 101 EEELETHTISAWKVGKLQLNLKRQMDGNGRPCPRPLVQAGPYDSLKEVALKILQNKVATV 160
E E + K +L R+++ P + P SL + L + +++ +
Sbjct: 92 EAIAE--------IDKFRLLGLREVERKIGAIPPETIYVHPMHSLMDACLAMSKSRARRI 143
Query: 161 PIIHSTGPAGSCQEILYLASLSDILKCICRHFKHSSSSLPILQQPVSSIQLGTWVPRIGE 220
P+I G GS + I+ + + ILK I + K ++ +L+ P++ + +GTW
Sbjct: 144 PLIDVDGETGS-EMIVSVLTQYRILKFISMNCKETA----MLRVPLNQMTIGTW------ 192
Query: 221 ANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDITALAKDKAYAQI 280
A + + +L + ++S++PIV+ +LL++Y D+ L +D Y+ +
Sbjct: 193 ---SNLATASMETKVYDVIKMLAEKNISAVPIVNSEGTLLNVYESVDVMHLIQDGDYSNL 249
Query: 281 HLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVMERLANPGVRRLVIVEAGSK 340
++++ +AL L + AN F+G C +D L + + + + V RL +V+ K
Sbjct: 250 ---DLSVGEAL-LKRPAN----FDG--VHTCRATDRLDGIFDAIKHSRVHRLFVVDENLK 299
Query: 341 RVEGIISLSDVFRFLL 356
+EGI+SL+D+ +++
Sbjct: 300 -LEGILSLADILNYII 314
>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 = 87.8 bits (216), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 85/330 (25%), Positives = 151/330 (45%), Gaps = 65/330 (19%)
Query: 41 QVTALDVNLAVKQAFHVLYEQGLPMVPLWDDFKGRFVGVLSALDFILILRELGTNGSNLT 100
++ LD +L VK++ +VL + + PLWD RF G+L+ DFI +++ +N
Sbjct: 41 RLIVLDTSLLVKKSLNVLLQNSIVSAPLWDSKTSRFAGLLTTTDFINVIQYYFSNPDKF- 99
Query: 101 EEELETHTISAWKVGKLQL----NLKR-----QMDGNGRPCPRPLVQAGPYDSLKEVALK 151
EL V KLQL +++R Q+D RPL +A LK
Sbjct: 100 --EL---------VDKLQLDGLKDIERALGVDQLDTASIHPSRPLFEA---------CLK 139
Query: 152 ILQNKVATVPIIHSTGPAGSCQEILYLASLSDILKCI---CR--HFKHSSSSLPILQQPV 206
+L+++ +P+I + ++ + + ILK + CR HF L+ P+
Sbjct: 140 MLESRSGRIPLIDQDEETHR-EIVVSVLTQYRILKFVALNCRETHF---------LKIPI 189
Query: 207 SSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRS 266
+ + I + N + M P + + +L Q VSS+PI+D+N L+++Y
Sbjct: 190 GDLNI------ITQDNMKSCQMTTPVIDV---IQMLTQGRVSSVPIIDENGYLINVYEAY 240
Query: 267 DITALAKDKAYAQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVMERLAN 326
D+ L K Y + L ++ +AL D F G C ++D L +M+ +
Sbjct: 241 DVLGLIKGGIYNDLSL---SVGEALMRRSD-----DFEG--VYTCTKNDKLSTIMDNIRK 290
Query: 327 PGVRRLVIVEAGSKRVEGIISLSDVFRFLL 356
V R +V+ R+ G+++LSD+ +++L
Sbjct: 291 ARVHRFFVVD-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 = 87.8 bits (216), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 85/330 (25%), Positives = 151/330 (45%), Gaps = 65/330 (19%)
Query: 41 QVTALDVNLAVKQAFHVLYEQGLPMVPLWDDFKGRFVGVLSALDFILILRELGTNGSNLT 100
++ LD +L VK++ +VL + + PLWD RF G+L+ DFI +++ +N
Sbjct: 34 RLIVLDTSLLVKKSLNVLLQNSIVSAPLWDSKTSRFAGLLTTTDFINVIQYYFSNPDKF- 92
Query: 101 EEELETHTISAWKVGKLQL----NLKR-----QMDGNGRPCPRPLVQAGPYDSLKEVALK 151
