RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16742
(620 letters)
>1c3p_A Protein (HDLP (histone deacetylase-like protein) ); alpha/beta
fold, lyase; 1.80A {Aquifex aeolicus} SCOP: c.42.1.2
PDB: 1c3r_A* 1c3s_A*
Length = 375
Score = 70.1 bits (172), Expect = 5e-13
Identities = 17/42 (40%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 505 THHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHAF GFC +N+ A+ YL + G +++L +DLD H
Sbjct: 130 MHHAFKSRANGFCYINNPAVGIEYLRKKG-FKRILYIDLDAH 170
Score = 47.4 bits (113), Expect = 8e-06
Identities = 12/52 (23%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
Query: 195 SGYQATLKEHLPGILAQFKPDLVIYDAGVDPHQHDELGKLNLT--DHGECIS 244
+ + L++ L + F+P++ + G DP D L K NL+ + +
Sbjct: 229 NEFLFALEKSLEIVKEVFEPEVYLLQLGTDPLLEDYLSKFNLSNVAFLKAFN 280
Score = 37.7 bits (88), Expect = 0.009
Identities = 11/50 (22%), Positives = 17/50 (34%), Gaps = 3/50 (6%)
Query: 419 GDGTAFIFDKDPAVFTFSMHCGRNYPFRKQCSDLDVAIDVGTDDAGNRTV 468
DG F VF S+H Y F + L+ ++G +
Sbjct: 172 CDGVQEAFYDTDQVFVLSLHQSPEYAFPFEKGFLE---EIGEGKGKGYNL 218
>3q9b_A Acetylpolyamine amidohydrolase; HDAC, polyamines, arginase fold,
deacetylase, hydrolase-HYDR inhibitor complex; HET: B3N;
2.25A {Mycoplana ramosa} PDB: 3q9f_A* 3q9c_A* 3q9e_A*
Length = 341
Score = 66.7 bits (163), Expect = 4e-12
Identities = 17/41 (41%), Positives = 27/41 (65%), Gaps = 1/41 (2%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA D G+C +N+ A+AA+ L+ G +K+ I+D+D H
Sbjct: 158 HHAGIDMFGGYCFINNAAVAAQRLLDKG-AKKIAILDVDFH 197
Score = 46.3 bits (110), Expect = 2e-05
Identities = 10/45 (22%), Positives = 18/45 (40%), Gaps = 1/45 (2%)
Query: 196 GYQATLKEHLPGILAQFKPDLVIYDAGVDPHQHDELGKLNLTDHG 240
+ L + L +A F + ++ GVD + D + LT
Sbjct: 257 VWGEALTDSLK-RIAAFGAEAIVVSLGVDTFEQDPISFFKLTSPD 300
Score = 31.6 bits (72), Expect = 0.66
Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 2/29 (6%)
Query: 419 GDGTAFIFDKDPAVFTFSMHC--GRNYPF 445
G+GT IF + VF S+H +P
Sbjct: 199 GNGTQDIFYERGDVFFASLHGDPAEAFPH 227
>1zz1_A Histone deacetylase-like amidohydrolase; HET: SHH; 1.57A
{Alcaligenaceae bacterium} PDB: 1zz0_A* 1zz3_A* 2gh6_A*
2vcg_A*
Length = 369
Score = 66.2 bits (162), Expect = 7e-12
Identities = 16/41 (39%), Positives = 24/41 (58%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA + GFC+ N+ ++AA Y + +V I+D DVH
Sbjct: 142 HHAPHNAAMGFCIFNNTSVAAGYARAVLGMERVAILDWDVH 182
Score = 46.6 bits (111), Expect = 2e-05
Identities = 11/45 (24%), Positives = 21/45 (46%)
Query: 196 GYQATLKEHLPGILAQFKPDLVIYDAGVDPHQHDELGKLNLTDHG 240
Y + + + L ++P L+I +G D D L ++ +T G
Sbjct: 240 AYLHAMDQVVLPALRAYRPQLIIVGSGFDASMLDPLARMMVTADG 284
Score = 35.0 bits (81), Expect = 0.074
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 419 GDGTAFIFDKDPAVFTFSMHCGRNYP 444
G+GT I+ DP+V T S+H +P
Sbjct: 184 GNGTQDIWWNDPSVLTISLHQHLCFP 209
>2pqp_A HD7A, histone deacetylase 7A; HDAC, structural genomics, structural
genomics consortium, SGC; HET: TSN; 1.80A {Homo sapiens}
