RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5230
(258 letters)
>3q0i_A Methionyl-tRNA formyltransferase; structural genomics, center for
structural genomics of infec diseases, csgid; 1.89A
{Vibrio cholerae}
Length = 318
Score = 158 bits (401), Expect = 5e-47
Identities = 44/159 (27%), Positives = 76/159 (47%), Gaps = 8/159 (5%)
Query: 95 ILPEDTSLTLQNKLEKLSKILIIDTIKKIEYDMTKLFFKPQSNIGESYAPLIKKNEAVLD 154
I DTS ++ +KL +L +++ ++ I Q + +YA + K EA ++
Sbjct: 162 IEASDTSASMYDKLAELGPQALLECLQDIA--QGTAVAVKQDDGLANYAHKLSKEEARIN 219
Query: 155 WSLSAKTIMRKINAFNPFPGAKTYYISYQNKKKFLKIWKAHALSIESTKKPGTILNVNFH 214
WS +A I R I AFNP+P + + +K+W+A + T+ PGTI+ +
Sbjct: 220 WSDAATHIERCIRAFNPWPMSHFEV-----AENSIKVWQARVETRAVTQTPGTIIQAD-K 273
Query: 215 NGILVVCGKNVIKLLELQKNNKKKISATEFINGCIKNIK 253
+GI V G++V+ L LQ KK + + +N
Sbjct: 274 SGIYVATGQDVLVLESLQIPGKKALPVQDILNARADWFS 312
Score = 101 bits (253), Expect = 2e-25
Identities = 38/101 (37%), Positives = 62/101 (61%), Gaps = 11/101 (10%)
Query: 1 MKIIFAGTSISAAAILDTLYNSEHNIVLILTKPDLHSGRGMKLNFSPVKKYALKHSIKII 60
++I+FAGT AA L L +SEH I+ + T+P+ +GRG KL SPVK AL+H++ +
Sbjct: 8 LRIVFAGTPDFAARHLAALLSSEHEIIAVYTQPERPAGRGKKLTASPVKTLALEHNVPVY 67
Query: 61 QPISLKLNGKYHKIANETHKLLNKIEFDIMIVM--G-ILPE 98
QP + K ++E+ + L + D+M+V+ G +LP+
Sbjct: 68 QPENFK--------SDESKQQLAALNADLMVVVAYGLLLPK 100
>3tqq_A Methionyl-tRNA formyltransferase; protein synthesis; 2.00A
{Coxiella burnetii}
Length = 314
Score = 155 bits (395), Expect = 4e-46
Identities = 47/153 (30%), Positives = 86/153 (56%), Gaps = 8/153 (5%)
Query: 95 ILPEDTSLTLQNKLEKLSKILIIDTIKKIEYDMTKLFFKPQSNIGESYAPLIKKNEAVLD 154
I EDT+ L ++L + L+++++ K+E + + Q +YA I+K EA++D
Sbjct: 157 ISSEDTAADLHDRLSLIGADLLLESLAKLEKG--DIKLEKQDEASATYASKIQKQEALID 214
Query: 155 WSLSAKTIMRKINAFNPFPGAKTYYISYQNKKKFLKIWKAHALSIESTKKPGTILNVNFH 214
W SA I R++ AFNP P A TY+ + + ++IW+A + ++ +PG +++ +
Sbjct: 215 WRKSAVEIARQVRAFNPTPIAFTYF-----EGQPMRIWRATVVDEKTDFEPGVLVDAD-K 268
Query: 215 NGILVVCGKNVIKLLELQKNNKKKISATEFING 247
GI + G +++L +LQ K+ SA +FIN
Sbjct: 269 KGISIAAGSGILRLHQLQLPGKRVCSAGDFINA 301
Score = 101 bits (254), Expect = 2e-25
Identities = 39/102 (38%), Positives = 57/102 (55%), Gaps = 11/102 (10%)
Query: 1 MKIIFAGTSISAAAILDTLYNSEHNIVLILTKPDLHSGRGMKLNFSPVKKYALKHSIKII 60
+KI+FAGT A L L +S H ++ + T+PD SGRG K+ SPVK+ A ++ I II
Sbjct: 3 LKIVFAGTPQFAVPTLRALIDSSHRVLAVYTQPDRPSGRGQKIMESPVKEIARQNEIPII 62
Query: 61 QPISLKLNGKYHKIANETHKLLNKIEFDIMIVM--G-ILPED 99
QP SL+ + L + D+M+V+ G ILP+
