RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4854
(555 letters)
>1wsr_A Aminomethyltransferase; glycine-cleavage sytem; 2.00A {Homo
sapiens} PDB: 1wsv_A*
Length = 375
Score = 341 bits (877), Expect = e-113
Identities = 126/240 (52%), Positives = 160/240 (66%), Gaps = 5/240 (2%)
Query: 192 SPSAEQRTPLYDLHLSHGGKMVPFAGFSMPVQYGAVSITASHLHTRSKVSVFDVSHMLQT 251
+ +RTPLYD HL+HGGKMV FAG+S+PVQY S T SHLHTR S+FDVSHMLQT
Sbjct: 1 AQEVLRRTPLYDFHLAHGGKMVAFAGWSLPVQYRD-SHTDSHLHTRQHCSLFDVSHMLQT 59
Query: 252 VVTGKHREEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLIVTKTLEDSLFLVSNAS 311
+ G R + +ES+ V D+ EL P +GTLSLFTNE GGI DDLIVT T E L++VSNA
Sbjct: 60 KILGSDRVKLMESLVVGDIAELRPNQGTLSLFTNEAGGILDDLIVTNTSEGHLYVVSNAG 119
Query: 312 RRKVDMDLMVAAQDRFKSLGKDIHLQFLSAEERGLIAVQGPLSSTILQRHTDLDLSSLYF 371
+ D+ LM ++ G+D+ L+ L + L+A+QGP ++ +LQ DL L F
Sbjct: 120 CWEKDLALMQDKVRELQNQGRDVGLEVL---DNALLALQGPTAAQVLQAGVADDLRKLPF 176
Query: 372 MTSRPCTIAGIP-CTLTRAGYTGEDGVEISVPGEQCTHIVEALLSDEDVKLAGLGARDSL 430
MTS + G+ C +TR GYTGEDGVEISVP H+ A+L + +VKLAGL ARDSL
Sbjct: 177 MTSAVMEVFGVSGCRVTRCGYTGEDGVEISVPVAGAVHLATAILKNPEVKLAGLAARDSL 236
Score = 177 bits (451), Expect = 1e-50
Identities = 56/110 (50%), Positives = 69/110 (62%)
Query: 12 GKRRRETGGFPGASIIQSQIKSGVSRKRTGFTSTGVPIRPGYEIFNANDQRVGAITSGCP 71
GKRRR FPGA +I Q+K V R+R G G P+R I N ++G +TSGCP
Sbjct: 265 GKRRRAAMDFPGAKVIVPQLKGRVQRRRVGLMCEGAPMRAHSPILNMEGTKIGTVTSGCP 324
Query: 72 SPSLKKNIAMGYIEPAYSKVGVELWVRVRDKRVDVKVTKMPFVKSNYYTP 121
SPSLKKN+AMGY+ YS+ G L V VR K+ V+KMPFV +NYYT
Sbjct: 325 SPSLKKNVAMGYVPCEYSRPGTMLLVEVRRKQQMAVVSKMPFVPTNYYTL 374
Score = 140 bits (356), Expect = 4e-37
Identities = 49/105 (46%), Positives = 67/105 (63%), Gaps = 4/105 (3%)
Query: 452 FKSLGKDIHLQFLSPEERGLIAVQGPLSSTILQRHTDLDLSSLYFMTSRPCTIAGIP-CT 510
++ G+D+ L+ L + L+A+QGP ++ +LQ DL L FMTS + G+ C
Sbjct: 135 LQNQGRDVGLEVL---DNALLALQGPTAAQVLQAGVADDLRKLPFMTSAVMEVFGVSGCR 191
Query: 511 LTRAGYTGEDGVEISVPGEQCTHIVEALLSDEDVKLAGLGARDSL 555
+TR GYTGEDGVEISVP H+ A+L + +VKLAGL ARDSL
Sbjct: 192 VTRCGYTGEDGVEISVPVAGAVHLATAILKNPEVKLAGLAARDSL 236
>3gir_A Aminomethyltransferase; glycine cleavage system, aminotransferase,
structural genomics; 1.60A {Bartonella henselae}
Length = 393
Score = 319 bits (821), Expect = e-105
Identities = 86/243 (35%), Positives = 117/243 (48%), Gaps = 13/243 (5%)
Query: 188 SPGSSPSAEQRTPLYDLHLSHGGKMVPFAGFSMPVQYGAVSITASHLHTRSKVSVFDVSH 247
S S+ + PLY+LH G K FAG+ MP+ Y + HLHTR+ +FD+SH
Sbjct: 25 SQEFETSSLKTLPLYELHEKAGAKFGAFAGWRMPLTYPL-GVLKEHLHTRAHAGLFDISH 83
Query: 248 MLQTVVTGKHREEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLIVTKTLEDSLFLV 307
M V G E+L D L G+ S NE+ GI DDLI+T+ E LV
Sbjct: 84 MKLIAVEGPKAVEFLSYALPVDAALLKIGQSRYSYLLNERAGILDDLILTRLAECRFMLV 143
Query: 308 SNASRRKVDMDLMVAAQDRFKSLGKDIHLQFLSAEERGLIAVQGPLSSTILQRHTDLDLS 367
+NA + D + F+ + I ER L+A+QGP ++ +L L +
Sbjct: 144 ANAGNAQADFAELEKRAFGFE--CQVIA------LERVLLALQGPQAAAVLADA-GLPGN 194
Query: 368 SLYFMTSRPCTIAGIPCTLTRAGYTGEDGVEISVPGEQCTHIVEALLSDEDVKLAGLGAR 427
L FM +TR+GYTGEDG EI++P + E LL D V+ GL AR
Sbjct: 195 ELLFMQG---FEPQQDWFITRSGYTGEDGFEIALPIGCARALAEKLLGDSRVEWVGLAAR 251
Query: 428 DSL 430
DSL
Sbjct: 252 DSL 254
Score = 168 bits (428), Expect = 4e-47
Identities = 37/109 (33%), Positives = 55/109 (50%), Gaps = 1/109 (0%)
Query: 12 GKRRRETGGFPGASIIQSQIKSGVSRKRTGFTSTG-VPIRPGYEIFNANDQRVGAITSGC 70
K RE F GA ++ G SR R G PIR G +F+ R+G +TSG
Sbjct: 283 PKNVREKAQFYGAKAFLESLQKGPSRCRVGLKPQTRQPIRAGAVLFDNEGNRIGVVTSGG 342
Query: 71 PSPSLKKNIAMGYIEPAYSKVGVELWVRVRDKRVDVKVTKMPFVKSNYY 119
PS +AMGY+ A+ G E++ +R K++ + V +PFV+ Y+
Sbjct: 343 FGPSFDGPVAMGYVPVAWKVEGTEVFTELRGKKIALSVHSLPFVEQRYF 391
Score = 126 bits (319), Expect = 4e-32
Identities = 36/90 (40%), Positives = 48/90 (53%), Gaps = 4/90 (4%)
Query: 466 PEERGLIAVQGPLSSTILQRHTDLDLSSLYFMTSRPCTIAGIPCTLTRAGYTGEDGVEIS 525