PDB: 2pqo_A* 2nvr_A 3c0y_A 3c0z_A 3c10_A* 2vqm_A*
2vqj_A* 2vqw_G 2vqq_A* 2vqo_A* 2vqv_A*
Length = 421
Score = 65.9 bits (161), Expect = 1e-11
Identities = 19/41 (46%), Positives = 23/41 (56%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA GFC N +A+A R L + K+LIVD DVH
Sbjct: 187 HHADHSTAMGFCFFNSVAIACRQLQQQSKASKILIVDWDVH 227
Score = 39.8 bits (93), Expect = 0.002
Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
Query: 197 YQATLKEHLPGILAQFKPDLVIYDAGVDPHQHDE--LGKLNLTDHG 240
Y A + + I +F PDLV+ AG D + LG +++
Sbjct: 292 YLAAFRIVVMPIAREFSPDLVLVSAGFDAAEGHPAPLGGYHVSAKC 337
Score = 32.4 bits (74), Expect = 0.47
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 3/30 (10%)
Query: 419 GDGTAFIFDKDPAVFTFSMH---CGRNYPF 445
G+GT F +DP+V S+H G +P
Sbjct: 229 GNGTQQTFYQDPSVLYISLHRHDDGNFFPG 258
>3max_A HD2, histone deacetylase 2; class 2, HDAC, foot pocket, hydrolase;
HET: LLX NHE; 2.05A {Homo sapiens}
Length = 367
Score = 65.0 bits (159), Expect = 2e-11
Identities = 16/42 (38%), Positives = 27/42 (64%), Gaps = 2/42 (4%)
Query: 505 THHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA +GFC +ND+ LA L+++ ++VL +D+D+H
Sbjct: 133 LHHAKKSEASGFCYVNDIVLAILELLKYH--QRVLYIDIDIH 172
Score = 45.4 bits (108), Expect = 3e-05
Identities = 14/52 (26%), Positives = 22/52 (42%), Gaps = 2/52 (3%)
Query: 195 SGYQATLKEHLPGILAQFKPDLVIYDAGVDPHQHDELGKLNLT--DHGECIS 244
Y K + ++ ++P V+ G D D LG NLT H +C+
Sbjct: 229 ESYGQIFKPIISKVMEMYQPSAVVLQCGADSLSGDRLGCFNLTVKGHAKCVE 280
Score = 32.7 bits (75), Expect = 0.35
Identities = 14/57 (24%), Positives = 18/57 (31%), Gaps = 11/57 (19%)
Query: 419 GDGTAFIFDKDPAVFTFSMHC-GRNYPFRKQCSD----------LDVAIDVGTDDAG 464
GDG F V T S H G +P D ++ + G DD
Sbjct: 174 GDGVEEAFYTTDRVMTVSFHKYGEYFPGTGDLRDIGAGKGKYYAVNFPMRDGIDDES 230
>3ew8_A HD8, histone deacetylase 8; hydrolase, HDAC, metalloenzyme,
arginase fold, HDAC8, histon deacetylase, hydroxamate
inhibitor, unliganded; HET: B3N; 1.80A {Homo sapiens}
PDB: 3f06_A* 3ezp_A* 3ezt_A* 3f0r_A* 3f07_A* 2v5w_A*
2v5x_A* 3ewf_A* 3mz4_A* 3mz6_A* 3mz7_A* 3rqd_A* 3mz3_A*
1t64_A* 1t67_A* 1t69_A* 1vkg_A* 1w22_A* 3sff_A* 3sfh_A*
Length = 388
Score = 63.9 bits (156), Expect = 6e-11
Identities = 18/42 (42%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 505 THHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA D +GFC +ND L L R ++L VDLD+H
Sbjct: 141 WHHAKKDEASGFCYLNDAVLGILRLRRKF--ERILYVDLDLH 180
Score = 44.6 bits (106), Expect = 6e-05
Identities = 12/52 (23%), Positives = 19/52 (36%), Gaps = 2/52 (3%)
Query: 195 SGYQATLKEHLPGILAQFKPDLVIYDAGVDPHQHDELGKLNLT--DHGECIS 244
Y + L + F P V+ G D D + N+T G+C+
Sbjct: 238 EKYYQICESVLKEVYQAFNPKAVVLQLGADTIAGDPMCSFNMTPVGIGKCLK 289
Score = 31.5 bits (72), Expect = 0.72
Identities = 9/27 (33%), Positives = 10/27 (37%)
Query: 419 GDGTAFIFDKDPAVFTFSMHCGRNYPF 445
GDG F V T S+H F
Sbjct: 182 GDGVEDAFSFTSKVMTVSLHKFSPGFF 208
>3men_A Acetylpolyamine aminohydrolase; histone deacetylase; 2.20A
{Burkholderia pseudomallei 1710B}
Length = 362
Score = 62.8 bits (153), Expect = 8e-11
