RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13278
(174 letters)
>2f6h_X Myosin-2, type V myosin; mysoin V, cargo binding, cargo transport,
vacuole binding, secreatory vescIle binding, structural
protein; 2.25A {Saccharomyces cerevisiae}
Length = 419
Score = 69.5 bits (169), Expect = 1e-14
Identities = 31/121 (25%), Positives = 51/121 (42%), Gaps = 15/121 (12%)
Query: 68 ASQLLQARK-TQEDVNTVCEMCNKMSTNQIIKLLNLYTPADDYEERISQSFIHLIQEKLK 126
++LLQ RK T ED++ + +C ++ Q+ KL++ Y DYE I Q + + + +K
Sbjct: 291 TAKLLQVRKYTIEDIDILRGICYSLTPAQLQKLISQYQV-ADYESPIPQEILRYVADIVK 349
Query: 127 ER----------PQSEQSTLLMDTKFNFSVRFPFSA---SNIQLEHIEIPDVLQVPMLKK 173
+ E S+ + T PFS IP L +P K+
Sbjct: 350 KEAALSSSGNDSKGHEHSSSIFITPETGPFTDPFSLIKTRKFDQVEAYIPAWLSLPSTKR 409
Query: 174 I 174
I
Sbjct: 410 I 410
>3mmi_A Myosin-4; globular tail, dilute domain, motor protein; 2.30A
{Saccharomyces cerevisiae}
Length = 386
Score = 68.2 bits (166), Expect = 3e-14
Identities = 16/108 (14%), Positives = 39/108 (36%), Gaps = 8/108 (7%)
Query: 68 ASQLLQARK-TQEDVNTVCEMCNKMSTNQIIKLLNLYTPADDYEERISQSFIHLIQEKLK 126
A ++LQ + + + + ++ QI +L Y PA+ E + ++ + +K
Sbjct: 274 AVKILQLKISNLNEFKLLFDFWYALNPAQIQAILLKYKPANKGEAGVPNEILNYLANVIK 333
Query: 127 ERPQSEQSTLLMDTKFNFSVRFPFSASNIQLEHIEIPDVLQVPMLKKI 174
L + K + F ++ L + + Q + +
Sbjct: 334 RE------NLSLPGKMEIMLSAQFDSAKNHLR-YDTSAITQNSNTEGL 374
>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 = 47.9 bits (113), Expect = 4e-07
Identities = 30/170 (17%), Positives = 57/170 (33%), Gaps = 60/170 (35%)
Query: 7 RDLNRIKSVHKVASQLLQARKTQEDVNTVCEM--CNKMSTNQVRAVSTSQVRDLNRIKSV 64
+++R++ K+ LL+ R + +V + + K+
Sbjct: 129 YNVSRLQPYLKLRQALLELRPAK-NV-LIDGVLGSG---------------------KTW 165
Query: 65 HKVASQLLQARKTQEDVNTVCEMCNKM---------STNQIIKLL-NLYTPAD-DYEERI 113
VA + + K Q C+M K+ S ++++L L D ++ R
Sbjct: 166 --VALDVCLSYKVQ------CKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS 217
Query: 114 SQSF-----IHLIQEKLKE---RPQSEQSTLLMD--------TKFNFSVR 147
S IH IQ +L+ E L++ FN S +
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCK 267
Score = 34.4 bits (78), Expect = 0.016
Identities = 20/130 (15%), Positives = 43/130 (33%), Gaps = 32/130 (24%)
Query: 30 EDVNTVCEMC-NKMSTNQVRAVSTSQVRDLNRI--KSVHKVASQLLQ----ARKTQEDVN 82
+ + T+ E N + + R L+ + S + + LL + +
Sbjct: 353 DKLTTIIESSLNVLEPAEYRK----MFDRLS-VFPPSA-HIPTILLSLIWFDVIKSDVMV 406
Query: 83 TVCEMCNKMSTNQIIKLLNLYTPADDYEERISQSFIHLIQEKLKERPQSEQS---TLLMD 139
V ++ L+ E IS I I +LK + ++E + +++
Sbjct: 407 VVNKLHKY-------SLVEK----QPKESTIS---IPSIYLELKVKLENEYALHRSIV-- 450
Query: 140 TKFNFSVRFP 149
+N F
Sbjct: 451 DHYNIPKTFD 460
>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 = 45.0 bits (106), Expect = 4e-06
Identities = 34/151 (22%), Positives = 55/151 (36%), Gaps = 40/151 (26%)
Query: 49 AVSTSQVRDLNRIKSVHKVASQLLQARK-TQEDVNTVCEMCNKM--STNQI-IKLLNLYT 104
++ S + D +++ V S +L TQE V N + Q+ I L+N
Sbjct: 318 SLPPSILED--SLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVN--G 373
Query: 105 PADDYEER---IS---QSFIHLIQ--EKLKERPQSEQSTLLMDT-KFNFSVRF-----PF 150
+ +S QS L K K +QS + K FS RF PF
Sbjct: 374 A------KNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPF 427
Query: 151 ------SASNIQLEHIEIPDV------LQVP 169
AS++ + + +V +Q+P
Sbjct: 428 HSHLLVPASDLINKDLVKNNVSFNAKDIQIP 458