ER L+A+QGP ++ +L L + L FM +TR+GYTGEDG EI+
Sbjct: 169 ALERVLLALQGPQAAAVLADA-GLPGNELLFMQG---FEPQQDWFITRSGYTGEDGFEIA 224
Query: 526 VPGEQCTHIVEALLSDEDVKLAGLGARDSL 555
+P + E LL D V+ GL ARDSL
Sbjct: 225 LPIGCARALAEKLLGDSRVEWVGLAARDSL 254
>1v5v_A Aminomethyltransferase; glycine-cleavage sytem, structural riken
structural genomics/proteomics initiative, RSGI; 1.50A
{Pyrococcus horikoshii} SCOP: b.44.2.1 d.250.1.1
Length = 401
Score = 285 bits (731), Expect = 2e-91
Identities = 68/252 (26%), Positives = 123/252 (48%), Gaps = 21/252 (8%)
Query: 197 QRTPLYDLHLSHGGKMVPFAGFSMPVQYGAVSITASHLHTRSKVSVFDVSHMLQTVVTGK 256
+R ++D H H K+ FAG+ MP+ Y SI HL R+ V +FDVSHM + V GK
Sbjct: 6 KRVHIFDWHKEHARKIEEFAGWEMPIWYS--SIKEEHLAVRNAVGIFDVSHMGEIVFRGK 63
Query: 257 HREEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLIVTKTLEDSLFLVSNASRRKVD 316
++L+ + D+ + GT +L NE+G I+D+ +V + ++ ++ +
Sbjct: 64 DALKFLQYVTTNDISKPPAISGTYTLVLNERGAIKDETLVFNMGNNEYLMICDSDAFEKL 123
Query: 317 MDLMVAAQDRFKSL-GKDIHLQFLSAEERGLIAVQGPLSSTILQRHTDLDLSSLYFMTSR 375
+ + D+ ++ + + + AVQGP + + + +D++ +++ +R
Sbjct: 124 YAWFTYLKRTIEQFTKLDLEIELKT-YDIAMFAVQGPKARDLAKDLFGIDINEMWWFQAR 182
Query: 376 PCTIAGIPCTLTRAGYTGEDGVEISVP--------------GEQCTHIVEALL---SDED 418
+ GI L+R+GYTGE+G E+ + E+ H+ E +L
Sbjct: 183 WVELDGIKMLLSRSGYTGENGFEVYIEDANPYHPDESKRGEPEKALHVWERILEEGKKYG 242
Query: 419 VKLAGLGARDSL 430
+K GLGARD+L
Sbjct: 243 IKPCGLGARDTL 254
Score = 134 bits (339), Expect = 1e-34
Identities = 32/102 (31%), Positives = 49/102 (48%), Gaps = 2/102 (1%)
Query: 20 GFPGASIIQSQIKSGVSRKRTGFTSTGVPI-RPGYEIFNANDQRVGAITSGCPSPSLKKN 78
F G + Q + GV RK F I R GY+++ AN + +G +TSG SP L
Sbjct: 296 DFIGKDALLKQKERGVGRKLVHFKMIDKGIPREGYKVY-ANGEMIGEVTSGTLSPLLNVG 354
Query: 79 IAMGYIEPAYSKVGVELWVRVRDKRVDVKVTKMPFVKSNYYT 120
I + +++ Y+K G+E+ V +R +R PF Y
Sbjct: 355 IGIAFVKEEYAKPGIEIEVEIRGQRKKAVTVTPPFYDPKKYG 396
Score = 113 bits (284), Expect = 3e-27
Identities = 31/120 (25%), Positives = 59/120 (49%), Gaps = 18/120 (15%)
Query: 453 KSLGKDIHLQFLSPEERGLIAVQGPLSSTILQRHTDLDLSSLYFMTSRPCTIAGIPCTLT 512
+ D+ ++ + + + AVQGP + + + +D++ +++ +R + GI L+
Sbjct: 136 QFTKLDLEIELKT-YDIAMFAVQGPKARDLAKDLFGIDINEMWWFQARWVELDGIKMLLS 194
Query: 513 RAGYTGEDGVEISVP--------------GEQCTHIVEALL---SDEDVKLAGLGARDSL 555
R+GYTGE+G E+ + E+ H+ E +L +K GLGARD+L
Sbjct: 195 RSGYTGENGFEVYIEDANPYHPDESKRGEPEKALHVWERILEEGKKYGIKPCGLGARDTL 254
>1yx2_A Aminomethyltransferase; glycine cleavage system T protein,
alpha-beta, beta-barrel, structural genomics, PSI,
protein structure initiative; 2.08A {Bacillus subtilis}
Length = 365
Score = 279 bits (716), Expect = 1e-89
Identities = 83/243 (34%), Positives = 124/243 (51%), Gaps = 13/243 (5%)
Query: 192 SPSAEQRTPLYDLHLSHGGKMVPFAGFSMPVQYGAVSITASHLHTRSKVSVFDVSHMLQT 251
S + +RTPL+DL+ +GGK + F G+ +PVQ+ SI H R+ +FDVSHM +
Sbjct: 1 SNAMLKRTPLFDLYKEYGGKTIDFGGWELPVQFS--SIKKEHEAVRTAAGLFDVSHMGEV 58
Query: 252 VVTGKHREEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLIVTKTLEDSLFLVSNAS 311
V+G +L+ + DV L PG+ + GG DDL++ + E+ LV NAS
Sbjct: 59 EVSGNDSLSFLQRLMTNDVSALTPGRAQYTAMCYPDGGTVDDLLIYQKGENRYLLVINAS 118
Query: 312 RRKVDMDLMVAAQDRFKSLGKDIHLQFLSAEERGLIAVQGPLSSTILQRHTDLDLSSL-Y 370
D+ M D+ + S ++ L+AVQGP + IL+ TD D+S+L
Sbjct: 119 NIDKDLAWMKEH------AAGDVQIDNQS-DQIALLAVQGPKAEAILKNLTDADVSALKP 171
Query: 371 FMTSRPCTIAGIPCTLTRAGYTGEDGVEISVPGEQCTHIVEALL---SDEDVKLAGLGAR 427
F I+G ++R GYTGEDG EI + HI + ++ + GLGAR
Sbjct: 172 FAFIDEADISGRKALISRTGYTGEDGYEIYCRSDDAMHIWKKIIDAGDAYGLIPCGLGAR 231
Query: 428 DSL 430
D+L
Sbjct: 232 DTL 234
Score = 125 bits (316), Expect = 8e-32
Identities = 38/104 (36%), Positives = 58/104 (55%), Gaps = 4/104 (3%)
Query: 14 RRRETGGFPGASIIQSQIKSGVSRKRTGFTST--GVPIRPGYEIFNANDQRVGAITSGCP 71
+ ++ F G S++ Q ++G RK G G+P R GYE+F N + VG +T+G
Sbjct: 263 KHKKESDFFGKSVLSEQKENGAKRKLVGLEMIEKGIP-RHGYEVF-QNGKSVGKVTTGTQ 320
