RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7787
(463 letters)
>2k0a_A PRE-mRNA-splicing factor RDS3; zinc finger, topological knot, mRNA
processing, nucleus, spliceosome, RNA binding protein;
NMR {Saccharomyces cerevisiae}
Length = 109
Score = 112 bits (281), Expect = 3e-30
Identities = 37/67 (55%), Positives = 45/67 (67%), Gaps = 1/67 (1%)
Query: 322 GLTIGRLCEKCDGKCVICDSYVRPCTLVRICDECNYGSYQGRCVICG-GPGVSDAYYCKE 380
G+ G LCEKCDGKC ICDSYVRP VR+C+ C++G C+IC GV+DA+YC E
Sbjct: 18 GVQTGLLCEKCDGKCPICDSYVRPKRKVRVCENCSFGKQAKNCIICNLNVGVNDAFYCWE 77
Query: 381 CTIQEKD 387
C KD
Sbjct: 78 CCRLGKD 84
Score = 111 bits (278), Expect = 9e-30
Identities = 36/66 (54%), Positives = 43/66 (65%), Gaps = 1/66 (1%)
Query: 12 SAIGRLCEKCDGKCVICDSYVRPCTLVRICDECNYGSYQGRCVICG-GPGVSDAYYCKEC 70
G LCEKCDGKC ICDSYVRP VR+C+ C++G C+IC GV+DA+YC EC
Sbjct: 19 VQTGLLCEKCDGKCPICDSYVRPKRKVRVCENCSFGKQAKNCIICNLNVGVNDAFYCWEC 78
Query: 71 TIQEKD 76
KD
Sbjct: 79 CRLGKD 84
>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 = 56.0 bits (134), Expect = 2e-08
Identities = 57/371 (15%), Positives = 113/371 (30%), Gaps = 91/371 (24%)
Query: 30 SYVRPCTLV--RICDECNYGSYQGRC---VICGGPGVSD---AYYCKECTIQEKDVSTVE 81
Y C LV + + + ++ C + V+D A ++ ++
Sbjct: 242 PYEN-CLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP 300
Query: 82 PQFYELIGTKGLCLSTLVMAPWVATPEAEC---PQNSKLIAGKKKSCGELDPGPPEWRNA 138
+ K L L L P P P+ +IA + G W N
Sbjct: 301 DE------VKSLLLKYLDCRP-QDLPREVLTTNPRRLSIIAE------SIRDGLATWDN- 346
Query: 139 LSGFEKQMFEIEQHRLIVGLVDEGGGQACL----PTAPRT--TD----PGNRTIRTMMTM 188
++ + + +I ++ L P R P + I T+
Sbjct: 347 ---WKHVNCD-KLTTII---------ESSLNVLEPAEYRKMFDRLSVFPPSAHI---PTI 390
Query: 189 LLQ-FWLGLKVMDVTLLTALKKRFSLLQALQQVDNLSLLLHVFHFLNHIHTR-----HYS 242
LL W + DV ++ ++SL++ +Q ++ + + + H S
Sbjct: 391 LLSLIWFDVIKSDVMVVVNKLHKYSLVE--KQPKESTISIPSIYLELKVKLENEYALHRS 448
Query: 243 VIDSFFKAQQEDEIFGSSKTKAIKYSSSITSVHI-FRLHPVKNGQTSSGF-----DL--L 294
++D + + + +Y S HI L +++ + + F D L
Sbjct: 449 IVDH-YNIPKTFDSDDLIPPYLDQYFYS----HIGHHLKNIEHPERMTLFRMVFLDFRFL 503
Query: 295 SKTSRRS-----CPLSLGKILK-LRL--------EPHSHSLGLTIGRLCEKCDGKCVICD 340
+ R S+ L+ L+ +P L I K + +
Sbjct: 504 EQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSK 563
Query: 341 SYVRPCTLVRI 351
L+RI
Sbjct: 564 Y----TDLLRI 570
>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 = 3e-08
Identities = 76/384 (19%), Positives = 126/384 (32%), Gaps = 125/384 (32%)
Query: 10 HISAIGRLCEKCDGKCV----ICDSYV-------RPCT------LVRICDECNYGSYQGR 52
H + +L ++ D V + +Y+ RP L R E N
Sbjct: 102 H-ALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLV--- 157