Identities = 16/41 (39%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVH 546
HHA D GFC +N+ A+AA+ L +V ++D D+H
Sbjct: 177 HHARVDAAGGFCYLNNAAIAAQALRARH--ARVAVLDTDMH 215
Score = 46.3 bits (110), Expect = 2e-05
Identities = 10/45 (22%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 196 GYQATLKEHLPGILAQFKPDLVIYDAGVDPHQHDELGKLNLTDHG 240
+ + + L L +F PD ++ G D ++ D ++ +T G
Sbjct: 275 AFFERVDDALR-ELRRFAPDALVLSLGFDVYRDDPQSQVAVTTDG 318
Score = 31.3 bits (71), Expect = 0.93
Identities = 9/29 (31%), Positives = 10/29 (34%), Gaps = 2/29 (6%)
Query: 419 GDGTAFIFDKDPAVFTFSMHC--GRNYPF 445
G G IF V S+H YP
Sbjct: 217 GQGIQEIFYARRDVLYVSIHGDPTNFYPA 245
>4a69_A Histone deacetylase 3,; transcription, hydrolase; HET: I0P; 2.06A
{Homo sapiens}
Length = 376
Score = 61.6 bits (150), Expect = 3e-10
Identities = 14/43 (32%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 506 HHAFPDHGAGFCLMNDMALAARYLIRHGIVRKVLIVDLDVHQH 548
HHA +GFC +ND+ + L+++ +VL +D+D+H
Sbjct: 134 HHAKKFEASGFCYVNDIVIGILELLKYH--PRVLYIDIDIHHG 174
Score = 46.2 bits (110), Expect = 2e-05
Identities = 13/52 (25%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
Query: 195 SGYQATLKEHLPGILAQFKPDLVIYDAGVDPHQHDELGKLNLTD--HGECIS 244
Y+ + + ++ ++P ++ G D D LG NL+ HGEC+
Sbjct: 230 QSYKHLFQPVINQVVDFYQPTCIVLQCGADSLGCDRLGCFNLSIRGHGECVE 281
Score = 35.8 bits (83), Expect = 0.038
Identities = 14/41 (34%), Positives = 17/41 (41%), Gaps = 2/41 (4%)
Query: 405 HRALIMEIGLPCYDGDGTAFIFDKDPAVFTFSMHCGRNYPF 445
R L ++I + GDG F V T S H NY F
Sbjct: 162 PRVLYIDIDIH--HGDGVQEAFYLTDRVMTVSFHKYGNYFF 200
>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 = 51.6 bits (123), Expect = 7e-07
Identities = 51/261 (19%), Positives = 86/261 (32%), Gaps = 101/261 (38%)
Query: 50 PMSKFSKTFNYLVRD-------KVIDKS-KQLIEPQQISESIAELVHT-KEYVHKFFNGK 100
PM S + + ++K+ L +Q+ I+ LV+ K V
Sbjct: 337 PM--LS------ISNLTQEQVQDYVNKTNSHLPAGKQVE--IS-LVNGAKNLV------- 378
Query: 101 TTEKEQKVTGFEWS-AGLASRVRTDPVPTHVIAVYLPFFLQRRPVF---FD-IAA----- 150
V+G S GL +R P+ + +PF +R+ F F +A+
Sbjct: 379 -------VSGPPQSLYGLNLTLRKAKAPSGLDQSRIPF-SERKLKFSNRFLPVASPFHSH 430
Query: 151 --------VLADLICIAV-----YLTFFLQRRPVFF-----DIAAVLADLIHFMVG-INT 191
+ DL+ V + PV+ D+ + + +V I
Sbjct: 431 LLVPASDLINKDLVKNNVSFNAKDIQI-----PVYDTFDGSDLRVLSGSISERIVDCIIR 485
Query: 192 QPV-----SGYQATLKEHLPGILAQFKPDLVIYDAGVDPHQHDELGKLNLTDH---GECI 243
PV + ++AT H IL F P +G LG LT G
Sbjct: 486 LPVKWETTTQFKAT---H---ILD-FGPGGA---SG--------LGV--LTHRNKDG--- 522
Query: 244 SSSARISSEAGVDPHQHDELG 264
+ R+ +D + D+ G
Sbjct: 523 -TGVRVIVAGTLDINPDDDYG 542
Score = 44.7 bits (105), Expect = 9e-05
Identities = 87/554 (15%), Positives = 157/554 (28%), Gaps = 209/554 (37%)
Query: 6 GHVHFKQHKFELTKEQKSQLDRLVHLPI------------IHTNKYECTLPPNHRFPMSK 53
G+V E + Q D++++L + IH L + + K
Sbjct: 66 GYV---SSLVE--PSKVGQFDQVLNLCLTEFENCYLEGNDIHA--LAAKLLQENDTTLVK 118
Query: 54 FSKTF-NYLVRDKVIDKSKQLIEP----QQISESIAELVHTKEYVHKFFNGK-TTE---K 104
+ NY+ + + + + E A+L F G+ T+ +