Query: 72 SPSLKKNIAMGYIEPAYSKVGVELWVRVRDKRVDVKVTKMPFVK 115
SP+L KN+ + I+ S++G + V +R K V KV K PF K
Sbjct: 321 SPTLGKNVGLALIDSETSEIGTVVDVEIRKKLVKAKVVKTPFYK 364
Score = 114 bits (288), Expect = 5e-28
Identities = 37/105 (35%), Positives = 55/105 (52%), Gaps = 5/105 (4%)
Query: 455 LGKDIHLQFLSPEERGLIAVQGPLSSTILQRHTDLDLSSL-YFMTSRPCTIAGIPCTLTR 513
D+ + S ++ L+AVQGP + IL+ TD D+S+L F I+G ++R
Sbjct: 131 AAGDVQIDNQS-DQIALLAVQGPKAEAILKNLTDADVSALKPFAFIDEADISGRKALISR 189
Query: 514 AGYTGEDGVEISVPGEQCTHIVEALL---SDEDVKLAGLGARDSL 555
GYTGEDG EI + HI + ++ + GLGARD+L
Sbjct: 190 TGYTGEDGYEIYCRSDDAMHIWKKIIDAGDAYGLIPCGLGARDTL 234
>1wos_A Aminomethyltransferase; T-protein; 1.84A {Thermotoga maritima}
SCOP: b.44.2.1 d.250.1.1 PDB: 1woo_A* 1wop_A* 1wor_A
Length = 364
Score = 278 bits (713), Expect = 3e-89
Identities = 81/237 (34%), Positives = 123/237 (51%), Gaps = 11/237 (4%)
Query: 197 QRTPLYDLHLSHGGKMVPFAGFSMPVQYGAVSITASHLHTRSKVSVFDVSHMLQTVVTGK 256
+RTPL++ H+ G KMV FAG+ MP+ Y SI + R V +FDVSHM + +V G
Sbjct: 2 KRTPLFEKHVELGAKMVDFAGWEMPLYYT--SIFEEVMAVRKSVGMFDVSHMGEFLVKGP 59
Query: 257 HREEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLIVTKTLEDSLFLVSNASRRKVD 316
+++ + D L GK S+ NE GGI DDL+V K D +V NA+ + D
Sbjct: 60 EAVSFIDFLITNDFSSLPDGKAIYSVMCNENGGIIDDLVVYKVSPDEALMVVNAANIEKD 119
Query: 317 MDLMVAAQDRFKSLGKDIHLQFLSAEERGLIAVQGPLSSTILQRHTDLDLSSLYFMTSRP 376
+ + + F D+ + +S + LIA QGP + LQ + L + + + R
Sbjct: 120 FNWIKSHSKNF-----DVEVSNIS-DTTALIAFQGPKAQETLQELVEDGLEEIAYYSFRK 173
Query: 377 CTIAGIPCTLTRAGYTGEDGVEISVPGEQCTHIVEALL---SDEDVKLAGLGARDSL 430
+AG+ ++R GYTGEDG E+ + + + +AL+ D + AGLGARD
Sbjct: 174 SIVAGVETLVSRTGYTGEDGFELMLEAKNAPKVWDALMNLLRKIDGRPAGLGARDVC 230
Score = 116 bits (292), Expect = 1e-28
Identities = 33/103 (32%), Positives = 53/103 (51%), Gaps = 4/103 (3%)
Query: 456 GKDIHLQFLSPEERGLIAVQGPLSSTILQRHTDLDLSSLYFMTSRPCTIAGIPCTLTRAG 515
D+ + +S + LIA QGP + LQ + L + + + R +AG+ ++R G
Sbjct: 129 NFDVEVSNIS-DTTALIAFQGPKAQETLQELVEDGLEEIAYYSFRKSIVAGVETLVSRTG 187
Query: 516 YTGEDGVEISVPGEQCTHIVEALL---SDEDVKLAGLGARDSL 555
YTGEDG E+ + + + +AL+ D + AGLGARD
Sbjct: 188 YTGEDGFELMLEAKNAPKVWDALMNLLRKIDGRPAGLGARDVC 230
Score = 107 bits (271), Expect = 9e-26
Identities = 31/102 (30%), Positives = 44/102 (43%), Gaps = 5/102 (4%)
Query: 20 GFPGASIIQSQIKSGVSRKRTGFTST--GVPIRPGYEIFNANDQRVGAITSGCPSPSLKK 77
F G + K V RK + + R GYE+ N +RVG ITSG SP+L K
Sbjct: 263 DFVGKEALLKA-KEKVERKLVALELSGKRIA-RKGYEVLK-NGERVGEITSGNFSPTLGK 319
Query: 78 NIAMGYIEPAYSKVGVELWVRVRDKRVDVKVTKMPFVKSNYY 119
+IA+ + + V K V+ V K PF + +
Sbjct: 320 SIALALVSKSVKIGDQLGVVFPGGKLVEALVVKKPFYRGSVR 361
>1vlo_A Aminomethyltransferase; NP417381, tetrahydrofolat dependent) of
glycine cleavage system, structural genomics, protein
structure initiative; HET: MSE; 1.70A {Escherichia coli
K12} SCOP: b.44.2.1 d.250.1.1 PDB: 3a8j_A* 3a8i_A*
3a8k_A*
Length = 381
Score = 265 bits (679), Expect = 6e-84
Identities = 78/241 (32%), Positives = 111/241 (46%), Gaps = 11/241 (4%)
Query: 191 SSPSAEQRTPLYDLHLSHGGKMVPFAGFSMPVQYGAVSITASHLHTRSKVSVFDVSHMLQ 250
+ A Q+TPLY+ H G +MV F G+ MP+ YG S H R+ +FDVSHM
Sbjct: 9 PALRAAQQTPLYEQHTLCGARMVDFHGWMMPLHYG--SQIDEHHAVRTDAGMFDVSHMTI 66
Query: 251 TVVTGKHREEWLESICVADVHEL-DPGKGTLSLFTNEQGGIQDDLIVTKTLEDSLFLVSN 309
+ G E+L + DV +L GK S N GG+ DDLIV ED LV N
Sbjct: 67 VDLRGSRTREFLRYLLANDVAKLTKSGKALYSGMLNASGGVIDDLIVYYFTEDFFRLVVN 126
Query: 310 ASRRKVDMDLMVAAQDRFKSLGKDIHLQFLSAEERGLIAVQGPLSSTILQRHTDLDLSSL 369
++ R+ D+ + + F I + ++ +IAVQGP + +
Sbjct: 127 SATREKDLSWITQHAEPF-----GIEITVR--DDLSMIAVQGPNAQAKAATLFNDAQRQA 179
Query: 370 YFMTSRPCTIAGIPCTLTRAGYTGEDGVEISVPGEQCTHIVEALLSDEDVKLAGLGARDS 429
+ + GYTGE G EI++P E+ AL+ + VK GLGARD+
Sbjct: 180 VEGMKPFFGVQAGDLFIATTGYTGEAGYEIALPNEKAADFWRALV-EAGVKPCGLGARDT 238
Query: 430 L 430
L
Sbjct: 239 L 239
Score = 111 bits (281), Expect = 4e-27