Query: 53 CVICGGPGVSDAYYCKECTIQEKDVSTVEPQFYELIGTKGLCLSTLVMAP---------- 102
I GG G +D Y+ +E +++ T +LI LS L+
Sbjct: 158 -AIFGGQGNTDDYF-EE--LRDL-YQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQG 212
Query: 103 -----WVATPE--------AECPQNSKLI-----AGKKKSCGELDPGPPEWRNALSGFEK 144
W+ P P + LI A + L P E R+ L G
Sbjct: 213 LNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKG--- 269
Query: 145 QMFEIEQHRLIVGLVDEGGGQACLPTAPRTTDPGNRTIRTMMTMLLQFWLGLKVMDVTLL 204
H GLV A + + ++R +T+L F++G++ +
Sbjct: 270 ----ATGH--SQGLV-----TAVAIAETDSWESFFVSVRKAITVL--FFIGVRCYEAYPN 316
Query: 205 TALKKRFSLLQALQQVDN----LSLLLHVFHFLNHIHTRHYSVIDSFFKAQQEDEIFGSS 260
T+L S+L+ ++N S +L + + + + Q +D +
Sbjct: 317 TSL--PPSILE--DSLENNEGVPSPMLSI---------SNLT------QEQVQDYV---- 353
Query: 261 KTKAIKYSSSITSVHIFRLHPVKNGQTS---SGF--DL--LSKTSRR-SCPLSL--GKIL 310
K + + V I + NG + SG L L+ T R+ P L +I
Sbjct: 354 -NKTNSHLPAGKQVEI----SLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIP 408
Query: 311 ----KLRL--------EP-HSHSL 321
KL+ P HSH L
Sbjct: 409 FSERKLKFSNRFLPVASPFHSHLL 432
Score = 44.7 bits (105), Expect = 6e-05
Identities = 51/284 (17%), Positives = 90/284 (31%), Gaps = 78/284 (27%)
Query: 233 LNHIHTRH-YSV-IDSFFKAQQEDEIFGSSKTKAIKYSSSITSVHIFRLHPVKNGQTSSG 290
L+H H V SFF A Q E F + + + + + ++
Sbjct: 11 LSHGSLEHVLLVPTASFFIASQLQEQFNKILPEP---TEGFAA----------DDEPTTP 57
Query: 291 FDLLSK----TSRRSCPLSLGK---ILKLRLEP-HS--------HSLGLTIGRLCEKCDG 334
+L+ K S P +G+ +L L L + H+L + + +
Sbjct: 58 AELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLV 117
Query: 335 KC-VICDSYV-------RPCT------LVRICDECNYGSYQGRCVICGGPGVSDAYYCKE 380
K + +Y+ RP L R E N I GG G +D Y+ +E
Sbjct: 118 KTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLV----AIFGGQGNTDDYF-EE 172
Query: 381 CTIQE---------KD-VSTVEPQFYELI-GTKGCSIVFQKNTYWDIF-----------V 418
+++ D + ELI T VF + +I
Sbjct: 173 --LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQG--LNILEWLENPSNTPDK 228
Query: 419 NTLSTLSIATCLNGFGTCAEFMSVEYCYQRNWHKQAVTSVIIGL 462
+ L ++ I+ L G A ++ + + S + G
Sbjct: 229 DYLLSIPISCPLIGVIQLAHYVVT--AKLLGFTPGELRSYLKGA 270
>3mjo_A Ribonucleotide reductase subunit R2F; Mn ribonucleotide reductase,
RNR, radical enzyme, split SIGN metallocofactor; 1.36A
{Corynebacterium ammoniagenes} PDB: 1uzr_A*
Length = 296
Score = 30.4 bits (69), Expect = 1.00
Identities = 7/32 (21%), Positives = 13/32 (40%), Gaps = 1/32 (3%)
Query: 227 LHVFHFLNHIHTRHYS-VIDSFFKAQQEDEIF 257
F+ +H + YS + + Q +E F
Sbjct: 100 YTNIAFMESVHAKSYSNIFMTLASTPQINEAF 131
>4dr0_A Ribonucleoside-diphosphate reductase subunit beta; ribonucleotide
reductase, manganese, oxidoreductase; 1.90A {Bacillus
subtilis}
Length = 350
Score = 30.4 bits (69), Expect = 1.3
