RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy254
(187 letters)
>3gr4_A Pyruvate kinase isozymes M1/M2; activator, acetylation, allosteric
enzyme, alternative splicing, glycolysis, magnesium,
metal-binding; HET: FBP TLA DYY ADP; 1.60A {Homo
sapiens} PDB: 3gqy_A* 3h6o_A* 3me3_A* 1zjh_A 3g2g_A
1t5a_A* 3bjt_A 3bjf_A* 1f3x_A 3n25_A 1f3w_A 1a49_A*
1a5u_A* 1aqf_A* 1pkm_A 2g50_A* 1pkn_A 2vgb_A* 2vgf_A*
2vgg_A* ...
Length = 550
Score = 253 bits (647), Expect = 2e-82
Identities = 98/179 (54%), Positives = 135/179 (75%)
Query: 2 DGYVPPSQLRALAANTFVDHLCGLDIDNKSSYVRLTGIICTIGPASVAVDMLEKIIETGM 61
++ QL A A+TF++H+C LDID+ R TGIICTIGPAS +V+ L+++I++GM
Sbjct: 29 TAFIQTQQLHAAMADTFLEHMCRLDIDSPPITARNTGIICTIGPASRSVETLKEMIKSGM 88
Query: 62 NIARLNFSHGSYEYHGQTIKNIRQAVENYSKRIGMPHALAIALDTKGPEIRTGLLQGGGS 121
N+ARLNFSHG++EYH +TIKN+R A E+++ + +A+ALDTKGPEIRTGL++G G+
Sbjct: 89 NVARLNFSHGTHEYHAETIKNVRTATESFASDPILYRPVAVALDTKGPEIRTGLIKGSGT 148
Query: 122 AEVELVKGQTIRLTTDAAFAEKGSATDLYVDYTNITKVVKPGSRIFVDDGLISLVVKSI 180
AEVEL KG T+++T D A+ EK L++DY NI KVV+ GS+I+VDDGLISL VK
Sbjct: 149 AEVELKKGATLKITLDNAYMEKCDENILWLDYKNICKVVEVGSKIYVDDGLISLQVKQK 207
>3hqn_D Pyruvate kinase, PK; TIM barrel, T-state enzyme, transferase,
allosteric enzyme, binding, glycolysis, magnesium,
metal-binding, NUCL binding; 2.00A {Leishmania mexicana}
PDB: 1pkl_A 3hqo_K* 3hqp_A* 3hqq_A* 3is4_A* 3ktx_A*
3qv6_A* 3qv7_D* 3qv8_D* 3e0w_A 3e0v_A 3pp7_A* 3qv9_A*
Length = 499
Score = 228 bits (583), Expect = 2e-73
Identities = 76/164 (46%), Positives = 109/164 (66%), Gaps = 9/164 (5%)
Query: 17 TFVDHLCGLDIDNKSSYVRLTGIICTIGPASVAVDMLEKIIETGMNIARLNFSHGSYEYH 76
+ + H L I + + R IICTIGP++ +V+ L+ +I++GM++AR+NFSHGS+EYH
Sbjct: 2 SQLAHNLTLSIFDPVANYRAARIICTIGPSTQSVEALKGLIQSGMSVARMNFSHGSHEYH 61
Query: 77 GQTIKNIRQAVENYSKRIGMPHALAIALDTKGPEIRTGLLQGGGSAEVELVKGQTIRLTT 136
TI N+RQA I AIALDTKGPEIRTG GG + + +G T +TT
Sbjct: 62 QTTINNVRQAAAELGVNI------AIALDTKGPEIRTGQFVGG---DAVMERGATCYVTT 112
Query: 137 DAAFAEKGSATDLYVDYTNITKVVKPGSRIFVDDGLISLVVKSI 180
D AFA+KG+ Y+DY N++KVV+PG+ I++DDG++ L V+S
Sbjct: 113 DPAFADKGTKDKFYIDYQNLSKVVRPGNYIYIDDGILILQVQSH 156
>1a3w_A Pyruvate kinase; allosteric regulation, tranferase, transfer; HET:
FBP; 3.00A {Saccharomyces cerevisiae} SCOP: b.58.1.1
c.1.12.1 c.49.1.1 PDB: 1a3x_A
Length = 500
Score = 226 bits (578), Expect = 1e-72