Identities = 31/109 (28%), Positives = 47/109 (43%), Gaps = 10/109 (9%)
Query: 13 KRRRETGGFPGASIIQSQIKSGVSRKRTGFTST--GVPIRPGYEIFN---ANDQRVGAIT 67
F G ++ Q + G K G T GV R + +Q G IT
Sbjct: 268 AWEPADRDFIGREALEVQREHGT-EKLVGLVMTEKGVL-RNELPVRFTDAQGNQHEGIIT 325
Query: 68 SGCPSPSLKKNIAMGYIEPAYSKVGVELWVRVRDKRVDVKVTKMPFVKS 116
SG SP+L +IA+ + G V++R++ + VKVTK FV++
Sbjct: 326 SGTFSPTLGYSIALARVPEGI---GETAIVQIRNREMPVKVTKPVFVRN 371
Score = 104 bits (263), Expect = 1e-24
Identities = 27/89 (30%), Positives = 40/89 (44%), Gaps = 1/89 (1%)
Query: 467 EERGLIAVQGPLSSTILQRHTDLDLSSLYFMTSRPCTIAGIPCTLTRAGYTGEDGVEISV 526
++ +IAVQGP + + + + GYTGE G EI++
Sbjct: 152 DDLSMIAVQGPNAQAKAATLFNDAQRQAVEGMKPFFGVQAGDLFIATTGYTGEAGYEIAL 211
Query: 527 PGEQCTHIVEALLSDEDVKLAGLGARDSL 555
P E+ AL+ + VK GLGARD+L
Sbjct: 212 PNEKAADFWRALV-EAGVKPCGLGARDTL 239
>3ttg_A Putative aminomethyltransferase; structural genomics, PSI-biology,
midwest center for structu genomics, MCSG; 2.00A
{Leptospirillum rubarum}
Length = 355
Score = 256 bits (656), Expect = 6e-81
Identities = 40/241 (16%), Positives = 80/241 (33%), Gaps = 26/241 (10%)
Query: 198 RTPLYDLHLSHGGKMVPFAGFSMPVQYGAVSITASHLHTRSKVSVFDVS-HMLQTVVTGK 256
+ + H S G + + F G V K +F S V G+
Sbjct: 2 GSSHHHHHHSSGRENLYFQGMLTEVSD--------TRIAHKKFGLFYPSVSRPSIFVEGE 53
Query: 257 HREEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLIVTKTLEDSLFLVSNASRRKVD 316
R+ +L+ I D+ + D + S F N + I D ED + L A R+
Sbjct: 54 DRKNFLQGIASQDILKQDEKSLSYSFFLNPKARILFDAWCGN-FEDKIALFPPAGTREEF 112
Query: 317 MDLMVAAQDRFKSLGKDIHLQFLSAEERGLIAVQGPLSSTILQRHTDLDLSSLYFMTSRP 376
++ + ++ + +S + I + GP + ++L D + S F
Sbjct: 113 VNHL----KKYLFFRTKAKITDMS-DHFREIRLVGPETISVLLSLFDNNFSGSSFRM--- 164
Query: 377 CTIAGIPCTLTRAGYTGEDG----VEISVPGEQCTHIVEALL---SDEDVKLAGLGARDS 429
G + + ++ +P +Q ++L S++ L + +
Sbjct: 165 -LKNGGYVLIHPTSFQHNLDVGLQADLFIPIDQFETTQKSLEDFTSNKGGVLLDESSYLA 223
Query: 430 L 430
Sbjct: 224 Y 224
Score = 112 bits (283), Expect = 2e-27
Identities = 25/101 (24%), Positives = 41/101 (40%), Gaps = 8/101 (7%)
Query: 19 GGFPGASIIQSQIKSG-VSRKRTGFTSTGVPI-RPGYEIF---NANDQRVGAITSGCPSP 73
G + G + G ++R GF G P + + + + G +T S
Sbjct: 258 GCYVGQEPVTRLKFQGHLNRSLAGFRLEGGPFPKMEFPVTLFNPKDGNEAGILTRTSSSD 317
Query: 74 SLKKNIAMGYIEPAYSKVGVELWVRVRDKRVDVKVTKMPFV 114
L I +GYI+ +S+ G EL + V+V +PFV
Sbjct: 318 ILGSGIGLGYIKRNFSENGTELLL---PDAQLVRVHSLPFV 355
Score = 103 bits (258), Expect = 4e-24
Identities = 14/113 (12%), Positives = 36/113 (31%), Gaps = 12/113 (10%)
Query: 450 DRFKSLGKDIHLQFLSPEERGLIAVQGPLSSTILQRHTDLDLSSLYFMTSRPCTIAGIPC 509
++ + +S + I + GP + ++L D + S F G
Sbjct: 117 KKYLFFRTKAKITDMS-DHFREIRLVGPETISVLLSLFDNNFSGSSFRM----LKNGGYV 171
Query: 510 TLTRAGYTGEDG----VEISVPGEQCTHIVEALL---SDEDVKLAGLGARDSL 555
+ + ++ +P +Q ++L S++ L + +
Sbjct: 172 LIHPTSFQHNLDVGLQADLFIPIDQFETTQKSLEDFTSNKGGVLLDESSYLAY 224
>3tfi_A GCVT-like aminomethyltransferase protein; demethylase, THF; 1.60A
{Candidatus pelagibacter ubique} PDB: 3tfh_A 3tfj_A*
Length = 369
Score = 186 bits (475), Expect = 4e-54
Identities = 40/207 (19%), Positives = 83/207 (40%), Gaps = 12/207 (5%)
Query: 198 RTPLYDLHLSHGGKMVP-FAGFSMPVQYGAVSITASHLHTRSKVSVFDVSHMLQTVVTGK 256
TP G + +P +G SI S+ H + V ++DV+ Q ++GK
Sbjct: 14 STPYTSRIEKQGVTAYTIYNHMLLPAAFG--SIEDSYKHLKEHVQIWDVAAERQVEISGK 71
Query: 257 HREEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLIVTKTLEDSLFLVSNASRRKVD 316
E ++ + D+ + G+ +E G + +D +V K E+ ++ S D
Sbjct: 72 DSAELVQLMTCRDLSKSKIGRCYYCPIIDENGNLVNDPVVLKLDENKWWISIADS----D 127
Query: 317 MDLMVAAQDRFKSLGKDIHLQFLSAEERGLIAVQGPLSSTILQRHTDLDLSSLYFMTSRP 376
+ + G ++ + ++A+QGP S ++++ ++ L F
Sbjct: 128 VIFFAKGL----ASGHKFDVKIVE-PVVDIMAIQGPKSFALMEKVFGKKITELKFFGFDY 182
Query: 377 CTIAGIPCTLTRAGYTGEDGVEISVPG 403
G + R+G++ + G E+ V
Sbjct: 183 FDFEGTKHLIARSGWSKQGGYEVYVEN 209
Score = 109 bits (276), Expect = 2e-26