EL V KLQL +++R Q+D RPL +A LK
Sbjct: 93 --EL---------VDKLQLDGLKDIERALGVDQLDTASIHPSRPLFEA---------CLK 132
Query: 152 ILQNKVATVPIIHSTGPAGSCQEILYLASLSDILKCI---CR--HFKHSSSSLPILQQPV 206
+L+++ +P+I + ++ + + ILK + CR HF L+ P+
Sbjct: 133 MLESRSGRIPLIDQDEETHR-EIVVSVLTQYRILKFVALNCRETHF---------LKIPI 182
Query: 207 SSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRS 266
+ + I + N + M P + + +L Q VSS+PI+D+N L+++Y
Sbjct: 183 GDLNI------ITQDNMKSCQMTTPVIDV---IQMLTQGRVSSVPIIDENGYLINVYEAY 233
Query: 267 DITALAKDKAYAQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVMERLAN 326
D+ L K Y + L ++ +AL D F G C ++D L +M+ +
Sbjct: 234 DVLGLIKGGIYNDLSL---SVGEALMRRSD-----DFEG--VYTCTKNDKLSTIMDNIRK 283
Query: 327 PGVRRLVIVEAGSKRVEGIISLSDVFRFLL 356
V R +V+ R+ G+++LSD+ +++L
Sbjct: 284 ARVHRFFVVD-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 = 73.2 bits (178), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 50/155 (32%), Positives = 85/155 (54%), Gaps = 20/155 (12%)
Query: 202 LQQPVSSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLD 261
+ + + +Q+GT+ AN AM+R T + AL + VQ VS++P+VD+ ++D
Sbjct: 16 MSKSLEELQIGTY------AN---IAMVRTTTPVYVALGIFVQHRVSALPVVDEKGRVVD 66
Query: 262 IYSRSDITALAKDKAYAQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVM 321
IYS+ D+ LA +K Y + ++++ +ALQ + S F G C + L ++
Sbjct: 67 IYSKFDVINLAAEKTYNNL---DVSVTKALQ-----HRSHYFEG--VLKCYLHETLETII 116
Query: 322 ERLANPGVRRLVIVEAGSKRVEGIISLSDVFRFLL 356
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 = 71.6 bits (174), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 49/155 (31%), Positives = 85/155 (54%), Gaps = 20/155 (12%)
Query: 202 LQQPVSSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLD 261
+ + + +Q+GT+ AN AM+R T + AL + VQ VS++P+VD+ ++D
Sbjct: 16 MSKSLEELQIGTY------AN---IAMVRTTTPVYVALGIFVQHRVSALPVVDEKGRVVD 66
Query: 262 IYSRSDITALAKDKAYAQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVM 321
IYS+ D+ LA +K Y + ++++ +ALQ + S F G C + L ++
Sbjct: 67 IYSKFDVINLAAEKTYNNL---DVSVTKALQ-----HRSHYFEG--VLKCYLHETLETII 116
Query: 322 ERLANPGVRRLVIVEAGSKRVEGIISLSDVFRFLL 356
RL V +LV+V+ V+GI+SLSD+ + L+
Sbjct: 117 NRLVEAEVHQLVVVDEND-VVKGIVSLSDILQALV 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 = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 49/155 (31%), Positives = 84/155 (54%), Gaps = 20/155 (12%)
Query: 202 LQQPVSSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLD 261
+ + + +Q+GT+ AN AM+R T + AL + VQ VS++P+VD+ ++D
Sbjct: 16 MSKSLEELQIGTY------AN---IAMVRTTTPVYVALGIFVQHRVSALPVVDEKGRVVD 66