Sbjct: 63 QPFSLR--------DEVEQEKLIAMNADVMVVVAYGLILPKK 96
>1fmt_A Methionyl-tRNA FMet formyltransferase; initiator tRNA, translation
initiation; 2.00A {Escherichia coli} SCOP: b.46.1.1
c.65.1.1 PDB: 2fmt_A* 3r8x_A
Length = 314
Score = 154 bits (391), Expect = 1e-45
Identities = 55/159 (34%), Positives = 80/159 (50%), Gaps = 8/159 (5%)
Query: 95 ILPEDTSLTLQNKLEKLSKILIIDTIKKIEYDMTKLFFKPQSNIGESYAPLIKKNEAVLD 154
I EDTS TL +KL +L +I T+K++ + Q +YA + K EA +D
Sbjct: 158 ITAEDTSGTLYDKLAELGPQGLITTLKQLADG--TAKPEVQDETLVTYAEKLSKEEARID 215
Query: 155 WSLSAKTIMRKINAFNPFPGAKTYYISYQNKKKFLKIWKAHALSIESTKKPGTILNVNFH 214
WSLSA + R I AFNP+P + + + +K+WKA + + PGTIL N
Sbjct: 216 WSLSAAQLERCIRAFNPWPMSWLEI-----EGQPVKVWKASVIDTATNAAPGTILEAN-K 269
Query: 215 NGILVVCGKNVIKLLELQKNNKKKISATEFINGCIKNIK 253
GI V G ++ LL LQ KK +SA + +N +
Sbjct: 270 QGIQVATGDGILNLLSLQPAGKKAMSAQDLLNSRREWFV 308
Score = 100 bits (251), Expect = 4e-25
Identities = 41/102 (40%), Positives = 62/102 (60%), Gaps = 11/102 (10%)
Query: 1 MKIIFAGTSISAAAILDTLYNSEHNIVLILTKPDLHSGRGMKLNFSPVKKYALKHSIKII 60
++IIFAGT AA LD L +S HN+V + T+PD +GRG KL SPVK A + + +
Sbjct: 4 LRIIFAGTPDFAARHLDALLSSGHNVVGVFTQPDRPAGRGKKLMPSPVKVLAEEKGLPVF 63
Query: 61 QPISLKLNGKYHKIANETHKLLNKIEFDIMIVM--G-ILPED 99
QP+SL+ E +L+ +++ D+M+V+ G ILP+
Sbjct: 64 QPVSLR--------PQENQQLVAELQADVMVVVAYGLILPKA 97
>3rfo_A Methionyl-tRNA formyltransferase; structural genomics, center for
structural genomics of infec diseases, csgid, alpha-beta
structure, cytosol; HET: PGE; 2.40A {Bacillus anthracis}
Length = 317
Score = 149 bits (380), Expect = 7e-44
Identities = 38/154 (24%), Positives = 76/154 (49%), Gaps = 9/154 (5%)
Query: 95 ILPEDTSLTLQNKLEKLSKILIIDTIKKIEYDMTKLFFKPQSNIGESYAPLIKKNEAVLD 154
I +T+ +L +KL + L+ T+ + KL Q+ ++A IK+ + +D
Sbjct: 159 IEERETTGSLFDKLSEAGAHLLSKTVPLLIQG--KLEPIKQNEEEVTFAYNIKREQEKID 216
Query: 155 WSLSAKTIMRKINAFNPFPGAKTYYISYQNKKKFLKIWKAHALSIESTKKPGTILNVNFH 214
W+ + + + I NP+P A T + +K+W + + + + GTI+ +
Sbjct: 217 WTKTGEEVYNHIRGLNPWPVAYTTL-----AGQVVKVWWGEKVPVTKSAEAGTIVAIE-E 270
Query: 215 NGILVVCGKN-VIKLLELQKNNKKKISATEFING 247
+G +V G +K+ ELQ + KK++S ++F+ G
Sbjct: 271 DGFVVATGNETGVKITELQPSGKKRMSCSQFLRG 304
Score = 99.9 bits (250), Expect = 5e-25
Identities = 26/101 (25%), Positives = 53/101 (52%), Gaps = 11/101 (10%)
Query: 1 MKIIFAGTSISAAAILDTLYNSEHNIVLILTKPDLHSGRGMKLNFSPVKKYALKHSIKII 60
+K++F GT + +L L ++++ ++T+PD GR L +PVK A KH I ++
Sbjct: 5 IKVVFMGTPDFSVPVLRRLIEDGYDVIGVVTQPDRPVGRKKVLTPTPVKVEAEKHGIPVL 64