Identities = 21/96 (21%), Positives = 43/96 (44%), Gaps = 2/96 (2%)
Query: 21 FPGASIIQSQIKSGVSRKRTGFTSTGVPI-RPGYE-IFNANDQRVGAITSGCPSPSLKKN 78
F G ++ G +K G I G + I++ N+ +G + S C SP +K
Sbjct: 274 FLGKEKLKEIKLKGPQKKLRGVKIDIKEISLTGSKNIYDENNNVIGELRSACYSPHFQKV 333
Query: 79 IAMGYIEPAYSKVGVELWVRVRDKRVDVKVTKMPFV 114
I + I+ ++ + +++ D ++ V +PF+
Sbjct: 334 IGIAMIKKSHWEASQGFKIQINDNTINGNVCDLPFI 369
Score = 71.4 bits (176), Expect = 2e-13
Identities = 15/73 (20%), Positives = 33/73 (45%), Gaps = 1/73 (1%)
Query: 456 GKDIHLQFLSPEERGLIAVQGPLSSTILQRHTDLDLSSLYFMTSRPCTIAGIPCTLTRAG 515
G ++ + P ++A+QGP S ++++ ++ L F G + R+G
Sbjct: 138 GHKFDVKIVEPV-VDIMAIQGPKSFALMEKVFGKKITELKFFGFDYFDFEGTKHLIARSG 196
Query: 516 YTGEDGVEISVPG 528
++ + G E+ V
Sbjct: 197 WSKQGGYEVYVEN 209
>1pj5_A N,N-dimethylglycine oxidase; channelling, FAD binding, folate
binding, amine oxidase, oxidoreductase; HET: FAD; 1.61A
{Arthrobacter globiformis} SCOP: b.44.2.1 c.3.1.2
d.16.1.5 d.250.1.1 PDB: 1pj6_A* 1pj7_A* 3gsi_A*
Length = 830
Score = 146 bits (371), Expect = 2e-37
Identities = 53/237 (22%), Positives = 100/237 (42%), Gaps = 7/237 (2%)
Query: 200 PLYDLHLSHGGKMVPFAGFSMPVQYGAVSITASHLHTRSKVSVFDVSHMLQTVVTGKHRE 259
L + +P A + + + A TR+ V+++D++ + + V+G
Sbjct: 460 ANAALLKEMPAEWLPPARDAWSGMFSSPIAAAEAWKTRTAVAMYDMTPLKRLEVSGPGAL 519
Query: 260 EWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLIVTKTLEDSLFLVSNASRRKVDMDL 319
+ L+ + AD+ PG T +L + GG++ D+ V + ED+ L +N + +
Sbjct: 520 KLLQELTTADL-AKKPGAVTYTLLLDHAGGVRSDITVARLSEDTFQLGANGNIDTAYFER 578
Query: 320 MVAAQDRFKSLGKDIHLQFLSAEERGLIAVQGPLSSTILQRHTDLDLS--SLYFMTSRPC 377
Q + S + ++ + I + GPL+ ++ + +D D + L + ++
Sbjct: 579 AARHQTQSGSATDWVQVRDTT-GGTCCIGLWGPLARDLVSKVSDDDFTNDGLKYFRAKNV 637
Query: 378 TIAGIPCTLTRAGYTGEDGVEISVPGEQCTHIVEALLS---DEDVKLAGLGARDSLS 431
I GIP T R Y GE G E+ + + +AL V AG A SL
Sbjct: 638 VIGGIPVTAMRLSYVGELGWELYTSADNGQRLWDALWQAGQPFGVIAAGRAAFSSLR 694
Score = 80.9 bits (200), Expect = 4e-16
Identities = 26/94 (27%), Positives = 40/94 (42%), Gaps = 5/94 (5%)
Query: 467 EERGLIAVQGPLSSTILQRHTDLDLS--SLYFMTSRPCTIAGIPCTLTRAGYTGEDGVEI 524
I + GPL+ ++ + +D D + L + ++ I GIP T R Y GE G E+
Sbjct: 600 GGTCCIGLWGPLARDLVSKVSDDDFTNDGLKYFRAKNVVIGGIPVTAMRLSYVGELGWEL 659
Query: 525 SVPGEQCTHIVEALLS---DEDVKLAGLGARDSL 555
+ + +AL V AG A SL
Sbjct: 660 YTSADNGQRLWDALWQAGQPFGVIAAGRAAFSSL 693
Score = 62.4 bits (152), Expect = 2e-10
Identities = 25/101 (24%), Positives = 43/101 (42%), Gaps = 4/101 (3%)
Query: 15 RRETGGFPGASIIQSQIKSGVSRKRTGFT-STGVPIRPGYE-IFNANDQRVGAITSGCPS 72
+ F G ++ + + +R+ T G I G E +F +Q VG +TS
Sbjct: 722 KMAKESFIGKGALEGRTEEASARRLRCLTIDDGRSIVLGKEPVF-YKEQAVGYVTSAAYG 780
Query: 73 PSLKKNIAMGYIEPAYSKVGVELWVRVRDKRVDVKVTKMPF 113
++ K IA Y+ P VG + + +R+ VT+ P
Sbjct: 781 YTVAKPIAYSYL-PGTVSVGDSVDIEYFGRRITATVTEDPL 820
>2gag_A Heterotetrameric sarcosine oxidase alpha-subunit; flavoenzyme,
electron transfer, folate-ME enzyme, oxidoreductase;
HET: NAD FAD FMN; 1.85A {Stenotrophomonas maltophilia}
PDB: 2gah_A* 1x31_A* 1vrq_A* 3ad7_A* 3ad8_A* 3ad9_A*
3ada_A*
Length = 965
Score = 90.8 bits (225), Expect = 3e-19
Identities = 50/236 (21%), Positives = 96/236 (40%), Gaps = 14/236 (5%)
Query: 190 GSSPSAEQRTPLYDLHLSHGGKMVPFAGFSMPVQYGAV------SITASHLHTRSKVSVF 243
G + T ++ HLSHG + + P Y ++ R V +
Sbjct: 568 GDQLDPARITAMHSWHLSHGAEFEDVGQWKRPWYYPQAGETMDQAVYRESKAVRDSVGML 627
Query: 244 DVSHMLQTVVTGKHREEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLIVTKTLEDS 303
D + + + + GK E+L I +L G G + G I DD + + L +
Sbjct: 628 DATTLGKIEIRGKDAAEFLNRIYTNGYTKLKVGMGRYGVMCKADGMIFDDGVTLR-LAED 686
Query: 304 LFLVSNASRRKVDMDLMVAAQDRFKSLGKDIHLQFLSAEER-GLIAVQGPLSSTILQR-H 361
FL+ + D+ + ++ ++ D+ + S E+ +AV GP S ++ +
Sbjct: 687 RFLLHTTTGGAADV--LDWLEEWLQTEWPDLDVTCTSVTEQLATVAVVGPRSRDVIAKLA 744
Query: 362 TDLDLS--SLYFMTSRPCTI-AGIPCTLTRAGYTGEDGVEISVPGEQCTHIVEALL 414