Query: 262 IYSRSDITALAKDKAYAQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVM 321
IYS+ D+ LA +K Y + ++++ +ALQ + S F G C + L ++
Sbjct: 67 IYSKFDVINLAAEKTYNNL---DVSVTKALQ-----HRSHYFEG--VLKCYLHETLETII 116
Query: 322 ERLANPGVRRLVIVEAGSKRVEGIISLSDVFRFLL 356
RL V LV+V+ V+GI+SLSD+ + L+
Sbjct: 117 NRLVEAEVHGLVVVDEND-VVKGIVSLSDILQALV 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: 218 IGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDITALAKDKAY 277
I + N + M P + + +L Q VSS+PI+D+N L+++Y D+ L K Y
Sbjct: 16 ITQDNMKSCQMTTPVIDV---IQMLTQGRVSSVPIIDENGYLINVYEAYDVLGLIKGGIY 72
Query: 278 AQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVMERLANPGVRRLVIVEA 337
+ L ++ +AL D F G C ++D L +M+ + V R +V+
Sbjct: 73 NDLSL---SVGEALMRRSDD-----FEG--VYTCTKNDKLSTIMDNIRKARVHRFFVVDD 122
Query: 338 GSKRVEGIISLSDVFRFLL 356
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 = 33/120 (27%), Positives = 60/120 (50%), Gaps = 11/120 (9%)
Query: 237 SALALLVQADVSSIPIVDDNDSLLDIYSRSDITALAKDKAYAQIHLDEMNIHQALQLGQD 296
+ L Q VSS+PI+D+N L+++Y D+ L K Y + L ++ +AL D
Sbjct: 32 DVIQXLTQGRVSSVPIIDENGYLINVYEAYDVLGLIKGGIYNDLSL---SVGEALXRRSD 88
Query: 297 ANPSLGFNGQRCQMCLRSDPLHKVMERLANPGVRRLVIVEAGSKRVEGIISLSDVFRFLL 356
F G C ++D L + + + V R +V+ R+ G+++LSD+ +++L
Sbjct: 89 D-----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 = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 39/147 (26%), Positives = 65/147 (44%), Gaps = 18/147 (12%)
Query: 211 LGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDITA 270
+ T+V + + GR + P S+G A L + ++ + D + +L I++ D+
Sbjct: 22 MATFVKDLLDRKGRDVVTVGPDVSIGEAAGTLHAHKIGAVVVTDADGVVLGIFTERDLV- 80
Query: 271 LAKDKAYAQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVMERLANPGVR 330
KA A A L Q + ++ N RCQ +D L ++M G
Sbjct: 81 ----KAVAG--------QGAASLQQSVSVAMTKNVVRCQHNSTTDQLMEIM----TGGRF 124
Query: 331 RLVIVEAGSKRVEGIISLSDVFRFLLG 357
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 = 0.010, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 31/44 (70%)
Query: 228 MLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDITAL 271
+++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 = 36.2 bits (82), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 26/116 (22%), Positives = 53/116 (45%), Gaps = 1/116 (0%)
Query: 151 KILQNKVATVPIIHSTGPAGSCQEILYLASLSDILKCICRHFKHSSSSLPILQQPVSSIQ 210
K ++++ V P G+ L +S L+ + R + ++ L ++ V I+
Sbjct: 116 KARRDRLTKVAEEKKKNPKGTVSTKAPLCVVSG-LQEVTRTIEKKTARLVLIANNVDPIE 174
Query: 211 LGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRS 266
L W+P + AN P+A+++ A LG A+ V+ + ++ + L +RS