Identities = 7/30 (23%), Positives = 14/30 (46%), Gaps = 1/30 (3%)
Query: 234 NHIHTRHYS-VIDSFFKAQQEDEIFGSSKT 262
N +H + YS + + + +E+F K
Sbjct: 119 NAVHAKSYSNIFMTLAPTETINEVFEWVKQ 148
>3dhz_A Ribonucleotide reductase subunit R2F; metal free, hydrogen bond,
metal binding protein; 1.63A {Corynebacterium
ammoniagenes} SCOP: a.25.1.2 PDB: 1kgo_A 1kgp_A 1oqu_A
1kgn_A
Length = 329
Score = 30.0 bits (68), Expect = 1.4
Identities = 16/97 (16%), Positives = 31/97 (31%), Gaps = 20/97 (20%)
Query: 223 LSLLLHVFHFLNHIHTRHYS-VIDSFFKAQQEDEIFGSSKT-KAIKYSSSITSVHIFRLH 280
+ F+ +H + YS + + Q +E F S+ + ++ + I +
Sbjct: 97 EEAVYTNIAFMESVHAKSYSNIFMTLASTPQINEAFRWSEENENLQRKAKIIMSYYNGDD 156
Query: 281 PVKNG---------QTSSGFDLLSKTSRRSCPLSLGK 308
P+K SGF P+ L
Sbjct: 157 PLKKKVASTLLESFLFYSGF---------YLPMYLSS 184
>2rcc_A Ribonucleoside-diphosphate reductase subunit beta; NP_241368.1,
putative class I ribonucleotide reductase,
ribonucleotide reductase; HET: MSE PGE PG4; 1.90A
{Bacillus halodurans c-125}
Length = 346
Score = 29.9 bits (68), Expect = 1.8
Identities = 21/102 (20%), Positives = 36/102 (35%), Gaps = 26/102 (25%)
Query: 187 TMLLQFWLGLKV-M--DVTL---LTALKKR--------FSLLQALQQVDNLSLLLHV--- 229
ML FW ++ M D LT ++ + L ++Q ++ ++
Sbjct: 47 NMLANFWTPFEINMSHDAKQFPTLTETEQEAFKKIIGLLAFLDSVQTDYSMRAAEYLTDS 106
Query: 230 --------FHFLNHIHTRHYS-VIDSFFKAQQEDEIFGSSKT 262
F +H + YS V+ S +DEIF K
Sbjct: 107 SLAALMSVLSFQEVVHNQSYSYVLSSLVPKATQDEIFEYWKH 148
>1afp_A Antifungal protein from aspergillus giganteus; NMR {Aspergillus
giganteus} SCOP: g.26.1.1
Length = 51
Score = 26.2 bits (57), Expect = 4.1
Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 23 GKCVICDSYVRPCTLVRICDECNYGSYQGRC 53
GK IC YV+ C R +C + SY+G+C
Sbjct: 21 GKTAICKCYVKKCP--RDGAKCEFDSYKGKC 49
Score = 26.2 bits (57), Expect = 4.1
Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 2/31 (6%)
Query: 334 GKCVICDSYVRPCTLVRICDECNYGSYQGRC 364
GK IC YV+ C R +C + SY+G+C
Sbjct: 21 GKTAICKCYVKKCP--RDGAKCEFDSYKGKC 49
>3v98_A Arachidonate 5-lipoxygenase; dioxygenase, oxidoreductase; 2.07A
{Homo sapiens} PDB: 3v99_A* 3o8y_A 3v92_B
Length = 691
Score = 28.7 bits (63), Expect = 4.5
Identities = 9/46 (19%), Positives = 14/46 (30%), Gaps = 2/46 (4%)
Query: 301 SCPLSLGKILKLRLEPHSHSLGLTIGRLCEKCDGKCVICDSYVRPC 346
+ LG+I +R+ G + K D PC
Sbjct: 74 TVDEELGEIQLVRI--EKRKYGSNDDWYLKYITLKTPHGDYIEFPC 117
>2hxr_A HTH-type transcriptional regulator CYNR; CYNR transcriptional
regulator LYSR struc genomics, PSI-2, protein structure
initiative; 2.05A {Escherichia coli} PDB: 3hfu_A
Length = 238
Score = 27.9 bits (63), Expect = 6.4
Identities = 8/37 (21%), Positives = 12/37 (32%)