Sbjct: 119 TKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQL-----VA--IFGGQGNTDDYFE 171
Query: 105 EQKVTGFEWSAGLASRVRTDPVPTHVIAVYLPFFLQRRPVFFDIAAVLADLI-----CIA 159
E L +T Y + A L++LI
Sbjct: 172 E-----------LRDLYQT----------YHVLV---GDLIKFSAETLSELIRTTLDAEK 207
Query: 160 VY-----LTFFLQ---RRP--VFFDIAAV------LADLIHFMVGINTQPVSGYQ-ATLK 202
V+ + +L+ P + + + L H++V T + G+ L+
Sbjct: 208 VFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVV---TAKLLGFTPGELR 264
Query: 203 EHLPGILAQFKPDLVI-------------YDA-----------GVDPHQHDELGKLNLT- 237
+L G + LV + + GV ++ +L
Sbjct: 265 SYLKGATGHSQ-GLVTAVAIAETDSWESFFVSVRKAITVLFFIGV--RCYEAYPNTSLPP 321
Query: 238 -------DHGECISS---SARISSEAGVDPHQ-HDELGKLN--LTDHGVKYI--LNDRTD 282
++ E + S S + Q D + K N L I +N +
Sbjct: 322 SILEDSLENNEGVPSPMLSIS-----NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKN 376
Query: 283 PV----PTHVIAVYLTF---------------FLQRRPVF---FD-IAA----------- 308
V P + + LT F +R+ F F +A+
Sbjct: 377 LVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPAS 436
Query: 309 --VLADLIHFMVGINTQPVSARSPPERVFQ-FTGPICYLQPPQKELNKQILTLIKVPSSM 365
+ DL+ V N + P V+ F G L+ ++++I+ I +
Sbjct: 437 DLINKDLVKNNVSFN--AKDIQIP---VYDTFDGS--DLRVLSGSISERIVDCI---IRL 486
Query: 366 TVNSIEPECLKLVSISDTTRDRAQSPH---CRPGCTSGMKS-SHRALIMEIGLPCYDGDG 421
V + T H PG SG+ +HR DG G
Sbjct: 487 PVKW--ETTTQF----KAT-------HILDFGPGGASGLGVLTHRNK---------DGTG 524
Query: 422 TAFI----FDKDPA 431
I D +P
Sbjct: 525 VRVIVAGTLDINPD 538
Score = 41.6 bits (97), Expect = 0.001
Identities = 46/298 (15%), Positives = 86/298 (28%), Gaps = 117/298 (39%)
Query: 121 VRTDPVPTHVIAVYLPFFLQRRPVFFDIAAVLADLICIAVYLTFFLQRRPVFFDIAAVLA 180
V +PV + ++ +R I + +I + L+ +F +I
Sbjct: 1665 VINNPVN---LTIHFGGEKGKR-----IRENYSAMIF-ETIVDGKLKTEKIFKEINEHST 1715
Query: 181 DLIHFM--VGI-----NTQP------VSGYQATLKEHLPGILAQFKPDLVIYDAGVDPHQ 227
F G+ TQP + ++ LK G+ D AG
Sbjct: 1716 SYT-FRSEKGLLSATQFTQPALTLMEKAAFED-LKSK--GL---IPADATF--AG----- 1761
Query: 228 HDELGKLNLTDH--GECISSSARISSEAGVDPHQHDELGKLNLTDHGVKYILNDRTDPVP 285
H GE +A ++S A V +++
Sbjct: 1762 -----------HSLGE---YAA-LASLADV----------MSIES--------------- 1781
Query: 286 THVIAVYLTFFLQRRPVFFDIAA---VLADLIHFMVGINTQPVSARSPPERVFQF----- 337
V + F+ R + +A L + M+ IN V+A E +
Sbjct: 1782 ----LVEVVFY---RGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVG 1834
Query: 338 --TGPIC----YLQPPQ------------------KELNKQILTLIKVPSSMTVNSIE 371
TG + Y Q + Q + +I++ S+++ +E
Sbjct: 1835 KRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEVE 1892
Score = 31.9 bits (72), Expect = 0.88
Identities = 69/359 (19%), Positives = 106/359 (29%), Gaps = 119/359 (33%)
Query: 266 LNLTDHG-VKYILNDRTDPVPT--HVIAVYLT-FFLQRRPVFFDIAAVLADLIHFMVGIN 321
L L+ HG ++++L VPT IA L F + P + A AD
Sbjct: 9 LTLS-HGSLEHVL-----LVPTASFFIASQLQEQFNKILPEPTEGFA--AD--------- 51
Query: 322 TQPVSARSPPERVFQFTGPIC-YLQPPQKELNKQILTLIKVPSSMTVNSIEPECLKLVSI 380
+P + P E V +F G + ++P + Q+L L + E L+ I
Sbjct: 52 DEPTT---PAELVGKFLGYVSSLVEPSKVGQFDQVLNLC-------LTEFENCYLEGNDI 101