Sbjct: 175 LVLWMPTLCRANKIPYAIVKDKARLGDAIGRKTATCVAFTDVNAEDQAALKNLTRS 230
>pdb|4GQW|A Chain A, Crystal Structure Of Cbs-pair Protein, Cbsx1 (loop
Deletion) From Arabidopsis Thaliana
Length = 152
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 212 GTWVPRIGE--ANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDIT 269
G+ V +GE +++PT ++ AL LLV+ ++ P++D++ L+ + S D+
Sbjct: 1 GSGVYTVGEFMTKKEDLHVVKPTTTVDEALELLVENRITGFPVIDEDWKLVGLVSDYDLL 60
Query: 270 AL 271
AL
Sbjct: 61 AL 62
>pdb|4GQV|A Chain A, Crystal Structure Of Cbs-pair Protein, Cbsx1 From
Arabidopsis Thaliana
Length = 166
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 212 GTWVPRIGE--ANGRPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDIT 269
G+ V +GE +++PT ++ AL LLV+ ++ P++D++ L+ + S D+
Sbjct: 1 GSGVYTVGEFMTKKEDLHVVKPTTTVDEALELLVENRITGFPVIDEDWKLVGLVSDYDLL 60
Query: 270 AL 271
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 = 32.3 bits (72), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 27/49 (55%)
Query: 226 FAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDITALAKD 274
A L P SL A ++ ++ SIP+ D N+ LL + S S+ITA D
Sbjct: 17 IAPLAPEVSLKMAWNIMRDKNLKSIPVADGNNHLLGMLSTSNITATYMD 65
>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 = 32.3 bits (72), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 29/79 (36%), Gaps = 5/79 (6%)
Query: 161 PIIHSTGPAG-----SCQEILYLASLSDILKCICRHFKHSSSSLPILQQPVSSIQLGTWV 215
P +H GP G + E L + HF H+ S + +P + + G W
Sbjct: 388 PGLHDDGPRGERIRAAVAEKLERSGARREFDAPGIHFGHTYRSSIVCGEPETEVATGGWR 447
Query: 216 PRIGEANGRPFAMLRPTAS 234
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 = 32.3 bits (72), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 29/79 (36%), Gaps = 5/79 (6%)
Query: 161 PIIHSTGPAG-----SCQEILYLASLSDILKCICRHFKHSSSSLPILQQPVSSIQLGTWV 215
P +H GP G + E L + HF H+ S + +P + + G W
Sbjct: 388 PGLHDDGPRGERIRAAVAEKLERSGARREFDAPGIHFGHTYRSSIVCGEPETEVATGGWR 447
Query: 216 PRIGEANGRPFAMLRPTAS 234
P P A L PT S
Sbjct: 448 PSARPGARAPHAWLTPTTS 466
>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 = 32.3 bits (72), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 27/49 (55%)
Query: 226 FAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDITALAKD 274
A L P SL A ++ ++ SIP+ D N+ LL + S S+ITA D
Sbjct: 14 IAPLAPEVSLKMAWNIMRDKNLKSIPVADGNNHLLGMLSTSNITATYMD 62
>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 = 31.2 bits (69), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 23/114 (20%), Positives = 50/114 (43%), Gaps = 19/114 (16%)
Query: 52 KQAFHVLYEQGLPMVPLWDDFKGRFVGVLSALDFILILRELGTNGSNLTEEELETHTISA 111