Identities = 69/166 (41%), Positives = 93/166 (56%), Gaps = 8/166 (4%)
Query: 17 TFVDHLCGLDIDNKSSYVRLTGIICTIGPASVAVDMLEKIIETGMNIARLNFSHGSYEYH 76
+ ++ L L++ S R T II TIGP + + L + + G+NI R+NFSHGSYEYH
Sbjct: 2 SRLERLTSLNVVAGSDL-RRTSIIGTIGPKTNNPETLVALRKAGLNIVRMNFSHGSYEYH 60
Query: 77 GQTIKNIRQAVENYSKRIGMPHALAIALDTKGPEIRTGLLQGGGSAEVELVKGQTIRLTT 136
I N R++ E Y R LAIALDTKGPEIRTG + + + TT
Sbjct: 61 KSVIDNARKSEELYPGR-----PLAIALDTKGPEIRTGTTTNDV--DYPIPPNHEMIFTT 113
Query: 137 DAAFAEKGSATDLYVDYTNITKVVKPGSRIFVDDGLISLVVKSIVK 182
D +A+ +YVDY NITKV+ G I+VDDG++S V +V
Sbjct: 114 DDKYAKACDDKIMYVDYKNITKVISAGRIIYVDDGVLSFQVLEVVD 159
>3khd_A Pyruvate kinase; malaria, structural genomics, structural GE
consortium, SGC, transferase; 2.70A {Plasmodium
falciparum 3D7}
Length = 520
Score = 226 bits (578), Expect = 2e-72
Identities = 62/177 (35%), Positives = 93/177 (52%), Gaps = 10/177 (5%)
Query: 4 YVPPSQLRALAANTFVDHLCGLDIDNKSSYVRLTGIICTIGPASVAVDMLEKIIETGMNI 63
Y + ++ + + L+ +N + + T I+CT+GPA +V+ L K+I+ GM+I
Sbjct: 15 YFQGAAGASMQSAANITLRQILEPNNVNLRSKKTHIVCTLGPACKSVETLVKLIDAGMDI 74
Query: 64 ARLNFSHGSYEYHGQTIKNIRQAVENYSKRIGMPHALAIALDTKGPEIRTGLLQGGGSAE 123
R NFSHGS+E H + N+ +A E L + LDTKGPEIRTG L+ E
Sbjct: 75 CRFNFSHGSHEDHKEMFNNVLKAQELRPNC-----LLGMLLDTKGPEIRTGFLKNK---E 126
Query: 124 VELVKGQTIRLTTDAAFAEKGSATDLYVDYTNITKVVKPGSRIFVDDGLISLVVKSI 180
V L +G ++L TD F G T + Y + + VKPG+ I + DG +S V
Sbjct: 127 VHLKEGSKLKLVTDYEF--LGDETCIACSYKKLPQSVKPGNIILIADGSVSCKVLET 181
>3t05_A Pyruvate kinase, PK; tetramer, glycolysis, transferase; 3.05A
{Staphylococcus aureus subsp} PDB: 3t07_A*
Length = 606
Score = 219 bits (560), Expect = 5e-69
Identities = 68/168 (40%), Positives = 97/168 (57%), Gaps = 12/168 (7%)
Query: 13 LAANTFVDHLCGLDIDNKSSYVRLTGIICTIGPASVAVDMLEKIIETGMNIARLNFSHGS 72
+ ++ H + S +R T I+CTIGPAS + +M+EK+I GMN+ARLNFSHGS
Sbjct: 1 MGSSHHHHHHSSGLVPRGSHMMRKTKIVCTIGPASESEEMIEKLINAGMNVARLNFSHGS 60
Query: 73 YEYHGQTIKNIRQAVENYSKRIGMPHALAIALDTKGPEIRTGLLQGGGSAEVELVKGQTI 132
+E H I IR+ +KR+ +AI LDTKGPEIRT ++ G +EL +G +
Sbjct: 61 HEEHKGRIDTIRKV----AKRLDKI--VAILLDTKGPEIRTHNMKDG---IIELERGNEV 111
Query: 133 RLTTDAAFAEKGSATDLYVDYTNITKVVKPGSRIFVDDGLISLVVKSI 180
++ + +G+ V Y N+ V+ GS I +DDGLI L VK I
Sbjct: 112 IVSMNEV---EGTPEKFSVTYENLINDVQVGSYILLDDGLIELQVKDI 156
>3gg8_A Pyruvate kinase; malaria, genomics, proteomics, glycolysis,