Query: 381 SDTTRDRAQSPHCR----PGCTSGMKSSHRALIMEIGLPCYDGDGTAFIFDKDPAVFTFS 436
H + LI Y T
Sbjct: 102 -----------HALAAKLLQENDTTLVKTKELIK-----NY---------------ITAR 130
Query: 437 MHCGRNYPFRKQCSDLDVAIDVGTDDAGNRTVALTWVTFLSQRSEKMRNNGIFLFLLRLS 496
+ R + +K S L A+ G + VA+ F Q N + LR
Sbjct: 131 IMAKRPFD-KKSNSALFRAVGEGN----AQLVAI----FGGQ-----GNTDDYFEELR-- 174
Query: 497 DPEINRFSTHHAFPDHGAGFCLMNDMALAARYLIRHGI-VRKVLIVDLDVHQ--HTRSIP 553
++ + T+H L+ A LIR + KV L++ + S
Sbjct: 175 --DL--YQTYHVLVGD-----LIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPS-N 224
Query: 554 VPSLTVLSSC---VP--GLY-MRDYYVL-----------------DTAISAGIPVATVT 589
P L S P G+ + Y V T S G+ A
Sbjct: 225 TPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAI 283
Score = 28.9 bits (64), Expect = 6.4
Identities = 11/61 (18%), Positives = 21/61 (34%), Gaps = 13/61 (21%)
Query: 523 ALAARYL-IRHGIVRKVLIVDLDVHQH--------TRSIPVPSLTVLS----SCVPGLYM 569
A + R L + HG + VL+V + +P P+ + + L
Sbjct: 3 AYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVG 62
Query: 570 R 570
+
Sbjct: 63 K 63
Score = 28.9 bits (64), Expect = 7.2
Identities = 35/170 (20%), Positives = 55/170 (32%), Gaps = 64/170 (37%)
Query: 388 AQSPHCRPGCTSGMKSSHRALIMEIGLPCYDGDGTAF-IFDK-DPAVFTFSMHCGRNYPF 445
+Q GM G+ Y A ++++ D H Y F
Sbjct: 1626 SQEQ--------GM-----------GMDLYKTSKAAQDVWNRAD-------NHFKDTYGF 1659
Query: 446 RKQCSDLDVAIDVGTDDAGNRTVALTWVTFLSQRSEKMRNNGIFLFLLRLSD-------- 497
S LD+ I N V LT + F ++ +++R N + + D
Sbjct: 1660 ----SILDIVI--------NNPVNLT-IHFGGEKGKRIRENYSAMIFETIVDGKLKTEKI 1706
Query: 498 -PEINRFSTHHAFPDHGAGFCLMND----------MALAA-RYLIRHGIV 535
EIN ST + F G L++ M AA L G++
Sbjct: 1707 FKEINEHSTSYTF-RSEKG--LLSATQFTQPALTLMEKAAFEDLKSKGLI 1753
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 51.4 bits (122), Expect = 8e-07
Identities = 103/691 (14%), Positives = 196/691 (28%), Gaps = 207/691 (29%)
Query: 7 HVHFKQHKFELTKEQKSQLDRLVHLPIIHTNKYECTLPPNHRFPMSKFSKTFNYLVRDKV 66
H H FE + Q D I+ F F+ +D V
Sbjct: 1 HHHHHHMDFETGEHQYQYKD------ILSVF-------------EDAFVDNFD--CKD-V 38
Query: 67 IDKSKQLIEPQQISESIAELVHTKEYVHKFFNGKTTEKEQKVTGF---------EWSAGL 117
D K ++ ++I I + F +++E+ V F ++ L
Sbjct: 39 QDMPKSILSKEEIDH-IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKF---L 94
Query: 118 ASRVRTDPV-PTHVIAVYLPFFLQRRPVFFDIAAVLADLICIAVYLTFFLQRRPVFFDIA 176
S ++T+ P+ + +Y+ QR ++ D V+ + + R + +
Sbjct: 95 MSPIKTEQRQPSMMTRMYIE---QRDRLYNDNQ----------VFAKYNVSRLQPYLKLR 141
Query: 177 AVLADL-------IHFMVGINTQPVSGYQATLKEHLPGILAQFKPDLVIYDAGVDPHQHD 229
L +L I ++G SG K +A V V
Sbjct: 142 QALLELRPAKNVLIDGVLG------SG-----KT----WVAL----DVCLSYKVQCKMDF 182
Query: 230 ELGKLNLTDHGECISSSARISSEAGVDPHQHDELGKLNLTDHGVKYILNDRTD-----PV 284
++ LNL C S L L + + R+D +
Sbjct: 183 KIFWLNL---KNCNSP--------------ETVLEMLQKLLYQIDPNWTSRSDHSSNIKL 225
Query: 285 PTHVIAVYLTFFLQRRPVFFDIAAVLAD------LIHFMVG----INTQPVSARSPPERV 334
H I L L+ +P + + VL + F + + T+ V
Sbjct: 226 RIHSIQAELRRLLKSKP-YENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQ-------V 277