Query: 61 QPISLKLNGKYHKIANETHKLLNKIEFDIMIVM--G-ILPE 98
QP+ ++ + ++ + +E D+++ G I+P
Sbjct: 65 QPLRIR--------EKDEYEKVLALEPDLIVTAAFGQIVPN 97
>2bln_A Protein YFBG; transferase, formyltransferase, L-ARA4N biosynthesis,
methyltransferase; HET: FON U5P; 1.2A {Escherichia coli}
SCOP: b.46.1.1 c.65.1.1 PDB: 1yrw_A
Length = 305
Score = 144 bits (367), Expect = 4e-42
Identities = 29/154 (18%), Positives = 68/154 (44%), Gaps = 11/154 (7%)
Query: 95 ILPEDTSLTLQNKLEKLSKILIIDTIKKIEYDMTKLFFKPQSNIGESYAPLIKKNEAVLD 154
I P+D ++TL +KL ++ L+ T+ I++ + Q + +++ L+
Sbjct: 152 IAPDDIAITLHHKLCHAARQLLEQTLPAIKHG--NILEIAQRENEATCFGRRTPDDSFLE 209
Query: 155 WSLSAKTIMRKINAF-NPFPGAKTYYISYQNKKKFLKIWKAHALSIESTKKPGTILNVNF 213
W A + + A +P+PGA +Y + +W + S +PG++++V
Sbjct: 210 WHKPASVLHNMVRAVADPWPGAFSYV-----GNQKFTVWSSRVHPHASKAQPGSVISV-- 262
Query: 214 HNGILVVCGKNVIKLLELQKNNKKKISATEFING 247
+L+ CG ++++ Q + + ++
Sbjct: 263 -APLLIACGDGALEIVTGQAGDGITMQGSQLAQT 295
Score = 88.7 bits (221), Expect = 5e-21
Identities = 14/103 (13%), Positives = 35/103 (33%), Gaps = 16/103 (15%)
Query: 1 MKIIFAGTSISAAAILDTLYNSEHNIVLILTKPDLHSGR-GMKLNFSPVKKYALKHSIKI 59
MK + ++ L + + I I T D G K + V + A + I +
Sbjct: 1 MKTVVFAYHDMGCLGIEALLAAGYEISAIFTHTD----NPGEKAFYGSVARLAAERGIPV 56
Query: 60 IQPISLKLNGKYHKIANETHKLLNKIEFDIMIVM--G-ILPED 99
P ++ + + ++ D++ ++ ++
Sbjct: 57 YAPDNVN--------HPLWVERIAQLSPDVIFSFYYRHLIYDE 91
>1z7e_A Protein aRNA; rossmann fold, OB-like fold, hydrolase; HET: ATP UGA;
3.00A {Escherichia coli} SCOP: b.46.1.1 c.2.1.2 c.65.1.1
Length = 660
Score = 139 bits (352), Expect = 7e-38
Identities = 30/154 (19%), Positives = 69/154 (44%), Gaps = 11/154 (7%)
Query: 95 ILPEDTSLTLQNKLEKLSKILIIDTIKKIEYDMTKLFFKPQSNIGESYAPLIKKNEAVLD 154
I P+D ++TL +KL ++ L+ T+ I++ + Q + +++ L+
Sbjct: 152 IAPDDIAITLHHKLCHAARQLLEQTLPAIKHG--NILEIAQRENEATCFGRRTPDDSFLE 209
Query: 155 WSLSAKTIMRKINAF-NPFPGAKTYYISYQNKKKFLKIWKAHALSIESTKKPGTILNVNF 213
W A + + A +P+PGA + N+K +W + S +PG++++V
Sbjct: 210 WHKPASVLHNMVRAVADPWPGA---FSYVGNQK--FTVWSSRVHPHASKAQPGSVISV-- 262
Query: 214 HNGILVVCGKNVIKLLELQKNNKKKISATEFING 247
+L+ CG ++++ Q + + ++
Sbjct: 263 -APLLIACGDGALEIVTGQAGDGITMQGSQLAQT 295
Score = 86.2 bits (214), Expect = 2e-19
Identities = 14/103 (13%), Positives = 35/103 (33%), Gaps = 16/103 (15%)
Query: 1 MKIIFAGTSISAAAILDTLYNSEHNIVLILTKPDLHSGR-GMKLNFSPVKKYALKHSIKI 59
MK + ++ L + + I I T D G K + V + A + I +
Sbjct: 1 MKTVVFAYHDMGCLGIEALLAAGYEISAIFTHTD----NPGEKAFYGSVARLAAERGIPV 56