magnesium, transferase, structural genomics, STRU
genomics consortium, SGC; 2.21A {Toxoplasma gondii} PDB:
3eoe_A
Length = 511
Score = 215 bits (549), Expect = 3e-68
Identities = 60/166 (36%), Positives = 92/166 (55%), Gaps = 10/166 (6%)
Query: 15 ANTFVDHLCGLDIDNKSSYVRLTGIICTIGPASVAVDMLEKIIETGMNIARLNFSHGSYE 74
+ + + + T I+CT+GPA VD L K+I+ GMN+ RLNFSHG +E
Sbjct: 17 QGIRMSQILEPRSEEDWTA-HRTRIVCTMGPACWNVDTLVKMIDAGMNVCRLNFSHGDHE 75
Query: 75 YHGQTIKNIRQAVENYSKRIGMPHALAIALDTKGPEIRTGLLQGGGSAEVELVKGQTIRL 134
H +T++NI++A++ + LAI LDTKGPEIRTG L+ + L +G T+++
Sbjct: 76 THARTVQNIQEAMKQRPEA-----RLAILLDTKGPEIRTGFLKDHK--PITLQQGATLKI 128
Query: 135 TTDAAFAEKGSATDLYVDYTNITKVVKPGSRIFVDDGLISLVVKSI 180
TD G T + Y + + VKPG+ I + DG +S+ V +
Sbjct: 129 VTDYNL--IGDETTIACSYGALPQSVKPGNTILIADGSLSVKVVEV 172
>3ma8_A Pyruvate kinase; parasitology, pyruvate kiase, glycol kinase,
magnesium, transferase, structural genomi structural
genomics consortium; HET: CIT; 2.64A {Cryptosporidium
parvum}
Length = 534
Score = 214 bits (547), Expect = 9e-68
Identities = 68/179 (37%), Positives = 102/179 (56%), Gaps = 15/179 (8%)
Query: 8 SQLRALAANTFVDHLC-GLDID-----NKSSYVRLTGIICTIGPASVAVDMLEKIIETGM 61
+ A+ + T C G+D + R T IICTIGP+ V+ L +I+ GM
Sbjct: 19 ASTSAVMSCTLGKATCLGMDKICSPLADNDVTQRKTQIICTIGPSCNNVESLIGLIDKGM 78
Query: 62 NIARLNFSHGSYEYHGQTIKNIRQAVENYSKRIGMPHALAIALDTKGPEIRTGLLQGGGS 121
++ARLNFSHG +E H +T++NIR+A + + I LDTKGPEIRTG+L+GG
Sbjct: 79 SVARLNFSHGDHESHFKTLQNIREAAKARPHS-----TVGIMLDTKGPEIRTGMLEGG-- 131
Query: 122 AEVELVKGQTIRLTTDAAFAEKGSATDLYVDYTNITKVVKPGSRIFVDDGLISLVVKSI 180
+EL GQT+++TTD + G++ + Y+ + K V+ GS + + DG +S V I
Sbjct: 132 KPIELKAGQTLKITTDYSM--LGNSECISCSYSLLPKSVQIGSTVLIADGSLSTQVLEI 188
>1e0t_A Pyruvate kinase, PK; phosphotransferase, glycolysis, allostery;
1.8A {Escherichia coli} SCOP: b.58.1.1 c.1.12.1 c.49.1.1
PDB: 1pky_A 1e0u_A
Length = 470
Score = 209 bits (535), Expect = 2e-66
Identities = 64/147 (43%), Positives = 88/147 (59%), Gaps = 10/147 (6%)
Query: 34 VRLTGIICTIGPASVAVDMLEKIIETGMNIARLNFSHGSYEYHGQTIKNIRQAVENYSKR 93
++ T I+CTIGP + + +ML K+++ GMN+ RLNFSHG Y HGQ I+N+R + K
Sbjct: 1 MKKTKIVCTIGPKTESEEMLAKMLDAGMNVMRLNFSHGDYAEHGQRIQNLRNVMSKTGKT 60
Query: 94 IGMPHALAIALDTKGPEIRTGLLQGGGSAEVELVKGQTIRLTTDAAFAEKGSATDLYVDY 153
AI LDTKGPEIRT L+GG +V L GQT TTD + G++ + V Y
Sbjct: 61 A------AILLDTKGPEIRTMKLEGG--NDVSLKAGQTFTFTTDKSV--IGNSEMVAVTY 110