Query: 335 FQFTGPICYLQPPQKELNK-----QILTLI---------KVPSSMTVNSIEPECLKLV-- 378
F + ++ +L+ +P + + P L ++
Sbjct: 278 TDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVL--TTNPRRLSIIAE 335
Query: 379 SISD--TTRDRAQSPHCRPGCTSGMKSSHRALIMEIGLPCYDGDGTAFIFDKD---PAVF 433
SI D T D + +C T+ ++SS L +D +F P +
Sbjct: 336 SIRDGLATWDNWKHVNCDK-LTTIIESSLNVLEPAEYRKMFD---RLSVFPPSAHIPTI- 390
Query: 434 TFSMHCGRNYPFRKQCSDLDVAIDVGTDDAGNRTVALTWVTFLSQRSEKMRNNGIFLFLL 493
S+ DV + V + + L ++ K I L
Sbjct: 391 LLSL-------IWFDVIKSDVMVVV--NKLHKYS--------LVEKQPKESTISIPSIYL 433
Query: 494 RLSDPEINRFSTHHAFPDH---GAGFCLMNDMALAAR------YLIRHGIVRKVLIVDLD 544
L N ++ H + DH F +D+ ++ H L
Sbjct: 434 ELKVKLENEYALHRSIVDHYNIPKTFDS-DDLIPPYLDQYFYSHIGHH----------LK 482
Query: 545 VHQHTRSIPVPSLTVLSSCVPGLYMRDYYVLDTAISAGIPVATVTGG------------G 592
+H + + +++ D+ L+ I +G
Sbjct: 483 NIEHPERM---------TLFRMVFL-DFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKP 532
Query: 593 YCADIDQLAQR--QTIIH---RAATHVYKER 618
Y D D +R I+ + ++ +
Sbjct: 533 YICDNDPKYERLVNAILDFLPKIEENLICSK 563
Score = 46.0 bits (108), Expect = 4e-05
Identities = 27/216 (12%), Positives = 60/216 (27%), Gaps = 71/216 (32%)
Query: 13 HKFELTKEQKSQLDRLVHLPIIHTNKYE--CTLPPNHRFPMSKFSKTFNYLVRDKVIDKS 70
L + K + + +H I+ + Y T + P ++++
Sbjct: 429 PSIYLELKVKLENEYALHRSIV--DHYNIPKTFDSDDLIPPYLDQYFYSHIGH------- 479
Query: 71 KQLIEPQQISESIAELVHTKEYVHKFFNGKTTEKEQKVTGFEWSAGLASRVRTDPVPTHV 130
H K E +++T F
Sbjct: 480 -----------------HLKN----------IEHPERMTLFR------------------ 494
Query: 131 IAVYLPF-FLQRR-----PVFFDIAAVLADLICIAVYLTFFLQRRPVFFDIAAVLADLIH 184
V+L F FL+++ + ++L L + Y + P + ++ ++
Sbjct: 495 -MVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKY---ERLVNAILD 550
Query: 185 FMVGINTQPVSGYQATLKEHLPGILAQFKPDLVIYD 220
F+ I + L +A D I++
Sbjct: 551 FLPKIEENLICSKYTDLLR-----IALMAEDEAIFE 581
Score = 37.5 bits (86), Expect = 0.015
Identities = 56/422 (13%), Positives = 116/422 (27%), Gaps = 122/422 (28%)
Query: 15 FELTKEQKSQLDRLVHLPI-IHTNKYEC-TLPPNHRFPMSKFSKTFNYLVRDKVIDK--- 69
+++ S+ D ++ + IH+ + E L + + LV V +
Sbjct: 207 YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC-------LLVLLNVQNAKAW 259
Query: 70 ------SKQLIEPQQISESIAELVHTKEYVHKFFNGKT---TEKEQ-----KVTGFEWSA 115
K L+ + + + + H + + T E K
Sbjct: 260 NAFNLSCKILLTTRFKQ--VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR-PQ 316
Query: 116 GLASRV-RTDPVPTHVIAVYLPFFLQR----RPVFFDIAAVLADLI--CIAVYLTFFLQR 168
L V T+P +IA + L + V D L +I + V L R
Sbjct: 317 DLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCD---KLTTIIESSLNV-LEPAEYR 372
Query: 169 RPVFFDIAAVLADLIHFMVGINTQPVSGYQATLKEHLPG-ILAQF-KPDLV--------- 217
+ +F ++ I T +S + + ++ + K LV
Sbjct: 373 K-MFDRLSVFPPS-----AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTI 426
Query: 218 -IYDAGVDPHQH-DELGKLNLTDHGECISSSARISSEAGVDPHQHDELGKLNLTDHGVKY 275
I ++ + L H + + D+L L + +
Sbjct: 427 SIPSIYLELKVKLENEYAL----HRSIVDHYNIPKT------FDSDDLIPPYLDQYFYSH 476