Query: 60 IQPISLKLNGKYHKIANETHKLLNKIEFDIMIVMG---ILPED 99
P ++ + + ++ D++ ++ ++
Sbjct: 57 YAPDNVN--------HPLWVERIAQLSPDVIFSFYYRHLIYDE 91
>2bw0_A 10-FTHFDH, 10-formyltetrahydrofolate dehydrogenase; nucleotide
biosynthesis, oxidoreductase; 1.7A {Homo sapiens} SCOP:
b.46.1.1 c.65.1.1 PDB: 2cfi_A* 1s3i_A
Length = 329
Score = 125 bits (315), Expect = 3e-34
Identities = 38/163 (23%), Positives = 63/163 (38%), Gaps = 22/163 (13%)
Query: 95 ILPEDTSLTLQNK-LEKLSKILIIDTIKKIEYDMTKLFFKPQSNIGESYAPLIKKNEAVL 153
+LP+DT TL N+ L ++ ++ I K PQ G +Y + KK A +
Sbjct: 176 VLPDDTVSTLYNRFLFPEGIKGMVQAVRLIAEG--KAPRLPQPEEGATYEGIQKKETAKI 233
Query: 154 DWSLSAKTIMRKINAFNPFPGAKTYYISYQNKKKFLKIWKAH-----------ALSIEST 202
+W A+ I I + PGA T ++ L + + AL I
Sbjct: 234 NWDQPAEAIHNWIRGNDKVPGAWTEA-----CEQKLTFFNSTLNTSGLVPEGDALPIPGA 288
Query: 203 KKPGTILNVNFHNGILVVCGKNVIKLLELQKNNKKKISATEFI 245
+PG + IL ++ + +Q + K I A+ F
Sbjct: 289 HRPGVVTK---AGLILFGNDDKMLLVKNIQLEDGKMILASNFF 328
Score = 84.2 bits (209), Expect = 3e-19
Identities = 17/102 (16%), Positives = 36/102 (35%), Gaps = 12/102 (11%)
Query: 1 MKIIFAGTSISAAAILDTLYNSEHNIVLILTKPDLHSGRGMKLNFSPVKKYALKHSIKII 60
MKI G S+ + L H +V + T PD G+ P+ A K + +
Sbjct: 23 MKIAVIGQSLFGQEVYCHLRKEGHEVVGVFTVPD-KDGKA-----DPLGLEAEKDGVPVF 76
Query: 61 QPISLKLNGKYHKIANETHKLLNKIEFDIMIVM--G-ILPED 99
+ + G+ + + ++ ++ +P +
Sbjct: 77 KYSRWRAKGQALP---DVVAKYQALGAELNVLPFCSQFIPME 115
>1zgh_A Methionyl-tRNA formyltransferase; southeast collaboratory FO
structural genomics, PSI, protein structure initiative,
secsg; 2.05A {Clostridium thermocellum} SCOP: b.46.1.1
c.65.1.1
Length = 260
Score = 91.6 bits (228), Expect = 2e-22
Identities = 28/267 (10%), Positives = 68/267 (25%), Gaps = 80/267 (29%)
Query: 16 LDTLYNSEHNIVLILTKPDLHSGRGMKL-------------NFSPVKKYALKHSIKIIQP 62
+ + ++ H+ ++ + + K N +K+ ++ K
Sbjct: 1 MGSSHHHHHHSSGLVPRGSQSTSLYKKAGLMNIIIATTKSWNIKNAQKFKKENESKYNTT 60
Query: 63 ISLKLNGKYHKIANETH---------------KLLNKIEFDIMIVMGILPE--------- 98
I + + + ++ ++ M LP
Sbjct: 61 IITNKDELTFEKVKLINPEYILFPHWSWIIPKEIFENFTC-VVFHMTDLPFGRGGSPLQN 119
Query: 99 -------------------------------DTSLTLQNKLEKLSKILIIDTIKKIEYDM 127
D T + + SKI+ D I ++
Sbjct: 120 LIERGIKKTKISAIKVDGGIDTGDIFFKRDLDLYGTAEEIFMRASKIIFNDMIPELL--- 176
Query: 128 TKLFFKPQSNIGESYAPLIKKNEAVLDWSLSAKTIMRKINAFN--PFPGAKTYYISYQNK 185
TK + + K ++ + + I I + +P A +I Y
Sbjct: 177 TKRPVPQKQEGEATVFQRRKPEQSEISPDFDLEKIYDYIRMLDGEGYPRA---FIKYGKY 233
Query: 186 KKFLKIWKAHALSIESTKKPGTILNVN 212