+ +D+S FM + + +GI ++R ++GE EI+VP + E +
Sbjct: 745 STVDVSNEGFKFMAFKDVVLDSGIEARISRISFSGELAFEIAVPAWHGLRVWEDVY 800
Score = 57.3 bits (138), Expect = 1e-08
Identities = 15/66 (22%), Positives = 27/66 (40%)
Query: 49 IRPGYEIFNANDQRVGAITSGCPSPSLKKNIAMGYIEPAYSKVGVELWVRVRDKRVDVKV 108
+ G +TS SP+L + + I+ +++G L V D+ VDV V
Sbjct: 891 VASDALASEGITPMEGWVTSSYDSPNLGRTFGLALIKNGRNRIGEVLKTPVGDQLVDVVV 950
Query: 109 TKMPFV 114
++
Sbjct: 951 SETVLY 956
Score = 53.4 bits (128), Expect = 1e-07
Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 472 IAVQGPLSSTILQR-HTDLDLS--SLYFMTSRPCTI-AGIPCTLTRAGYTGEDGVEISVP 527
+AV GP S ++ + + +D+S FM + + +GI ++R ++GE EI+VP
Sbjct: 729 VAVVGPRSRDVIAKLASTVDVSNEGFKFMAFKDVVLDSGIEARISRISFSGELAFEIAVP 788
Query: 528 GEQCTHIVEALL 539
+ E +
Sbjct: 789 AWHGLRVWEDVY 800
>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 = 55.4 bits (133), Expect = 5e-08
Identities = 67/388 (17%), Positives = 116/388 (29%), Gaps = 126/388 (32%)
Query: 133 EPAYSKVGVEL--WVRVRDKRVDVKVTKMPFLKSNYHTPPKYFLK--FLSF-FSGLT--- 184
E +++ G+ + W+ TP K +L +S G+
Sbjct: 206 EKVFTQ-GLNILEWLENPSN-----------------TPDKDYLLSIPISCPLIGVIQLA 247
Query: 185 --FVF--SPGSSPSAEQRTPLYDLHLSHGGKMVPFAGFSMP------------------- 221
V G +P E R+ L H +V +
Sbjct: 248 HYVVTAKLLGFTP-GELRSYLKGA-TGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFF 305
Query: 222 ----VQ--YGAVSITASHLHTRSKVSVFDVSHMLQTVVTGKHREEWLESICVADVHELDP 275
Y S+ S L + + S ML ++ +E+ ++ L
Sbjct: 306 IGVRCYEAYPNTSLPPSILEDSLENNEGVPSPML--SISNLTQEQ-VQDYVNKTNSHLPA 362
Query: 276 GKG-TLSLFTNEQGGIQDDLIVTKTLEDSLFLVSNASRR-KVDMDLMVAAQDR--FKSLG 331
GK +SL N G +L+V+ + SL+ ++ R+ K L Q R F
Sbjct: 363 GKQVEISLV-N---G-AKNLVVSGPPQ-SLYGLNLTLRKAKAPSGL---DQSRIPFSERK 413
Query: 332 KDIHLQFLSAEERGLIAVQGPLSSTILQRHTDLDLSSLYFMTSRPCTIAG----IP--CT 385
+FL +A P S +L +DL L + IP T
Sbjct: 414 LKFSNRFLP------VAS--PFHSHLLVPASDLINKDL---VKNNVSFNAKDIQIPVYDT 462
Query: 386 LTRAGYTGED--GVEISVPGEQC------------------THIVE---------ALLSD 416
+ G D + S+ THI++ +L+
Sbjct: 463 -----FDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTH 517
Query: 417 EDVKLAGLGARDSLSGDITLNTPVPHGS 444
+ G G R ++G + +N +G
Sbjct: 518 RNKD--GTGVRVIVAGTLDINPDDDYGF 543
Score = 47.0 bits (111), Expect = 2e-05
Identities = 75/538 (13%), Positives = 144/538 (26%), Gaps = 220/538 (40%)
Query: 168 TPPKYFLKFLSFFSGLTFVFSPGSSPSAEQ----------RTPLY--DLHLSHGGKMVPF 215
TP + KFL + ++ + P +Q L D+H + K++
Sbjct: 56 TPAELVGKFLGY---VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIH-ALAAKLLQE 111
Query: 216 AGFSMPVQ-------YGAVSITASHLHTRSKVSVFDVSHMLQTVVTGKHR---------- 258
++ A + +S S + + V G +
Sbjct: 112 NDTTLVKTKELIKNYITARIMAKRPFDKKSN------SALFRAVGEGNAQLVAIFGGQGN 165
Query: 259 -EEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLI--VTKTLEDSLFLVSNASRRKV 315
+++ E EL L+ + DLI +TL + L+
Sbjct: 166 TDDYFE--------EL------RDLYQTYHVLVG-DLIKFSAETLSE---LIRTTLD--- 204
Query: 316 DMDLMVAAQDRFKSLGKDIHLQFLSAEER-------GLIAVQGPLSSTILQRHTDLDLSS 368
++ + G +I L++L I + PL ++Q L+
Sbjct: 205 --------AEKVFTQGLNI-LEWLENPSNTPDKDYLLSIPISCPL-IGVIQ------LAH 248
Query: 369 LYFMTSR-----PCTIAGIPCTLTR------------AGYTGEDGVEISVP--------G 403
Y +T++ P + T + E G
Sbjct: 249 -YVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIG 307
Query: 404 EQCTHI-----VEALLSDEDVK---------LA--GLGARDSLSGDIT-LNTPVP---HG 443
+C + + ++ ++ L+ L ++ + + N+ +P
Sbjct: 308 VRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNL-TQEQVQDYVNKTNSHLPAGKQV 366
Query: 444 SLKLSN--DRF------KSL--------------GKD------------IHLQFLSPEER 469
+ L N +SL G D +FL P
Sbjct: 367 EISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFL-P--- 422
Query: 470 GLIAVQGPLSSTILQRHTDLDLSSLYFMTSRPCTIAG----IP--CTLTRAGYTGED--G 521
+A P S +L +DL L + IP T + G D
Sbjct: 423 --VAS--PFHSHLLVPASDLINKDL---VKNNVSFNAKDIQIPVYDT-----FDGSDLRV 470