Query: 276 I--------LNDRTDPVPTHVIAVYLTF-FLQRR---------------PVFFDI----- 306
I +R V+L F FL+++ +
Sbjct: 477 IGHHLKNIEHPERMTLFRM----VFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKP 532
Query: 307 ---------AAVLADLIHFMVGINTQPVSARSPPERVFQFTGPICYLQPPQK----ELNK 353
++ ++ F+ I + S + + L + E +K
Sbjct: 533 YICDNDPKYERLVNAILDFLPKIEENLI--CSKYTDLLRIA-----LMAEDEAIFEEAHK 585
Query: 354 QI 355
Q+
Sbjct: 586 QV 587
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 35.1 bits (80), Expect = 0.044
Identities = 18/110 (16%), Positives = 32/110 (29%), Gaps = 35/110 (31%)
Query: 29 VHLPIIHTNKY-----ECTLPPNHRFPMSKF------SKTFNYLV--------------R 63
V+ + +PP R +S K +LV
Sbjct: 122 VNYSSEVKENSVDSDDKAKVPPLIRI-VSGLELSDTKQKGKKFLVIAYEPFENIAIELPP 180
Query: 64 DKVIDKSKQLIEPQQIS--ESIAELVH----TKEY-VHKFFNGKTTEKEQ 106
++++ ++ E + +K Y V FF K E+EQ
Sbjct: 181 NEILFSENNDMDNNNDGVDELNKKCTFWDAISKLYYVQFFF--KQAEQEQ 228
>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 = 29.5 bits (65), Expect = 1.7
Identities = 10/33 (30%), Positives = 15/33 (45%), Gaps = 5/33 (15%)
Query: 192 QPVSGYQATLKEHLPGILAQFKPDLVIYDAGVD 224
Q + QA+LK + A P L I A ++
Sbjct: 20 QALKKLQASLKLYADDS-A---PALAI-KATME 47
>2vk8_A Pyruvate decarboxylase isozyme 1; asymmetric active sites,
phenylalanine catabolism, tryptophan catabolism,
thiamine pyrophosphate; HET: TPP; 1.42A {Saccharomyces
cerevisiae} PDB: 1qpb_A* 2vk1_A* 2w93_A* 1pyd_A* 1pvd_A*
2vk4_A* 2vjy_A* 2g1i_A*
Length = 563
Score = 29.8 bits (68), Expect = 3.4
Identities = 20/98 (20%), Positives = 29/98 (29%), Gaps = 17/98 (17%)
Query: 147 DIAAVLADLICIAVYLTFFLQRRPVFFDIAAVLADLIHFMVGINTQPVSGYQATLKEHLP 206
A + I + +RPV+ + A L DL + T + E
Sbjct: 144 TAPAEIDRCIRTTY-----VTQRPVYLGLPANLVDLNVPAKLLQTPIDMSLKPNDAESEK 198
Query: 207 GILAQF--------KPDLVIY-DAGVDPHQ-HDELGKL 234
++ P VI DA H E KL
Sbjct: 199 EVIDTILVLDKDAKNP--VILADACCSRHDVKAETKKL 234
>1va0_A Uroporphyrin-III C-methyltransferase; structural genomics, riken
structural genomics/proteomics initiative, RSGI; 1.97A
{Thermus thermophilus} SCOP: c.90.1.1 PDB: 1v9a_A
Length = 239
Score = 28.6 bits (65), Expect = 5.5
Identities = 10/42 (23%), Positives = 19/42 (45%), Gaps = 12/42 (28%)
Query: 578 AISAGIP---------VATVTG---GGYCADIDQLAQRQTII 607
+++G+P A V+G GG D+ A+ T++
Sbjct: 115 LLASGLPLTHRGLAHGFAAVSGVLEGGGYPDLRPFARVPTLV 156
>1t71_A Phosphatase, conserved HYPO; crystal, X-RAY crystallography,
structural GENO berkeley structural genomics center,
BSGC, PSI; 2.10A {Mycoplasma pneumoniae M129} SCOP:
d.159.1.9
Length = 281
Score = 28.2 bits (63), Expect = 7.4
Identities = 7/24 (29%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 195 SGYQATLKEHLPGILAQFKPDLVI 218
+G +K +L + ++++ DLVI
Sbjct: 17 AGRNI-IKNNLAQLKSKYQADLVI 39
>2q8p_A Iron-regulated surface determinant E; helical backbone metal
receptor superfamily, metal transport; HET: HEM; 1.95A
{Staphylococcus aureus subsp} PDB: 2q8q_A*
Length = 260
Score = 28.1 bits (63), Expect = 8.5