K + G +P+ + GR VG++++ DFI +L GS+ ++T +
Sbjct: 168 KDVARTMVRNGFRRLPVVSE--GRLVGIITSTDFIKLL------GSDWAFNHMQTGNVRE 219
Query: 112 WKVGKLQLNLKRQMDGNGRPCPRPLVQAGPYDSLKEVALKILQNKVATVPIIHS 165
+++ +KR ++ A D LK++A ++ N + +P++
Sbjct: 220 ITNVRMEEIMKRD-----------VITAKEGDKLKKIAEIMVTNDIGALPVVDE 262
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 28/139 (20%), Positives = 59/139 (42%), Gaps = 19/139 (13%)
Query: 132 CPRPLVQAGPYDSLKEVALKILQNKVATVPIIHSTGPAGSCQEILYLASLSDILKCICRH 191
R ++ A P + LK+VA +++N +P++ G + + +D +K +
Sbjct: 154 ITRDVIVATPGERLKDVARTMVRNGFRRLPVVSEGRLVG-------IITSTDFIKLLGSD 206
Query: 192 --FKHSSSSLPILQQPVSSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALLVQADVSS 249
F H + +++ T V R+ E R + L ++V D+ +
Sbjct: 207 WAFNHMQTG---------NVREITNV-RMEEIMKRDVITAKEGDKLKKIAEIMVTNDIGA 256
Query: 250 IPIVDDNDSLLDIYSRSDI 268
+P+VD+N + I + D+
Sbjct: 257 LPVVDENLRIKGIITEKDV 275
Score = 28.5 bits (62), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 19/28 (67%)
Query: 330 RRLVIVEAGSKRVEGIISLSDVFRFLLG 357
RRL +V AG+ +V GII+ D+ F+ G
Sbjct: 36 RRLPVVNAGNNKVVGIITSMDIVDFMGG 63
>pdb|2YZQ|A Chain A, Crystal Structure Of Uncharacterized Conserved Protein
From Pyrococcus Horikoshii
Length = 282
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 33/135 (24%), Positives = 61/135 (45%), Gaps = 20/135 (14%)
Query: 62 GLPMVPLWDDFKGRFVGVLSALDF------ILILRELGTNGSNLTEEELETHTISAWKVG 115
LP+V D +G VG++ D + I++ S+ E LE+H ++
Sbjct: 159 ALPVV----DSEGNLVGIVDETDLLRDSEIVRIMKSTELAASSEEEWILESHPTLLFEKF 214
Query: 116 KLQLNLKRQMDGNGRPCPRPLVQAGPYDSLKEVALKILQNKVATVPIIHSTGPAGSCQEI 175
+LQL K R ++ A P+ ++ EVALK+ + + +P+I G ++
Sbjct: 215 ELQLPNK----PVAEIMTRDVIVATPHMTVHEVALKMAKYSIEQLPVIRGEG------DL 264
Query: 176 LYLASLSDILKCICR 190
+ L D+LK + +
Sbjct: 265 IGLIRDFDLLKVLVK 279
>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: 179 ASLSDILKCICRHFKHSSSSLPIL-QQPVSSIQLGTWVPRIG-----EANGRPFAM---- 228
A L+DI K K+ S + + +PV I V IG E F
Sbjct: 21 AKLNDIAKVXTE--KNIGSVIVVDGNKPVGIITERDIVKAIGKGKSLETKAEEFXTASLI 78
Query: 229 -LRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDITALAKD 274
+R + + ALAL Q ++ +P+VDD +L I S DIT D
Sbjct: 79 TIREDSPITGALALXRQFNIRHLPVVDDKGNLKGIISIRDITRAIDD 125
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 16/31 (51%), Positives = 20/31 (64%), Gaps = 2/31 (6%)
Query: 259 LLDIYSRSDITALAKDKAYAQIHLDEMNIHQ 289
+ D YS SD+TALAKD A I E+N+ Q
Sbjct: 220 ITDGYSGSDLTALAKDAALEPIR--ELNVEQ 248
>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 = 2.4, Method: Compositional matrix adjust.