Query: 522 VEISVPGEQC------------------THIVE---------ALLSDEDVKLAGLGAR 552
+ S+ THI++ +L+ + G G R
Sbjct: 471 LSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKD--GTGVR 526
Score = 39.6 bits (92), Expect = 0.003
Identities = 49/279 (17%), Positives = 85/279 (30%), Gaps = 77/279 (27%)
Query: 118 YYTPPKIRKVKKKGDEPAYSKVGVELWVRVRD--KRVDV-------KVTKMPFLKSNYHT 168
Y T + V + D G + V + + + K + + + T
Sbjct: 1636 YKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFET 1695
Query: 169 PPKYFLKFLSFF-------SGLTFVFSPGSSPSAE----QRT-P--------LYDLHLSH 208
LK F + TF S Q T P ++ S
Sbjct: 1696 IVDGKLKTEKIFKEINEHSTSYTF-----RSEKGLLSATQFTQPALTLMEKAAFEDLKSK 1750
Query: 209 GGKMVP--FAGFSMPV-QYGAVSITASHLHTRSKVSVFDVSHMLQTVVTGKHREEWLESI 265
G FAG S + +Y A++ A V + +++ V +R ++
Sbjct: 1751 GLIPADATFAGHS--LGEYAALASLA---------DVMSIESLVEVV---FYRGMTMQVA 1796
Query: 266 CVADVHE--------LDPGKGTLSLFTNEQGGIQDDLIVTKTLEDSLFLVS----NASRR 313
D ++PG+ S Q +Q +V + + + +LV N +
Sbjct: 1797 VPRDELGRSNYGMIAINPGRVAASF---SQEALQY--VVERVGKRTGWLVEIVNYNVENQ 1851
Query: 314 -------KVDMDLMVAAQDRFKSLGKDI-HLQF-LSAEE 343
+D + + K DI LQ LS EE
Sbjct: 1852 QYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSLEE 1890
>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 = 53.3 bits (127), Expect = 2e-07
Identities = 69/571 (12%), Positives = 162/571 (28%), Gaps = 151/571 (26%)
Query: 26 IIQSQIKSGVSRKRTGFTSTGVPIRPGYEIFNANDQRVGAITSGCPSPSLKKNIAMGYIE 85
+ S+ + V + F +R Y+ + I + PS+ + + +
Sbjct: 70 TLLSKQEEMVQK----FVEEV--LRINYKFL------MSPIKTEQRQPSMMTRMYIEQRD 117
Query: 86 PAYSKVGVELWVRVRDKRVDVKVTKMPFVKSNYYTPPKIRKVKK--KGDEPAYSKVGVE- 142
Y+ D + F K N K+++ PA V ++
Sbjct: 118 RLYN---------------DNQ----VFAKYNVSRLQPYLKLRQALLELRPA-KNVLIDG 157
Query: 143 --------LWVRV-RDKRVDVKVTKMPF----LK-SNYHTPPKYFLKFLSFFSGLTFVFS 188
+ + V +V KM F L N ++P + ++
Sbjct: 158 VLGSGKTWVALDVCLSYKV---QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWT 214
Query: 189 PGSSPSAEQRTPLYDL--HLSHGGKMVPFAGFSMPVQYGAVSITASHLHTRSKVSVFDVS 246
S S+ + ++ + L Y + ++ + F++S
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRR---------LLKSKPYENCLLVLLNVQNAKAWNAFNLS 265
Query: 247 HMLQTVVTGKHRE--EWLESICVADVHELDPGKG-----TLSLFTNEQGGIQDDL----- 294
+ ++T + ++ ++L + + SL DL
Sbjct: 266 --CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVL 323
Query: 295 --------IVTKTLEDSL-----FLVSNASRRKVDMDLMVAAQD------RFKSLG---K 332
I+ +++ D L + N + ++ + + F L
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPP 383
Query: 333 DIH-----LQFL----SAEERGLIAVQGPLSSTILQRHTD---LDLSSLYFMTSRPCTIA 380
H L + + ++ V +++++ + + S+Y
Sbjct: 384 SAHIPTILLSLIWFDVIKSDVMVV-VNKLHKYSLVEKQPKESTISIPSIYLELKVKLENE 442
Query: 381 G------IPCTLTRAGYTGEDGVEISVPGEQCTHIV----EALLSDE------------- 417
+ + +D + + +HI +
Sbjct: 443 YALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRF 502
Query: 418 -DVKLAGLGARDSLSGDITLNTPVPHGSLKL-------SNDRFKSLGKDIHLQFLSPEER 469
+ K+ + SG I LNT LK ++ +++ L I L FL E
Sbjct: 503 LEQKIRHDSTAWNASGSI-LNT---LQQLKFYKPYICDNDPKYERLVNAI-LDFLPKIEE 557
Query: 470 GLIAVQGPLSSTILQRHTDLDLSSLYFMTSR 500
LI + +L+ + +++ +
Sbjct: 558 NLI--CSK-YTDLLRIALMAEDEAIFEEAHK 585
>1vly_A SPOT PR51, unknown protein from 2D-PAGE; structural genomics, joint
center for structural genomics, J protein structure
initiative, PSI; HET: MSE; 1.30A {Escherichia coli}
SCOP: b.44.2.1 d.250.1.1 PDB: 1nrk_A
Length = 338
Score = 48.2 bits (115), Expect = 4e-06
Identities = 13/78 (16%), Positives = 33/78 (42%), Gaps = 1/78 (1%)
Query: 236 TRSKVSVFDVSHMLQTVVTGKHREEWLESICVADVHELDPGKGTLSLFTNEQGGIQDDLI 295
R +++ + +TG E++++ ADV ++ + L+ + +G + +L
Sbjct: 27 ARLPLTLMTLDDWALATITGADSEKYMQGQVTADVSQMAEDQHLLAAHCDAKGKMWSNLR 86
Query: 296 VTKTLEDSLFLVSNASRR 313
+ + D + S R
Sbjct: 87 LFRD-GDGFAWIERRSVR 103
>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 = 1.5
Identities = 7/24 (29%), Positives = 13/24 (54%), Gaps = 3/24 (12%)