Query: 154 TNITKVVKPGSRIFVDDGLISLVVKSI 180
T + G+ + VDDGLI + V +I
Sbjct: 111 EGFTTDLSVGNTVLVDDGLIGMEVTAI 137
>2e28_A Pyruvate kinase, PK; allosteric, transferase; 2.40A {Geobacillus
stearothermophilus}
Length = 587
Score = 194 bits (495), Expect = 1e-59
Identities = 65/146 (44%), Positives = 92/146 (63%), Gaps = 12/146 (8%)
Query: 35 RLTGIICTIGPASVAVDMLEKIIETGMNIARLNFSHGSYEYHGQTIKNIRQAVENYSKRI 94
R T I+ TIGPAS +VD L +++E GMN+ARLNFSHG +E HG+ I NIR+A +KR
Sbjct: 3 RKTKIVSTIGPASESVDKLVQLMEAGMNVARLNFSHGDHEEHGRRIANIREA----AKRT 58
Query: 95 GMPHALAIALDTKGPEIRTGLLQGGGSAEVELVKGQTIRLTTDAAFAEKGSATDLYVDYT 154
G +AI LDTKGPEIRT ++ G +EL +G + ++ G+ + V Y
Sbjct: 59 GRT--VAILLDTKGPEIRTHNMENGA---IELKEGSKLVISMSEV---LGTPEKISVTYP 110
Query: 155 NITKVVKPGSRIFVDDGLISLVVKSI 180
++ V G++I +DDGLISL V ++
Sbjct: 111 SLIDDVSVGAKILLDDGLISLEVNAV 136
>3qtg_A Pyruvate kinase, PK; TIM barrel, glycolysis, transferase; 2.20A
{Pyrobaculum aerophilum}
Length = 461
Score = 164 bits (418), Expect = 3e-49
Identities = 35/148 (23%), Positives = 63/148 (42%), Gaps = 18/148 (12%)
Query: 35 RLTGIICTIGPAS--VAVDMLEKIIETGMNIARLNFSHGSYEYHGQTIKNIRQAVENYSK 92
LT + T+GP++ + D L K ++ ++ R+N +H S I+ +R K
Sbjct: 15 NLTKRVATLGPSTDVLRPDELIKFLD-LVDGVRINLAHASPNEVKFRIEAVRSY----EK 69
Query: 93 RIGMPHALAIALDTKGPEIRTGLLQGGGSAEVELVKGQTIRLTTDAAFAEKGSATDLYVD 152
P LA+ +D KGP IR G + + + +G+ ++ +K T + V
Sbjct: 70 AKNRP--LAVIVDLKGPSIRVGST-----SPINVQEGEVVKFKLS----DKSDGTYIPVP 118
Query: 153 YTNITKVVKPGSRIFVDDGLISLVVKSI 180
V+ I + DG + L V +
Sbjct: 119 NKAFFSAVEQNDVILMLDGRLRLKVTNT 146
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 34.5 bits (79), Expect = 0.016
Identities = 32/173 (18%), Positives = 56/173 (32%), Gaps = 44/173 (25%)
Query: 33 YVRLTGIICTIGPASVAVDMLEKIIETGMNI---------ARLNFSHGSYEYHGQTIKNI 83
YV +TG G S+ ++L+ +++ G + ++ Y +G +
Sbjct: 478 YVLITGA----GKGSIGAEVLQGLLQGGAKVVVTTSRFSKQVTDYYQSIYAKYGAKGSTL 533
Query: 84 ---------RQAVENYSKRIGMPH---ALAIALDT-----KGPEIRTGLLQGGGSAEVE- 125
+Q VE + I L LD PE L +E
Sbjct: 534 IVVPFNQGSKQDVEALIEFIYDTEKNGGLGWDLDAIIPFAAIPEQGIELEHIDSKSEFAH 593
Query: 126 ---LVKGQTIRLTTDAAFAEKGSATDLYVDYTNITKVVKPGS--R-IFVDDGL 172
L +R+ ++ SA + T +V+ P S F DG+
Sbjct: 594 RIMLT--NILRMM--GCVKKQKSARGI---ETRPAQVILPMSPNHGTFGGDGM 639
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 32.6 bits (73), Expect = 0.033