+ L+ +A + I+ +
Sbjct: 234 R--LEFSRASMKN-GKIIADVEIIEGD 257
>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 = 44.7 bits (105), Expect = 2e-05
Identities = 33/183 (18%), Positives = 52/183 (28%), Gaps = 63/183 (34%)
Query: 9 SISAAAILDTLYNSEHNIVLILTKPDLHSGRGMKLNFSPVKKYALKHSIKIIQPISLK-L 67
IS L N N+V+ SG P P SL L
Sbjct: 367 EIS-------LVNGAKNLVV--------SG--------P--------------PQSLYGL 389
Query: 68 NGKYHKIANETHKLLNKIEFD---IMIVMGILPEDT---SLTLQNKLEKLSKILIIDTIK 121
N K + ++I F + LP + S L + ++K L+ + +
Sbjct: 390 NLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVS 449
Query: 122 ------KI-------EYDMTKLFFKPQSNIGESYAPLIKKNEAVLDWSLSAKTIMRKINA 168
+I D+ L +I E I + W + + I
Sbjct: 450 FNAKDIQIPVYDTFDGSDLRVL----SGSISERIVDCII--RLPVKWETTTQFKATHILD 503
Query: 169 FNP 171
F P
Sbjct: 504 FGP 506
Score = 42.7 bits (100), Expect = 8e-05
Identities = 50/260 (19%), Positives = 85/260 (32%), Gaps = 70/260 (26%)
Query: 38 GRGMKL-NFSPVKK----YALKH-------SI-KIIQ--PISLK-LNG--KYHKIANETH 79
G GM L S + A H SI I+ P++L G K +I
Sbjct: 1630 GMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRI----R 1685
Query: 80 KLLNKIEFDIM---------IVMGILPEDTSLTLQNKLEKLSK-------ILIIDTIKKI 123
+ + + F+ + I I TS T +++ LS + ++
Sbjct: 1686 ENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLM------ 1739
Query: 124 EY----DMTKLFFKPQSN------IGESYAPLIKKNEAVLDWSLSAKTI-MRKINAFNPF 172
E D+ P +GE YA L + V+ + + R +
Sbjct: 1740 EKAAFEDLKSKGLIPADATFAGHSLGE-YAALASLAD-VMSIESLVEVVFYRGMTMQVAV 1797
Query: 173 P----GAKTYYISYQNKKKFLKIWKAHALS--IES-TKKPGTIL---NVNFHNGILVVCG 222
P G Y + N + + AL +E K+ G ++ N N N V G
Sbjct: 1798 PRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAG 1857
Query: 223 --KNVIKLLELQKNNK-KKI 239
+ + + + K +KI
Sbjct: 1858 DLRALDTVTNVLNFIKLQKI 1877
Score = 40.0 bits (93), Expect = 5e-04
Identities = 50/274 (18%), Positives = 82/274 (29%), Gaps = 104/274 (37%)
Query: 11 SAAAILDTLYNSEH----------NIVLILTKPDLHSGRGMKLNFSPVKKYALKHSIKII 60
+A L L + NI+ L P +P K Y L
Sbjct: 190 FSAETLSELIRTTLDAEKVFTQGLNILEWLENPSN----------TPDKDY-LLSI---- 234
Query: 61 QPISLKLNG-----KY---HKIANETHKLLNKIEFDIM---------IVMGILPEDTSLT 103
PIS L G Y K+ T L + +V + + +
Sbjct: 235 -PISCPLIGVIQLAHYVVTAKLLGFTPGEL----RSYLKGATGHSQGLVTAVAIA-ETDS 288
Query: 104 LQNKLEKLSKILIIDTIKKIEYDMTKLFFKPQSNIG----ESYAPL----------IKKN 149
++ + K + + LFF IG E+Y ++ N
Sbjct: 289 WESFFVSVRKAITV------------LFF-----IGVRCYEAYPNTSLPPSILEDSLENN 331
Query: 150 E-------AVLDWSLSAKTIMRKINAFNP-FPGAKTYYISYQN-KKKF-----------L 189