Identities = 5/30 (16%), Positives = 11/30 (36%), Gaps = 1/30 (3%)
Query: 208 ILAQFKPDLVIYDAGVDPHQHDELGKLNLT 237
+ KP V+ + + +LN+
Sbjct: 56 VKKL-KPTHVLSVSTIKDEMQPFYKQLNMK 84
>2b9e_A NOL1/NOP2/SUN domain family, member 5 isoform 2; methytransferase,
structural genomics, structural genomics consortium,
SGC; HET: SAM; 1.65A {Homo sapiens} SCOP: c.66.1.38
Length = 309
Score = 28.0 bits (63), Expect = 8.8
Identities = 10/59 (16%), Positives = 19/59 (32%), Gaps = 4/59 (6%)
Query: 174 DIAAVLADLIHFMVGINTQPVSGYQATLKEHLPGILA--QFKPDLVIYDAGVDPHQHDE 230
V+ G + Q + L+ P+L+++ A D H+H
Sbjct: 22 CSDDVVDYFKR--QGFSYQGRASSLDDLRALKGKHFLLDPLMPELLVFPAQTDLHEHPL 78
>3dfi_A Pseudoaglycone deacetylase DBV21; single alpha-beta domain,
hydrolase; 2.10A {Actinoplanes teichomyceticus}
Length = 270
Score = 28.0 bits (62), Expect = 8.8
Identities = 7/28 (25%), Positives = 15/28 (53%)
Query: 199 ATLKEHLPGILAQFKPDLVIYDAGVDPH 226
A ++E + ++A+ P LV+ + H
Sbjct: 131 AAIREDIESMIAECDPTLVLTCVAIGKH 158
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription
factor, RNA polymerase recycling, activator,
ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Length = 968
Score = 28.5 bits (63), Expect = 9.6
Identities = 7/44 (15%), Positives = 14/44 (31%), Gaps = 8/44 (18%)
Query: 506 HHAFPDHGAGFCLMNDM--------ALAARYLIRHGIVRKVLIV 541
H H L +++ + + G +VLI+
Sbjct: 163 HDVGRRHAPRVLLADEVGLGKTIEAGMILHQQLLSGAAERVLII 206
>2wvg_A PDC, pyruvate decarboxylase; thiamine diphosphate, lyase,
flavoprotein, metal-binding, alcohol fermentation; HET:
TPU; 1.75A {Zymomonas mobilis} PDB: 2wva_A* 2wvh_A
3oe1_A* 1zpd_A*
Length = 568
Score = 28.3 bits (64), Expect = 9.6
Identities = 12/97 (12%), Positives = 32/97 (32%), Gaps = 16/97 (16%)
Query: 147 DIAAVLADLICIAVYLTFFLQRRPVFFDIAAVLADLIHFMVGINTQPVSGYQATLKEHLP 206
+ A + +I A+ +++PV+ +IA +A + G + + +
Sbjct: 143 EAPAKIDHVIKTAL-----REKKPVYLEIACNIASMPCAAPGPASALFNDEASDEASLNA 197
Query: 207 GI--LAQF-----KPDLVIY-DAGVDPHQ-HDELGKL 234
+ +F K + + + + K
Sbjct: 198 AVEETLKFIANRDKV--AVLVGSKLRAAGAEEAAVKF 232
>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein
COOC; Zn-bound dimer, nickel binding protein, ATPase;
1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A*
3kje_A 3kji_A*
Length = 254
Score = 27.8 bits (62), Expect = 9.7
Identities = 5/26 (19%), Positives = 8/26 (30%), Gaps = 2/26 (7%)
Query: 523 ALAARYLIRHGIVRKVLIVDLDVHQH 548
A + + K+ VD D
Sbjct: 18 AGLIKIMASDY--DKIYAVDGDPDSC 41
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
0.325 0.139 0.426
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 9,907,025
Number of extensions: 630902
Number of successful extensions: 2095
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2079
Number of HSP's successfully gapped: 64
Length of query: 620
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 521
Effective length of database: 3,937,614
Effective search space: 2051496894
Effective search space used: 2051496894
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 60 (27.4 bits)