Identities = 28/135 (20%), Positives = 61/135 (45%), Gaps = 24/135 (17%)
Query: 224 RPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDIT-ALAKDKAYAQIHL 282
+P S+ A +L++ +++ +PIVD++ L+ I + DI ALA++K +
Sbjct: 11 KPPITAHSNISIMEAAKILIKHNINHLPIVDEHGKLVGIITSWDIAKALAQNKKT----I 66
Query: 283 DEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVMERLANPGVRRLVIVEAGSKRV 342
+E+ + +D +P+ V +++ + + +V+ +RV
Sbjct: 67 EEIMTRNVITAHED------------------EPVDHVAIKMSKYNISGVPVVD-DYRRV 107
Query: 343 EGIISLSDVFRFLLG 357
GI++ D+ R G
Sbjct: 108 VGIVTSEDISRLFGG 122
>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 = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 28/135 (20%), Positives = 61/135 (45%), Gaps = 24/135 (17%)
Query: 224 RPFAMLRPTASLGSALALLVQADVSSIPIVDDNDSLLDIYSRSDIT-ALAKDKAYAQIHL 282
+P S+ A +L++ +++ +PIVD++ L+ I + DI ALA++K +
Sbjct: 9 KPPITAHSNISIMEAAKILIKHNINHLPIVDEHGKLVGIITSWDIAKALAQNKKT----I 64
Query: 283 DEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVMERLANPGVRRLVIVEAGSKRV 342
+E+ + +D +P+ V +++ + + +V+ +RV
Sbjct: 65 EEIMTRNVITAHED------------------EPVDHVAIKMSKYNISGVPVVD-DYRRV 105
Query: 343 EGIISLSDVFRFLLG 357
GI++ D+ R G
Sbjct: 106 VGIVTSEDISRLFGG 120
>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 = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 46/96 (47%), Gaps = 6/96 (6%)
Query: 263 YSRSDITALAKDKAYAQIHLDEMNIHQALQLGQDANPSLGFNGQRCQMCLRSDPLHKVME 322
+SR + + KD +H E+ Q GQ LG + Q+ L + L KV +
Sbjct: 39 FSRPLVYSEQKDNIIGFVHRLELFKXQQSGSGQK---QLGAVXRPIQVVLNNTALPKVFD 95
Query: 323 RLANPGVR-RLVIVEAGSKRVEGIISLSDVFRFLLG 357
+ ++ LV+ E G+ V G+++L D+F L+G
Sbjct: 96 QXXTHRLQLALVVDEYGT--VLGLVTLEDIFEHLVG 129
>pdb|2P9M|A Chain A, Crystal Structure Of Conserved Hypothetical Protein Mj0922
From Methanocaldococcus Jannaschii Dsm 2661
pdb|2P9M|B Chain B, Crystal Structure Of Conserved Hypothetical Protein Mj0922
From Methanocaldococcus Jannaschii Dsm 2661
pdb|2P9M|C Chain C, Crystal Structure Of Conserved Hypothetical Protein Mj0922
From Methanocaldococcus Jannaschii Dsm 2661
pdb|2P9M|D Chain D, Crystal Structure Of Conserved Hypothetical Protein Mj0922
From Methanocaldococcus Jannaschii Dsm 2661
Length = 138
Score = 28.1 bits (61), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 25/110 (22%), Positives = 53/110 (48%), Gaps = 15/110 (13%)
Query: 247 VSSIPIVDDNDSLLDIYSRSDIT-ALAKDKAYAQIHLDEMNIHQALQLGQDANPSLGFNG 305
+SS+P++DD + ++ I + +DI L +DK + + ++ + + +DA+
Sbjct: 39 ISSLPVIDDENKVIGIVTTTDIGYNLIRDKYTLETTIGDVXTKDVITIHEDAS------- 91
Query: 306 QRCQMCLRSDPLHKVMERLANPGVRRLVIVEAGSKRVEGIISLSDVFRFL 355
++ + E + N +L +V+ +K V GIIS D+ R +
Sbjct: 92 --ILEAIKKXDISGKKEEIIN----QLPVVDKNNKLV-GIISDGDIIRTI 134
>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 = 28.1 bits (61), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 17/80 (21%), Positives = 38/80 (47%)
Query: 185 LKCICRHFKHSSSSLPILQQPVSSIQLGTWVPRIGEANGRPFAMLRPTASLGSALALLVQ 244
L I ++ + L ++ V I+L ++P++ N PFA ++ A+LG +
Sbjct: 129 LNHITTLIENKQAKLVVIAHDVDPIELVIFLPQLCRKNDVPFAFVKGKAALGKLVNKKTA 188
Query: 245 ADVSSIPIVDDNDSLLDIYS 264
V+ + +++ + L +S
Sbjct: 189 TAVALTEVRNEDKAKLQQFS 208
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
0.323 0.138 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,251,065
Number of Sequences: 62578
Number of extensions: 416729
Number of successful extensions: 882
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: 828
Number of HSP's gapped (non-prelim): 37
length of query: 358
length of database: 14,973,337
effective HSP length: 100
effective length of query: 258
effective length of database: 8,715,537
effective search space: 2248608546
effective search space used: 2248608546
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)