E ++ + L+ + + +N N P K IS N K L
Sbjct: 332 EGVPSPMLSISN--LTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGL 389
Query: 190 KIW--KAHALS-IESTKKPGTILNVNFHNGILVV 220
+ KA A S ++ ++ P + + F N L V
Sbjct: 390 NLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPV 423
Score = 35.8 bits (82), Expect = 0.013
Identities = 28/148 (18%), Positives = 55/148 (37%), Gaps = 44/148 (29%)
Query: 4 IFAGTSI---SA----AAIL---DTLY------NSEHNIVLILTKPDLHSGR---GM-KL 43
FAG S+ +A A ++ + + V P GR GM +
Sbjct: 1758 TFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAV-----PRDELGRSNYGMIAI 1812
Query: 44 NFSPVKKYALKHSIK-IIQPISLKLNGKYHKIANETHKLLNKIEFDIMIVMGILPEDTSL 102
N V + +++ +++ + K G +I N N +E + G
Sbjct: 1813 NPGRVAASFSQEALQYVVERVG-KRTGWLVEIVN-----YN-VENQQYVAAG-------- 1857
Query: 103 TLQNKLEKLSKILIIDTIKKIEYDMTKL 130
L+ L+ ++ +L ++KI D+ +L
Sbjct: 1858 DLRA-LDTVTNVLNFIKLQKI--DIIEL 1882
>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 = 44.1 bits (103), Expect = 3e-05
Identities = 41/332 (12%), Positives = 90/332 (27%), Gaps = 118/332 (35%)
Query: 15 ILDTLYNSEH----NI---VLILTKP----DLHSGRGMK--------LNFSP-------- 47
+L + N++ N+ +L+ T+ D S + +P
Sbjct: 249 VLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL 308
Query: 48 ----VKKYALKHSIKIIQPISLKLNGK-----------YHKIANETHKLLNKIEFDIMIV 92
+ L + P L + + + + + KL IE + ++
Sbjct: 309 KYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCD--KLTTIIESSLNVL 366
Query: 93 -----------MGILPEDTSLTLQNKLEKLSKILIIDTIKKIEYDMTKLFFKPQSNIGES 141
+ + P + L ++ D IK + K S
Sbjct: 367 EPAEYRKMFDRLSVFPPSAHIP-----TILLSLIWFDVIKSDVMVVVNKLHK-YS----- 415
Query: 142 YAPLIKKNEAVLDWSL-----------SAKTIMRK--INAFNPF----------PGAKTY 178
L++K S+ + + + ++ +N P Y
Sbjct: 416 ---LVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQY 472
Query: 179 ---YISYQNKKKFLKIWKAHALSIESTKK----PGTILNVNF------HNGILVVCGKNV 225
+I + H +IE ++ L+ F H+ ++
Sbjct: 473 FYSHIGH------------HLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSI 520
Query: 226 IKLLELQKNNKKKISATEFIN-GCIKNIKYFI 256
+ L+ K K I + + I F+
Sbjct: 521 LNTLQQLKFYKPYICDNDPKYERLVNAILDFL 552
>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 = 35.7 bits (81), Expect = 0.005
Identities = 9/44 (20%), Positives = 16/44 (36%), Gaps = 15/44 (34%)
Query: 109 EKLSKILIIDTIKKIEYDMTKLFFKPQSNIGESYAPLIKKNEAV 152
EK +KK++ + KL + S AP + +
Sbjct: 18 EK-------QALKKLQASL-KL-YADDS------APALAIKATM 46
Score = 31.8 bits (71), Expect = 0.12