Query: 171 KYFLKFLSFFSGLTFVFSPGSSPS 194
K LK L + L +++ S+P+
Sbjct: 19 KQALKKLQ--ASLK-LYADDSAPA 39
>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+
molecular machine, hexamer, asymmetric,, ATP-BIN
chaperone, metal-binding; HET: ADP; 3.25A {Escherichia
coli} PDB: 3hte_A
Length = 363
Score = 30.2 bits (69), Expect = 1.6
Identities = 19/43 (44%), Positives = 23/43 (53%), Gaps = 12/43 (27%)
Query: 385 TLTRAGYTGEDGVEISVPGEQCTHIVEALL--SDEDVKLAGLG 425
TLT AGY GED VE +I++ LL D DV+ A G
Sbjct: 86 TLTEAGYVGED-VE---------NIIQKLLQKCDYDVQKAQRG 118
Score = 30.2 bits (69), Expect = 1.6
Identities = 19/43 (44%), Positives = 23/43 (53%), Gaps = 12/43 (27%)
Query: 510 TLTRAGYTGEDGVEISVPGEQCTHIVEALL--SDEDVKLAGLG 550
TLT AGY GED VE +I++ LL D DV+ A G
Sbjct: 86 TLTEAGYVGED-VE---------NIIQKLLQKCDYDVQKAQRG 118
>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding
loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori}
SCOP: c.37.1.20
Length = 376
Score = 30.3 bits (69), Expect = 1.8
Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 12/43 (27%)
Query: 385 TLTRAGYTGEDGVEISVPGEQCTHIVEALL--SDEDVKLAGLG 425
+LT AGY GED VE +I+ LL SD +V+ A G
Sbjct: 107 SLTEAGYVGED-VE---------NILTRLLQASDWNVQKAQKG 139
Score = 30.3 bits (69), Expect = 1.8
Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 12/43 (27%)
Query: 510 TLTRAGYTGEDGVEISVPGEQCTHIVEALL--SDEDVKLAGLG 550
+LT AGY GED VE +I+ LL SD +V+ A G
Sbjct: 107 SLTEAGYVGED-VE---------NILTRLLQASDWNVQKAQKG 139
>2ebw_A DNA repair protein REV1; A/B/A 3 layers, parallel beta-sheet, DNA
replication, translession synthesis, TLS, DNA polymerase
zeta, PCNA; HET: DNA; NMR {Homo sapiens}
Length = 97
Score = 27.9 bits (62), Expect = 2.6
Identities = 10/37 (27%), Positives = 16/37 (43%), Gaps = 3/37 (8%)
Query: 178 SFFSGLTFVFSPGSSPSAEQRTPLYDLHLSHGGKMVP 214
+ FSG+ + + PS L L + HGG+
Sbjct: 11 TIFSGVAIYVNGYTDPS---AEELRKLMMLHGGQYHV 44
>1q16_C Cytochrome B-NR, respiratory nitrate reductase 1 gamma chain;
membrane protein, electron-transfer, oxidoreductase;
HET: FME MD1 HEM AGA 3PH; 1.90A {Escherichia coli} SCOP:
f.21.3.1 PDB: 1siw_C* 1y4z_C* 3ir5_C* 3ir6_C* 3ir7_C*
1y5l_C* 1y5i_C* 1y5n_C* 3egw_C*
Length = 225
Score = 28.4 bits (63), Expect = 5.7
Identities = 16/68 (23%), Positives = 29/68 (42%), Gaps = 8/68 (11%)
Query: 164 SNYHTPPKYFLKFLSFFSGLTFVFSPGSSPSAEQRTPLYDLHLSHGGKMV---PFA---- 216
S H +K + + + F G+S + ++ LHL G + PF+
Sbjct: 147 SAQHMDGSEMMKLVGWAQSV-VTFHGGASQHLDGVAFIFRLHLVLGMTLFLLFPFSRLIH 205
Query: 217 GFSMPVQY 224
+S+PV+Y
Sbjct: 206 IWSVPVEY 213
>2vxb_A DNA repair protein RHP9; BRCT, nucleus, cell cycle, DNA damage, DNA
replication inhibitor, phosphoprotein, checkpoint
signalling; HET: DNA; 2.3A {Schizosaccharomyces pombe}
PDB: 2vxc_A*
Length = 241
Score = 28.0 bits (61), Expect = 7.3
Identities = 16/113 (14%), Positives = 31/113 (27%), Gaps = 17/113 (15%)
Query: 180 FSGLTFVFSPGSSPSAEQRTPLYDLHLSHGGKMVPFAGFSMPVQYGAVSITASHLHTRSK 239
F F FS A R+ L + HGG ++ G S H + +
Sbjct: 3 FDDCVFAFSGPVHEDAYDRSALETVVQDHGGLVLD-TGLRPLFNDPFKSKQKKLRHLKPQ 61
Query: 240 VSVFDVSH-------------MLQTVVTGKH--REEWLESICVADVHELDPGK 277
+ L+ + ++++ C+ +D
Sbjct: 62 KRSKSWNQAFVVSDTFSRKVKYLEALAFNIPCVHPQFIKQ-CLKMNRVVDFSP 113
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
0.319 0.136 0.398
Gapped
Lambda K H
0.267 0.0785 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,417,435
Number of extensions: 518983
Number of successful extensions: 991
Number of sequences better than 10.0: 1
Number of HSP's gapped: 938
Number of HSP's successfully gapped: 56
Length of query: 555
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 457
Effective length of database: 3,965,535
Effective search space: 1812249495
Effective search space used: 1812249495
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (26.8 bits)