Query: 147 FEIEQHRLIVGLVDEGGGQACLPTAPRTTDPGNRTIR 183
E ++ L+ LP A T G + I
Sbjct: 158 IEANSISAVLELIRRTSLSTLLPAAIATQHDGLKAIS 194
>1igr_A Insulin-like growth factor receptor 1; hormone receptor, insulin
receptor family; HET: NAG FUC BMA MAN; 2.60A {Homo
sapiens} SCOP: c.10.2.5 c.10.2.5 g.3.9.1
Length = 478
Score = 27.9 bits (61), Expect = 8.2
Identities = 11/37 (29%), Positives = 14/37 (37%), Gaps = 3/37 (8%)
Query: 18 CEKCDGKCVICDSYVRPCTLVRICDECNYGSYQGRCV 54
E C +C+ S T C C + Y G CV
Sbjct: 198 NECCHPECLGSCSAPDNDT---ACVACRHYYYAGVCV 231
Score = 27.9 bits (61), Expect = 8.2
Identities = 11/37 (29%), Positives = 14/37 (37%), Gaps = 3/37 (8%)
Query: 329 CEKCDGKCVICDSYVRPCTLVRICDECNYGSYQGRCV 365
E C +C+ S T C C + Y G CV
Sbjct: 198 NECCHPECLGSCSAPDNDT---ACVACRHYYYAGVCV 231
>2hr7_A Insulin receptor; hormone receptor, leucine rich repeat,
transferase; HET: NAG BMA MAN FUC P33; 2.32A {Homo
sapiens}
Length = 486
Score = 27.9 bits (61), Expect = 8.8
Identities = 8/51 (15%), Positives = 12/51 (23%)
Query: 21 CDGKCVICDSYVRPCTLVRICDECNYGSYQGRCVICGGPGVSDAYYCKECT 71
C C R Y + +C+ G + CT
Sbjct: 252 RCVNFSFCQDLHHKCKNSRRQGCHQYVIHNNKCIPECPSGYTMNSSNLLCT 302
Score = 27.9 bits (61), Expect = 8.8
Identities = 8/51 (15%), Positives = 12/51 (23%)
Query: 332 CDGKCVICDSYVRPCTLVRICDECNYGSYQGRCVICGGPGVSDAYYCKECT 382
C C R Y + +C+ G + CT
Sbjct: 252 RCVNFSFCQDLHHKCKNSRRQGCHQYVIHNNKCIPECPSGYTMNSSNLLCT 302
>3ask_A E3 ubiquitin-protein ligase UHRF1; histone reader modules,
epigenetic regulation, trimethylaion of lysine residue,
ligase-DNA binding protein; HET: M3L; 2.90A {Homo
sapiens}
Length = 226
Score = 27.4 bits (60), Expect = 9.7
Identities = 17/99 (17%), Positives = 31/99 (31%), Gaps = 4/99 (4%)
Query: 261 KTKAIKYSSSITSVHIFRLHPVKNGQTSSGFDLLSKTSRRSCPLSLGKI-LKLRLEPHSH 319
K ++ ++ N D + K R + ++ + P
Sbjct: 103 SRKRETRTARELYANVVLGDDSLNDCRIIFVDEVFKIERPGEGSPMVDNPMRRKSGPSCK 162
Query: 320 SLGLTIGRLCEKCDGKCVICDSYVRPCTLVRICDECNYG 358
+ RLC C C +C P + +CDEC+
Sbjct: 163 HCKDDVNRLCRVC--ACHLCGGRQDPDKQL-MCDECDMA 198
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
0.324 0.139 0.445
Gapped
Lambda K H
0.267 0.0713 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,034,987
Number of extensions: 416789
Number of successful extensions: 978
Number of sequences better than 10.0: 1
Number of HSP's gapped: 928
Number of HSP's successfully gapped: 127
Length of query: 463
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 366
Effective length of database: 3,993,456
Effective search space: 1461604896
Effective search space used: 1461604896
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: 41 (22.0 bits)
S2: 59 (26.5 bits)