Identities = 10/26 (38%), Positives = 15/26 (57%), Gaps = 6/26 (23%)
Query: 183 QNKKKF---LKIW---KAHALSIEST 202
Q KK LK++ A AL+I++T
Sbjct: 20 QALKKLQASLKLYADDSAPALAIKAT 45
Score = 29.1 bits (64), Expect = 0.94
Identities = 7/25 (28%), Positives = 12/25 (48%), Gaps = 5/25 (20%)
Query: 48 VKKYALKHSIKIIQPIS---LKLNG 69
+KK L+ S+K+ S L +
Sbjct: 22 LKK--LQASLKLYADDSAPALAIKA 44
>3cvo_A Methyltransferase-like protein of unknown functio; rossman fold,
structural genomics, joint center for structur genomics,
JCSG; HET: MSE PG4; 1.80A {Silicibacter pomeroyi dss-3}
Length = 202
Score = 33.6 bits (76), Expect = 0.032
Identities = 12/79 (15%), Positives = 24/79 (30%)
Query: 62 PISLKLNGKYHKIANETHKLLNKIEFDIMIVMGILPEDTSLTLQNKLEKLSKILIIDTIK 121
P+S Y + D+++V G +L + + +L D +
Sbjct: 98 PVSDAKWRSYPDYPLAVWRTEGFRHPDVVLVDGRFRVGCALATAFSITRPVTLLFDDYSQ 157
Query: 122 KIEYDMTKLFFKPQSNIGE 140
+ + F IG
Sbjct: 158 RRWQHQVEEFLGAPLMIGR 176
>2l6f_A Focal adhesion kinase 1, linker1, paxillin, linke paxillin; FAT,
FAK, LD2, LD4, fusion protein, chimera protei
transferase,cell adhesion; NMR {Gallus gallus} PDB:
2l6g_A 2l6h_A
Length = 215
Score = 29.1 bits (64), Expect = 1.3
Identities = 25/141 (17%), Positives = 50/141 (35%), Gaps = 8/141 (5%)
Query: 45 FSPVKK--YALKHSIKIIQPISLKLNGKYHKIANETHKLLNKIEFDIMIVMGILPEDTSL 102
VK+ AL+ + + L H+ KLLN +++ M + +
Sbjct: 38 VPMVKEVGLALRTLLATVDESLPVLPASTHREIEMAQKLLNSDLAELINKMKLAQQYVMT 97
Query: 103 TLQNKLEK----LSKILIIDTIKKIE-YDMTKLFFKPQSNIGESYAPLIKKNEAVLDWSL 157
+LQ + +K + L +D ++ D +L QS +L
Sbjct: 98 SLQQEYKKQMLTAAHALAVDAKNLLDVIDQARLKMISQSRPHGGSGGSGSGGSGGSGSNL 157
Query: 158 S-AKTIMRKINAFNPFPGAKT 177
S ++ ++NA P + +
Sbjct: 158 SELDRLLLELNAVQHNPPSGS 178
>3gm3_A Protein tyrosine kinase 2 beta; four-helix bundle, transferase;
2.60A {Homo sapiens} PDB: 3gm1_A 3gm2_A
Length = 153
Score = 27.5 bits (60), Expect = 2.9
Identities = 11/59 (18%), Positives = 24/59 (40%)
Query: 52 ALKHSIKIIQPISLKLNGKYHKIANETHKLLNKIEFDIMIVMGILPEDTSLTLQNKLEK 110
L+ I + + L T KLLNK +++ M + ++ +L + ++
Sbjct: 60 TLRKLIGSVDDLLPSLPSSSRTEIEGTQKLLNKDLAELINKMRLAQQNAVTSLSEECKR 118
>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle
checkpoint, TPR motif, all-alpha domain, MAD3-like
domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}
Length = 202
Score = 27.7 bits (61), Expect = 3.6
Identities = 14/61 (22%), Positives = 22/61 (36%), Gaps = 5/61 (8%)
Query: 182 YQNKKKFLKIW--KAHALSIESTKKPGTILNVNFHNGILVVCGKNVI---KLLELQKNNK 236
Y+N +FLKIW + + + F+ GI KLLE +