Identities = 8/25 (32%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 78 QTIKNIRQAVENYSKRIGMPHALAI 102
Q +K ++ +++ Y+ P ALAI
Sbjct: 20 QALKKLQASLKLYADD-SAP-ALAI 42
Score = 26.5 bits (57), Expect = 3.8
Identities = 5/20 (25%), Positives = 7/20 (35%), Gaps = 7/20 (35%)
Query: 4 YVP---PSQLRALAANTFVD 20
Y P ALA ++
Sbjct: 32 YADDSAP----ALAIKATME 47
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 29.2 bits (65), Expect = 0.91
Identities = 22/141 (15%), Positives = 49/141 (34%), Gaps = 45/141 (31%)
Query: 66 LNFSHGSYEY----------HGQTIKNIRQAVENYSKRIGMPHALAIALDTKGPEIRTGL 115
L SHGS E+ ++ E ++K + P A D + P
Sbjct: 9 LTLSHGSLEHVLLVPTASFFIASQLQ------EQFNKILPEPTE-GFAADDE-P------ 54
Query: 116 LQGGGSAEVELVKGQTIRLTTD-AAFAEKGSATDL-----------YVDYTNITKVVKPG 163
+ ELV G+ + + ++ G + Y++ +I +
Sbjct: 55 -----TTPAELV-GKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALA--- 105
Query: 164 SRIFVDDGLISLVVKSIVKSY 184
+++ ++ + K ++K+Y
Sbjct: 106 AKLLQENDTTLVKTKELIKNY 126
Score = 28.1 bits (62), Expect = 2.0
Identities = 32/217 (14%), Positives = 53/217 (24%), Gaps = 99/217 (45%)
Query: 1 VDGYVPP-SQLR-AL--AANTFVDHLCGLDIDNKSSYVRLTGIICTIGPASVA--VDMLE 54
+ ++P Q+ +L A V + G P S+ L
Sbjct: 356 TNSHLPAGKQVEISLVNGAKNLV--VSGP-------------------PQSLYGLNLTLR 394
Query: 55 KI-IETGMNIARLNFS-----------------HGSY-----E----------------- 74
K +G++ +R+ FS H +
Sbjct: 395 KAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKD 454
Query: 75 -----YHGQTIKNIRQAVENYSKRI-----GMP------------HALAIALDTKGPEIR 112
Y ++R + S+RI +P H L GP
Sbjct: 455 IQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDF-----GP--- 506
Query: 113 TGLLQGGGSAEVELVKGQTIRLTTDAAFAEKGSATDL 149
G G G G +R+ A + D
Sbjct: 507 -GGASGLGVLTHRNKDGTGVRVIV-AGTLDINPDDDY 541
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.318 0.136 0.381
Gapped
Lambda K H
0.267 0.0783 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,878,299
Number of extensions: 171880
Number of successful extensions: 593
Number of sequences better than 10.0: 1
Number of HSP's gapped: 565
Number of HSP's successfully gapped: 22
Length of query: 187
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 99
Effective length of database: 4,244,745
Effective search space: 420229755
Effective search space used: 420229755
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (24.5 bits)