Score = 40.0 bits (93), Expect = 2e-04
Identities = 20/104 (19%), Positives = 36/104 (34%), Gaps = 36/104 (34%)
Query: 28 TQEDVNTVCEMCNKMSTNQVRAV----STSQVRDLNRIKSVHKVASQLLQARKTQEDVNT 83
+QE + V E K + V V Q VA+ L+A ++T
Sbjct: 1822 SQEALQYVVERVGKRTGWLVEIVNYNVENQQY-----------VAAGDLRA------LDT 1864
Query: 84 VCEMCNKMSTNQIIKLLNLYTPADDYEERISQSFIHLIQEKLKE 127
V + N + + I ++ L + S S E+++
Sbjct: 1865 VTNVLNFIKLQK-IDIIEL---------QKSLSL-----EEVEG 1893
Score = 35.4 bits (81), Expect = 0.008
Identities = 30/167 (17%), Positives = 52/167 (31%), Gaps = 55/167 (32%)
Query: 15 VHKVASQLLQ-ARKTQEDVNTVCEMCNKMSTNQVRAVSTSQVRDLNRIKSVHKVASQLLQ 73
+H +A++LLQ T + + N + A ++ R ++ + S L +
Sbjct: 101 IHALAAKLLQENDTTLVKTKELIK-------NYITARIMAK-RPFDKKSN-----SALFR 147
Query: 74 ARKT-----------QEDVNT-VCEMCNKMSTNQIIKLLNLYTPADDYEERISQSFIHLI 121
A Q + + E L +LY Y + I
Sbjct: 148 AVGEGNAQLVAIFGGQGNTDDYFEE------------LRDLY---QTYHVLV-GDLIKFS 191
Query: 122 QEKLKERPQSEQSTLLMDTKFNFSVRFPFSASNIQ--LEHIE-IPDV 165
E L E ++ D + F+ NI LE+ PD
Sbjct: 192 AETLSELIRTTL-----DAEKVFTQGL-----NILEWLENPSNTPDK 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 = 29.1 bits (64), Expect = 0.41
Identities = 6/17 (35%), Positives = 7/17 (41%), Gaps = 4/17 (23%)
Query: 94 NQIIKL---LNLYTPAD 107
+ KL L LY D
Sbjct: 20 QALKKLQASLKLYAD-D 35
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 27.7 bits (61), Expect = 1.9
Identities = 8/77 (10%), Positives = 18/77 (23%), Gaps = 34/77 (44%)
Query: 24 QARKTQEDVNTVCEMCNKMSTNQVRAVSTSQVRDLNRIKSVHKVASQLLQARKTQEDVN- 82
R ++ C C V E +
Sbjct: 12 GRRGPNLNIVLTCPECKVYPPKIV-------------------------------ERFSE 40
Query: 83 --TVCEMCNKMSTNQII 97
VC +C + +++++
Sbjct: 41 GDVVCALCGLVLSDKLV 57
Score = 26.2 bits (57), Expect = 5.4
Identities = 4/43 (9%), Positives = 11/43 (25%), Gaps = 12/43 (27%)
Query: 73 QARKTQEDVNTVCEMCNKMSTNQIIKLLNLYTPADDYE--ERI 113
R ++ C C I+ + + + +
Sbjct: 12 GRRGPNLNIVLTCPECKVYPPK-IV---------ERFSEGDVV 44
>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1
domain, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.58.7.1
Length = 112
Score = 26.2 bits (58), Expect = 3.8
Identities = 7/39 (17%), Positives = 21/39 (53%), Gaps = 3/39 (7%)
Query: 89 NKMSTNQIIKLLNLYTPADDYEERISQSFIHLIQEKLKE 127
++M +++ + N++ P D ++ ++ I+E L+
Sbjct: 10 SRMRHERVVIIKNMFHPMDFEDD---PLVLNEIREDLRV 45
>3hi0_A Putative exopolyphosphatase; 17739545, structural genomics,
center for structural genomics, JCSG, protein structure
INI PSI-2; HET: MSE; 2.30A {Agrobacterium tumefaciens
str}
Length = 508
Score = 26.1 bits (58), Expect = 7.3
Identities = 2/21 (9%), Positives = 10/21 (47%)
Query: 37 EMCNKMSTNQVRAVSTSQVRD 57
+ + ++ ++T+ R+
Sbjct: 78 VLSEQAQAQKLYVLATAAARE 98
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
0.317 0.127 0.341
Gapped
Lambda K H
0.267 0.0730 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,223,118
Number of extensions: 107989
Number of successful extensions: 262
Number of sequences better than 10.0: 1
Number of HSP's gapped: 256
Number of HSP's successfully gapped: 19
Length of query: 174
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 87
Effective length of database: 4,272,666
Effective search space: 371721942
Effective search space used: 371721942
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 (24.6 bits)