Sbjct: 73 YRNDPRFLKIWIWYINLFLSNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFL 132
Query: 237 K 237
+
Sbjct: 133 E 133
>2h2m_A Protein MURR1, COMM domain-containing protein 1; all alpha-helical,
metal transport; NMR {Homo sapiens}
Length = 108
Score = 26.3 bits (57), Expect = 5.2
Identities = 15/63 (23%), Positives = 23/63 (36%)
Query: 140 ESYAPLIKKNEAVLDWSLSAKTIMRKINAFNPFPGAKTYYISYQNKKKFLKIWKAHALSI 199
E + P + K +L SA ++ AF K I+ K WK+H I
Sbjct: 46 EEFRPFLAKMRGILKSIASADMDFNQLEAFLTAQTKKQGGITSDQAAVISKFWKSHKTKI 105
Query: 200 EST 202
+
Sbjct: 106 RES 108
>1k04_A FADK 1, focal adhesion kinase 1; UP-DOWN-UP-DOWN four helical
bundle forming A helix-exchange transferase; 1.95A {Homo
sapiens} SCOP: a.24.14.1 PDB: 1k05_A 3b71_A 1ow6_A
1ow7_A 1ow8_A 1ktm_A 1qvx_A 1pv3_A 2ra7_A* 1k40_A
Length = 162
Score = 26.7 bits (58), Expect = 5.3
Identities = 12/59 (20%), Positives = 24/59 (40%)
Query: 52 ALKHSIKIIQPISLKLNGKYHKIANETHKLLNKIEFDIMIVMGILPEDTSLTLQNKLEK 110
AL+ + + L H+ KLLN +++ M + + +LQ + +K
Sbjct: 70 ALRTLLATVDETIPLLPASTHREIEMAQKLLNSDLGELINKMKLAQQYVMTSLQQEYKK 128
>3s44_A Alpha-2,3/2,6-sialyltransferase/sialidase; GT-B fold; HET: FN5;
1.45A {Pasteurella multocida} PDB: 2ilv_A* 2ex0_A
2ihj_A* 2ihk_A* 2ihz_A* 2iiq_A* 2ii6_A* 2iib_A* 2ex1_A*
2c83_A 2iy7_A* 2c84_A* 2iy8_A*
Length = 399
Score = 26.7 bits (58), Expect = 9.2
Identities = 26/127 (20%), Positives = 47/127 (37%), Gaps = 22/127 (17%)
Query: 2 KIIFAGTSISAAA--ILDTLYNSEHNIVLILTKP--DLHSGRGMKLNFSPVKKYALKHSI 57
K IF GT+ + + + N++ T+ DL G K+ F
Sbjct: 237 KFIFTGTTTWEGNTDVREYYAQQQLNLLNHFTQAEGDLFIGDHYKIYFKG---------- 286
Query: 58 KIIQPISLKLNGKYHKIANETHKLLNKIEFDIMIVMGILPE-----DTSLTLQNKLEKLS 112
P ++N A + I F+++++ G+LP+ +SL EK+S
Sbjct: 287 ---HPRGGEINDYILNNAKNITNIPANISFEVLMMTGLLPDKVGGVASSLYFSLPKEKIS 343
Query: 113 KILIIDT 119
I+
Sbjct: 344 HIIFTSN 350
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 0.384
Gapped
Lambda K H
0.267 0.0774 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,759,443
Number of extensions: 220237
Number of successful extensions: 584
Number of sequences better than 10.0: 1
Number of HSP's gapped: 554
Number of HSP's successfully gapped: 84
Length of query: 258
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 166
Effective length of database: 4,133,061
Effective search space: 686088126
Effective search space used: 686088126
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 (21.8 bits)
S2: 56 (25.3 bits)